Mercurial > repos > brasset_jensen > srnapipe
changeset 64:967512924317 draft
planemo upload for repository https://github.com/GReD-Clermont/sRNAPipe/ commit 410509088292be0687b8da3ea3bb75e72866a87d
author | brasset_jensen |
---|---|
date | Mon, 28 Jan 2019 11:57:15 -0500 |
parents | 11708af40030 |
children | 0e9adbd82bb4 |
files | README.rst bin/Rcall.pm bin/align.pm bin/css/bootstrap-responsive.css bin/css/bootstrap-table.css bin/css/bootstrap.css bin/html.pm bin/js/bootstrap-table.js bin/js/bootstrap.min.js bin/js/filter.js bin/js/jquery.galleriffic.js bin/js/jquery.js bin/js/jquery.opacityrollover.js bin/ppp.pm bin/resize.pm bin/sRNAPipe.pl bin/subgroups.pm lib/sRNAPipe.pm lib/sRNAPipe/Rcall.pm lib/sRNAPipe/align.pm lib/sRNAPipe/css/bootstrap-responsive.css lib/sRNAPipe/css/bootstrap-table.css lib/sRNAPipe/css/bootstrap.css lib/sRNAPipe/html.pm lib/sRNAPipe/js/bootstrap-table.js lib/sRNAPipe/js/bootstrap.min.js lib/sRNAPipe/js/filter.js lib/sRNAPipe/js/jquery.galleriffic.js lib/sRNAPipe/js/jquery.js lib/sRNAPipe/js/jquery.opacityrollover.js lib/sRNAPipe/ppp.pm lib/sRNAPipe/resize.pm lib/sRNAPipe/subgroups.pm sRNAPipe.xml |
diffstat | 34 files changed, 13903 insertions(+), 13852 deletions(-) [+] |
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--- a/README.rst Thu Jan 24 13:09:46 2019 -0500 +++ b/README.rst Mon Jan 28 11:57:15 2019 -0500 @@ -15,7 +15,7 @@ Prerequisites ============= -1. Unix system with A Galaxy server (release july 2014 or later installed) +1. Unix system with A Galaxy server (release 16.01 or later installed) 2. Some tools are used by sRNAPipe and must be installed and added to the Path.
--- a/bin/Rcall.pm Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,136 +0,0 @@ -package Rcall; - -use strict; -use warnings; -use Statistics::R; - -use Exporter; -our @ISA = qw(Exporter); -our @EXPORT_OK = qw( &histogram &pie_chart &bg_to_png ); - -sub histogram -{ - my ($size_hashR, $out_png, $size) = @_; - my (@abs, @ord); - my $i = 0; - foreach my $k (sort {$a <=> $b} keys %{$size_hashR}) - { - my $percentage = 0; - $percentage = $size_hashR->{$k} * 100 / $size if $size != 0; - $abs[$i] = $k ; $ord[$i] = $percentage; $i++; - } - my $abs = join (",", @abs ); - my $ord = join (",", @ord ); - if (scalar(@abs) != 0) - { - - my $R = Statistics::R->new(); - $R->startR; - $R->send( - qq`library(ggplot2) - percentage = c($ord) - size =c($abs) - min = min(size) - max = max(size) - dat = data.frame(size,percentage) - png(filename=\"$out_png\", width = 640, height = 640) - c = ggplot(dat,aes(size,percentage)) - c + geom_bar(stat="identity") + scale_x_continuous(breaks=min:max)+theme( axis.text.x = element_text(angle=90, hjust=0.5, size=20), axis.text.y = element_text( size=20 ), axis.title.x = element_text( size=25, face="bold"), axis.title.y = element_text( size=25, face="bold") ) - dev.off()`); - $R->stopR(); - - } -} - -sub bg_to_png -{ - my ( $fai, $bgP, $bgM, $dir, $sb ) = @_; - my $R = Statistics::R->new(); - $R->startR; - $R->send( - qq`library('Sushi') - fai =read.table("$fai") - if ( file.info("$bgP")\$size !=0 ) - { - bgP = read.table("$bgP") - } else { bgP = data.frame(factor(),integer()) } - - if ( file.info("$bgM")\$size !=0 ) - { - bgM = read.table("$bgM") - } else { bgM = data.frame(factor(),integer()) } - - f_both = function(chr,end) { - jpeg( paste0("$dir",as.character(chr),".png"), quality=100) - par(mfrow=c(2,1),mar=c(1,10,1,3)) - plotBedgraph(bgP, chrom=chr,chromstart=0,chromend=end,transparency=.50, color=SushiColors(2)(2)[1]) - axis(side=2,las=2,tcl=.2) - mtext("Scaled Read Depth",side=2,line=4,cex=1,font=2) - plotBedgraph(bgM, chrom=chr,chromstart=0,chromend=end,transparency=.50, flip=TRUE, color=SushiColors(2)(2)[2]) - labelgenome(chrom=chr,chromstart=0,chromend=end,side=3,n=3,scale="$sb", line=0, chromline = 0.5, scaleline = 0.5, scaleadjust =1.05, chromadjust = -0.4) - axis(side=2,las=2,tcl=.2,at=pretty(par("yaxp")[c(1,2)]),labels=-1*pretty(par("yaxp")[c(1,2)])) - mtext("Scaled Read Depth",side=2,line=4.5,cex=1,font=2) - dev.off() - } - - f_plus = function(chr,end) { - jpeg( paste0("$dir",as.character(chr),".png"), quality=100) - plotBedgraph(bgP, chrom=chr,chromstart=0,chromend=end,transparency=.50, color=SushiColors(2)(2)[1]) - labelgenome(chrom=chr,chromstart=0,chromend=end,n=3,scale="$sb", line=0, chromline = 0.5, scaleline = 0.5, scaleadjust =1.05, chromadjust = -0.4) - axis(side=2,las=2,tcl=.2) - mtext("Scaled Read Depth",side=2,line=4,cex=1,font=2) - dev.off() - } - - f_minus = function(chr,end) { - jpeg( paste0("$dir",as.character(chr),".png"), quality=100) - plotBedgraph(bgM, chrom=chr,chromstart=0,chromend=end,transparency=.50, flip=TRUE, color=SushiColors(2)(2)[2]) - labelgenome(chrom=chr,chromstart=0,chromend=end,n=3,scale="$sb", line=0, chromline = 0.5, scaleline = 0.5, scaleadjust =1.05, chromadjust = -0.4) - axis(side=2,las=2,tcl=.2,at=pretty(par("yaxp")[c(1,2)]),labels=-1*pretty(par("yaxp")[c(1,2)])) - mtext("Scaled Read Depth",side=2,line=4.5,cex=1,font=2) - dev.off() - } - - fai_b = fai[fai\$V1 %in% intersect(bgM\$V1,bgP\$V1), ] - mapply( f_both, fai_b\$V1, fai_b\$V2) - - fai_p = fai[fai\$V1 %in% setdiff(bgP\$V1,bgM\$V1), ] - mapply( f_plus, fai_p\$V1, fai_p\$V2) - - fai_m = fai[fai\$V1 %in% setdiff(bgM\$V1,bgP\$V1), ] - mapply( f_minus, fai_m\$V1, fai_m\$V2) `); - - $R->stopR(); -} - -sub pie_chart -{ - my $dir = shift; - my $in = $dir.'repartition.txt'; - my $out = $dir.'pie_chart.png'; - - my $R = Statistics::R->new(); - $R->startR; - $R->send( - qq` - library(plotrix) - library(RColorBrewer) - R =read.table("$in",header=T) - values = round(R\$percentage) - keys = R\$type - lab = paste(values, "%", sep="") - png("$out") - colors <- brewer.pal(7,"Paired") - pie(values, col=colors, labels=lab, clockwise=TRUE) - legend("bottom", legend = keys, fill=colors, bty="n", ncol = 3) - par(mai = c(0,0,0,0)) - layout(c(1,2),heights=c(0.3,1)) - plot.new() - legend("bottom", legend = keys, fill=colors, bty="n",ncol = 3) - pie(values, col=colors, labels=lab, clockwise=TRUE) - dev.off()` - ); - $R->stopR(); -} - -1;
--- a/bin/align.pm Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,551 +0,0 @@ -package align; - -use strict; -use warnings; -use File::Basename; -use String::Random; - -use FindBin; -use lib $FindBin::Bin; -use Rcall qw ( histogram ); - -use Exporter; -our @ISA = qw( Exporter ); -our @EXPORT = qw( &rpms_rpkm_te &BWA_call &to_build &get_unique &sam_sorted_bam &get_hash_alignment &sam_to_bam_bg &sam_count &sam_count_mis &rpms_rpkm &get_fastq_seq &extract_sam ); - -sub to_build -{ - my ( $toBuildTabP, $log, $newdir ) = @_; - - foreach my $pairs ( @{ $toBuildTabP } ) - { - if ( $pairs->[0] == 1 ) - { - my $sym = $newdir.basename(${$pairs->[1]}).'_symlink.fa'; - symlink( ${$pairs->[1]}, $sym ); - ${$pairs->[1]} = $sym; - build_index ( ${$pairs->[1]}, $log ); - } - } -} - -sub build_index -{ - my $to_index = shift; - my $log = shift; - my $index_log = $to_index.'_index.err'; - `bwa index '$to_index' 2> '$index_log'`; - print $log "Creating index for $to_index\n"; -} - -sub get_unique -{ - my ( $sam, $s_uni, $out_prefix, $col_prefix, $details, $report ) = @_; - - my $fout = $col_prefix.'_all_mappers.fastq'; - my $funi = $col_prefix.'_unique_mappers.fastq'; - my $frej = $col_prefix.'_unmapped.fastq'; - - my $repartition = $out_prefix.'distribution.txt'; - my $png_rep = $out_prefix.'distribution.png'; - my ( %duplicates, %genome_hits) ; - - #alignement to the first reference - my @return = sam_parse( $sam, $fout, $funi, $frej, $s_uni, \%duplicates, \%genome_hits, $report ); - my $ref_fai = $return[4]; - my $mappers = $return[5]; - my $mappers_uni = $return[6]; - my $size_mappedHashR = $return[7]; - - if ( $details == 1 ) - { - #print number of duplicates and hits number - my ($pourcentage, $total) =(0,0); - - $total += $_ foreach values %{$size_mappedHashR}; - open (my $rep, '>'.$repartition) || die "cannot create $repartition $!\n"; - print $rep "size\tnumber\tpercentage\n"; - foreach my $k (sort{$a cmp $b} keys (%{$size_mappedHashR})) - { - $pourcentage = 0; - $pourcentage = $size_mappedHashR->{$k} / $total * 100 unless $total ==0; - - print $rep "$k\t$size_mappedHashR->{$k}\t"; - printf $rep "%.2f\n",$pourcentage; - } - - histogram($size_mappedHashR, $png_rep, $total); - - - my $dup = $out_prefix.'dup_mapnum.txt'; - my $dup_u = $out_prefix .'dup_unique.txt'; - my $dup_r = $out_prefix .'dup_nonmapp.txt'; - open(my $tab,">".$dup) || die "cannot open output txt file\n"; - open(my $tab_r,">".$dup_r) || die "cannot open output txt file\n"; - open(my $tab_u,">".$dup_u) || die "cannot open output txt file\n"; - print $tab "sequence\tcount\tmapnum\n"; - print $tab_u "sequence\tcount\n"; - print $tab_r "sequence\tcount\n"; - foreach my $k (sort {$duplicates{$b} <=> $duplicates{$a}}keys %duplicates) - { - $duplicates{$k} = 0 unless exists($duplicates{$k}); - $genome_hits{$k} = 0 unless exists($genome_hits{$k}); - if ($genome_hits{$k} != 0) { print $tab $k."\t".$duplicates{$k}."\t".$genome_hits{$k}."\n"; } - else {print $tab_r $k."\t".$duplicates{$k}."\n";} - if ($genome_hits{$k} == 1) { print $tab_u $k."\t".$duplicates{$k}."\n"; } - } - close $dup; close $dup_r; close $dup_u; - } - return ( $ref_fai, $mappers, $mappers_uni ); -} - -sub sam_parse -{ - my ( $sam, $fastq_accepted, $fastq_accepted_unique, $fastq_rejected, $sam_unique, $duplicate_hashR, $best_hit_number_hashR, $report ) = @_ ; - my ($reads, $mappers, $mappersUnique, @garbage, %size_num, %size_num_spe, %number, %numberSens, %numberReverse, %unique_number, %numberNM, %numberM, %size); - $mappers = $mappersUnique = $reads = 0; - - open my $fic, '<', $sam || die "cannot open $sam $!\n"; - open my $accepted, '>', $fastq_accepted || die "cannot create $fastq_accepted $! \n"; - open my $unique, '>', $fastq_accepted_unique || die "cannot create $fastq_accepted_unique $! \n"; - open my $rejected, '>', $fastq_rejected || die "cannot create $fastq_rejected $! \n"; - open my $sam_uni, '>', $sam_unique || die "cannot create $sam_unique $! \n"; - my $sequence = ''; - while(<$fic>) - { - chomp $_; - if ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) - { - if ($_ =~ /\@SQ\tSN:(.*)\tLN:(\d*)/) - { - $size{$1} = $2; - $unique_number{$1} = 0; - $number{$1} = 0; - $numberNM{$1} = 0; - $numberM{$1} = 0; - } - print $sam_uni $_."\n"; - next; - } - $reads++; - my @line = split (/\t/,$_); - $sequence = $line[9]; - if ($line[1] & 16) - { - $sequence =reverse($sequence); - $sequence =~ tr/atgcuATGCU/tacgaTACGA/; - } - if ($line[1] == 16 || $line[1] == 0) - { - my $len = length($sequence); - $size_num{$len} ++; - $size_num_spe{$line[2]}{$len}++; - $mappers ++; - - ${$best_hit_number_hashR}{$sequence} = $1 if ($line[13] =~ /X0:i:(\d*)/ || $line[14] =~/X0:i:(\d*)/ ); - ${$duplicate_hashR}{$sequence}++; - $number{$line[2]}++; - $numberSens{$line[2]}++ if $line[1] == 0 ; - $numberReverse{$line[2]}++ if $line[1] == 16 ; - print $accepted "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n"; - - if ($line[11] eq "XT:A:U") - { - $unique_number{$line[2]}++; - $mappersUnique++; - print $unique "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n"; - print $sam_uni $_."\n"; - } - if ($_ =~ /.*XM:i:(\d+).*/) - { - if ($1 == 0){$numberNM{$line[2]}++;}else{$numberM{$line[2]}++;} - } - } - else - { - ${$best_hit_number_hashR}{$sequence} = 0; - ${$duplicate_hashR}{$sequence}++; - print $rejected "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n"; - } - } - close $fic; close $accepted; close $unique; close $rejected; close $sam_uni; - - print $report "Parsing $sam file\n"; - print $report "\treads: $reads\n"; - print $report "\tmappers: $mappers\n"; - print $report "\tunique mappers: $mappersUnique\n"; - print $report "-----------------------------\n"; - return (\%number, \%unique_number, \%numberSens, \%numberReverse, \%size, $mappers, $mappersUnique, \%size_num, \%size_num_spe, \%numberNM, \%numberM ); -} - -sub get_hash_alignment -{ - my ($index, $mismatches, $accept, $reject, $outA, $outR, $fastq, $number_of_cpus, $name, $sam, $report, $fai_f) = @_ ; - my ($reads, $mappers, $unmapped) = (0,0,0); - my $accep_unique; - BWA_call ( $index, $fastq, $sam, $mismatches, $number_of_cpus, $report ); - - open my $fic, '<', $sam || die "cannot open $sam $!\n"; - open my $accepted, '>', $outA || die "cannot open $outA\n" if $accept == 1; - open my $rejected, '>', $outR || die "cannot open $outR\n" if $reject == 1; - open my $fai, '>', $fai_f || die "cannot open $fai_f\n" if $fai_f; - #if ($name eq "snRNAs") { - # open ( $accep_unique, ">".$1."-unique.fastq") if $outR =~ /(.*)\.fastq/; - #} - my $sequence = ''; - while(<$fic>) - { - chomp $_; - if( $_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) - { - if ($fai_f && $_ =~ /\@SQ\tSN:(.*)\tLN:(\d*)/) - { - print $fai $1."\t".$2."\n"; - } - next; - } - $reads++; - my @line = split (/\t/,$_); - $sequence = $line[9]; - if ($line[1] & 16) - { - $sequence =reverse($sequence); - $sequence =~ tr/atgcuATGCU/tacgaTACGA/; - } - if ($line[1] & 16 || $line[1] == 0) - { - $mappers ++; - if ($accept == 1 ) - { - print $accepted "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n"; - # print $accep_unique "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n" if ($name eq "snRNAs" && $line[11] eq "XT:A:U"); - } - } - else - { - print $rejected "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n" if $reject == 1; - $unmapped++; - } - } - # close $accep_unique if ($name eq "bonafide_reads"); - close $fic; - close $accepted if $accept == 1; - close $rejected if $reject ==1; - close $fai if $fai_f; - print $report "\treads: $reads\n"; - print $report "\tmappers: $mappers\n"; - print $report "\tunmapped: $unmapped\n"; - print $report "-----------------------------\n"; - return ($mappers, $unmapped); -} - -sub sam_count -{ - my $sam = shift; - my ( %number, %size ); - - open my $fic, '<', $sam || die "cannot open $sam file $!\n"; - while(<$fic>) - { - chomp $_; - if ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) - { - if ($_ =~ /\@SQ\tSN:(.*)\tLN:(\d*)/) - { - $size{$1} = $2; - $number{$1} = 0; - } - } - else - { - my @line = split (/\t/,$_); - if ( $line[1] & 16 || $line[1] == 0 ) - { - $number{$line[2]}++; - } - } - } - close $fic; - return ( \%number, \%size ); -} - -sub sam_count_mis -{ - - my $sam = shift; - my ( %number, %numberNM, %numberM, %size); - - open my $fic, '<', $sam || die "cannot open $sam file $!\n"; - while(<$fic>) - { - chomp $_; - if ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) - { - if ($_ =~ /\@SQ\tSN:(.*)\tLN:(\d*)/) - { - $size{$1} = $2; - $number{$1} = [0,0,0,0,0,0,0]; - $numberNM{$1} = [0,0,0,0,0,0,0]; - $numberM{$1} = [0,0,0,0,0,0,0]; - } - } - else - { - my @line = split (/\t/,$_); - my @seq = split //, $line[9]; - if ( $line[1] == 16 || $line[1] == 0 ) - { - $number{ $line[2] }->[0]++; - if ($line[1] == 0) - { - $number{$line[2]}->[1]++; - $number{$line[2]}->[3]++ if $seq[0] eq 'T'; - $number{$line[2]}->[5]++ if $seq[9] eq 'A'; - } - else - { - $number{$line[2]}->[2]++; - $number{$line[2]}->[4]++ if $seq[9] eq 'A'; - $number{$line[2]}->[6]++ if $seq[0] eq 'T'; - } - if ($_ =~ /.*XM:i:(\d+).*/) - { - if ( $1 == 0 ) - { - $numberNM{$line[2]}->[0]++; - if ($line[1] == 0) - { - $numberNM{$line[2]}->[1]++; - $numberNM{$line[2]}->[3]++ if $seq[0] eq 'T'; - $numberNM{$line[2]}->[5]++ if $seq[9] eq 'A'; - } - else - { - $numberNM{$line[2]}->[2]++; - $numberNM{$line[2]}->[4]++ if $seq[9] eq 'A'; - $numberNM{$line[2]}->[6]++ if $seq[0] eq 'T'; - } - } - else - { - $numberM{$line[2]}->[0]++; - if ($line[1] == 0) - { - $numberM{$line[2]}->[1]++; - $numberM{$line[2]}->[3]++ if $seq[0] eq 'T'; - $numberM{$line[2]}->[5]++ if $seq[9] eq 'A'; - } - else - { - $numberM{$line[2]}->[2]++; - $numberM{$line[2]}->[4]++ if $seq[9] eq 'A'; - $numberM{$line[2]}->[6]++ if $seq[0] eq 'T'; - } - } - } - } - } - } - return (\%number, \%size, \%numberNM, \%numberM ); -} - -sub rpms_rpkm_te -{ - my ( $counthashR, $sizehashR, $mapped, $out_file, $piRNA_number, $miRNA_number, $bonafide_number ) =@_; - open(my $out, ">".$out_file) || die "cannot open normalized file $! \n"; - print $out "ID\treads counts\tRPKM"; - print $out "\tper million of piRNAs" if ($piRNA_number != 0); - print $out "\tper million of miRNAs" if ($miRNA_number != 0); - print $out "\tper million of bonafide reads" if ($bonafide_number != 0); - print $out "\tsense reads counts\treverse reads counts"; - print $out "\t% of sense 1U\t% of sense 10A\t% of reverse 1U\t% of reverse 10A\n"; - foreach my $k ( sort keys %{$counthashR} ) - { - my ($rpkm, $pirna, $mirna, $bonafide) = (0,0,0,0); - - $rpkm = ( $counthashR->{$k}->[0] * 1000000000) / ( $sizehashR->{$k} * $mapped) if ( $sizehashR->{$k} * $mapped) != 0 ; - print $out $k."\t".$counthashR->{$k}->[0]."\t"; printf $out "%.2f",$rpkm; - - if ($piRNA_number != 0 ) - { - $pirna = ( $counthashR->{$k}->[0] * 1000000) / $piRNA_number; - printf $out "\t%.2f",$pirna; - } - if ($miRNA_number != 0 ) - { - $mirna = ( $counthashR->{$k}->[0] * 1000000) / $miRNA_number; - printf $out "\t%.2f",$mirna; - } - if ($bonafide_number != 0 ) - { - $bonafide = ( $counthashR->{$k}->[0] * 1000000) / $bonafide_number; - printf $out "\t%.2f",$bonafide; - } - - print $out "\t".$counthashR->{$k}->[1]."\t".$counthashR->{$k}->[2] ; - my $S1U = 0; - $S1U = $counthashR->{$k}->[3] / $counthashR->{$k}->[1] * 100 if $counthashR->{$k}->[1] != 0; - my $R1U = 0; - $R1U = $counthashR->{$k}->[6] / $counthashR->{$k}->[2] * 100 if $counthashR->{$k}->[2] != 0; - my $S10A = 0; - $S10A = $counthashR->{$k}->[5] / $counthashR->{$k}->[1] * 100 if $counthashR->{$k}->[1] != 0; - my $R10A = 0; - $R10A = $counthashR->{$k}->[4] / $counthashR->{$k}->[2] * 100 if $counthashR->{$k}->[2] != 0; - print $out "\t".$S1U."\t".$S10A."\t".$R1U."\t".$R10A; - - print $out "\n"; - } - close $out; -} - - -sub sam_to_bam_bg -{ - my ( $sam, $scale, $number_of_cpus ) = @_; - my ( $bam_sorted, $bedgraphM, $bedgraphP, $view_err, $sort_err ) = ( '', '', '', '', '' ); - if ( $sam =~ /(.*?).sam$/ ) - { - $bam_sorted = $1.'_sorted.bam'; - $bedgraphP= $1.'_plus.bedgraph'; - $bedgraphM = $1.'_minus.bedgraph'; - $view_err = $1.'_view.err'; - $sort_err = $1.'_sort.err'; - } - `samtools view -Shb --threads $number_of_cpus '$sam' 2> '$view_err' | samtools sort -O BAM --threads $number_of_cpus /dev/stdin 2> '$sort_err' > '$bam_sorted'`; - `bedtools genomecov -scale $scale -strand + -bga -ibam '$bam_sorted' > '$bedgraphP'`; - `bedtools genomecov -scale $scale -strand - -bga -ibam '$bam_sorted' > '$bedgraphM'`; -} - -sub sam_sorted_bam -{ - my ( $sam, $number_of_cpus ) = @_; - my ( $bam_sorted, $view_err, $sort_err ) = ( '', '', '' ); - if ( $sam =~ /(.*?).sam$/ ) - { - $bam_sorted = $1.'_sorted.bam'; - $view_err = $1.'_view.err'; - $sort_err = $1.'_sort.err'; - - } - `samtools view -Shb --threads $number_of_cpus '$sam' 2> '$view_err' | samtools sort -O BAM --threads $number_of_cpus /dev/stdin 2> '$sort_err' > '$bam_sorted'`; -} - -sub BWA_call -{ - my ( $index, $fastq, $sam, $mismatches, $number_of_cpus, $report ) = @_; - my ( $aln_err, $samse_err, $seq_num ) = ( $sam.'_aln.err', $sam.'_samse.err', 0 ); - print $report "-----------------------------\n"; - print $report "bwa aln -t $number_of_cpus -n $mismatches '$index' '$fastq' 2> '$aln_err' | bwa samse $index /dev/stdin '$fastq' 2> '$samse_err' > '$sam'\n"; - `bwa aln -t $number_of_cpus -n $mismatches '$index' '$fastq' 2> '$aln_err' | bwa samse $index /dev/stdin '$fastq' 2> '$samse_err' > '$sam' `; -} - -sub rpms_rpkm -{ - my ( $counthashR, $sizehashR, $mapped, $out_file, $piRNA_number, $miRNA_number, $bonafide_number ) =@_; - open(my $out, ">".$out_file) || die "cannot open normalized file $! \n"; - print $out "ID\treads counts\tRPKM"; - print $out "\tper million of piRNAs" if ($piRNA_number != 0); - print $out "\tper million of miRNAs" if ($miRNA_number != 0); - print $out "\tper million of bonafide reads" if ($bonafide_number != 0); - print $out "\n"; - foreach my $k ( sort keys %{$counthashR} ) - { - my ($rpkm, $pirna, $mirna, $bonafide) = (0,0,0,0); - - $rpkm = ( $counthashR->{$k} * 1000000000) / ( $sizehashR->{$k} * $mapped) if ( $sizehashR->{$k} * $mapped) != 0 ; - print $out $k."\t".$counthashR->{$k}."\t"; printf $out "%.2f",$rpkm; - - if ($piRNA_number != 0 ) - { - $pirna = ( $counthashR->{$k} * 1000000) / $piRNA_number; - printf $out "\t%.2f",$pirna; - } - if ($miRNA_number != 0 ) - { - $mirna = ( $counthashR->{$k} * 1000000) / $miRNA_number; - printf $out "\t%.2f",$mirna; - } - if ($bonafide_number != 0 ) - { - $bonafide = ( $counthashR->{$k} * 1000000) / $bonafide_number; - printf $out "\t%.2f",$bonafide; - } - print $out "\n"; - } - close $out; -} - -sub extract_sam -{ - my ( $hashRef, $sam_in, $sam_out, $sam_uni_out, $fastq_out, $fastq_uni_out ) = @_; - - open my $s_in, '<', $sam_in || die "cannot open $sam_in file $!\n"; - - open my $f_out, '>', $fastq_out || die "cannot create $fastq_out $!\n"; - open my $f_uni_out, '>', $fastq_uni_out || die "cannot create $fastq_uni_out $!\n"; - - open my $s_out, '>', $sam_out || die "cannot create $sam_out file $!\n" if defined ($hashRef); - open my $s_uni_out, '>', $sam_uni_out || die "cannot create $sam_uni_out file $!\n"; - - my $sequence = ''; - while(<$s_in>) - { - if ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) - { - print $s_out $_ if defined ($hashRef); - print $s_uni_out $_; - next; - } - my @line = split (/\t/,$_); - $sequence = $line[0]; - if ( (! defined ($hashRef) )|| ( exists $hashRef->{$sequence} && $hashRef->{$sequence} == 1 ) ) - { - my $arn = $line[9]; - if ($line[1] & 16) - { - $arn =reverse($arn); - $arn =~ tr/atgcuATGCU/tacgaTACGA/; - } - - if ( ( $line[1] == 16 || $line[1] == 0 ) ) - { - print $f_out "\@".$line[0]."\n".$arn."\n+\n".$line[10]."\n" ; - print $s_out $_ if defined ($hashRef); - if ( $line[11] eq "XT:A:U" ) - { - print $f_uni_out "\@".$line[0]."\n".$arn."\n+\n".$line[10]."\n" ; - print $s_uni_out $_ ; - } - } - } - } - close $s_in; close $s_out if defined ($hashRef); - close $s_uni_out; close $f_out; close $f_uni_out; -} - -sub get_fastq_seq -{ - my $fastq = shift; - my %hash; my $cmp = 0; - - open my $fic, '<', $fastq || die "cannot open input file $! \n"; - while(<$fic>) - { - chomp $_; - $cmp++; - if ($cmp % 4 == 1) - { - die "file do not contain a @ at line $cmp\n" unless ($_ =~ /^\@/ ); - if ($_ =~ /^\@(.*)\s.*/) { $hash{$1} = 1;} - elsif ($_ =~ /^\@(.*)/) { $hash{$1} = 1;} - } - elsif ($cmp % 4 == 3 ) - { - die "file do not contain a + at line $cmp\n" unless $_ =~ /^\+/; - } - } - close $fic; - return \%hash; -} - -1;
--- a/bin/css/bootstrap-responsive.css Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,1109 +0,0 @@ -/*! - * Bootstrap Responsive v2.3.2 - * - * Copyright 2012 Twitter, Inc - * Licensed under the Apache License v2.0 - * http://www.apache.org/licenses/LICENSE-2.0 - * - * Designed and built with all the love in the world @twitter by @mdo and @fat. - */ - -.clearfix { - *zoom: 1; -} - -.clearfix:before, -.clearfix:after { - display: table; - line-height: 0; - content: ""; -} - -.clearfix:after { - clear: both; -} - -.hide-text { - font: 0/0 a; - color: transparent; - text-shadow: none; - background-color: transparent; - border: 0; -} - -.input-block-level { - display: block; - width: 100%; - min-height: 30px; - -webkit-box-sizing: border-box; - -moz-box-sizing: border-box; - box-sizing: border-box; -} - -@-ms-viewport { - width: device-width; -} - -.hidden { - display: none; - visibility: hidden; -} - -.visible-phone { - display: none !important; -} - -.visible-tablet { - display: none !important; -} - -.hidden-desktop { - display: none !important; -} - -.visible-desktop { - display: inherit !important; -} - -@media (min-width: 768px) and (max-width: 979px) { - .hidden-desktop { - display: inherit !important; - } - .visible-desktop { - display: none !important ; - } - .visible-tablet { - display: inherit !important; - } - .hidden-tablet { - display: none !important; - } -} - -@media (max-width: 767px) { - .hidden-desktop { - display: inherit !important; - } - .visible-desktop { - display: none !important; - } - .visible-phone { - display: inherit !important; - } - .hidden-phone { - display: none !important; - } -} - -.visible-print { - display: none !important; -} - -@media print { - .visible-print { - display: inherit !important; - } - .hidden-print { - display: none !important; - } -} - -@media (min-width: 1200px) { - .row { - margin-left: -30px; - *zoom: 1; - } - .row:before, - .row:after { - display: table; - line-height: 0; - content: ""; - } - .row:after { - clear: both; - } - [class*="span"] { - float: left; - min-height: 1px; - margin-left: 30px; - } - .container, - .navbar-static-top .container, - .navbar-fixed-top .container, - .navbar-fixed-bottom .container { - width: 1170px; - } - .span12 { - width: 1170px; - } - .span11 { - width: 1070px; - } - .span10 { - width: 970px; - } - .span9 { - width: 870px; - } - .span8 { - width: 770px; - } - .span7 { - width: 670px; - } - .span6 { - width: 570px; - } - .span5 { - width: 470px; - } - .span4 { - width: 370px; - } - .span3 { - width: 270px; - } - .span2 { - width: 170px; - } - .span1 { - width: 70px; - } - .offset12 { - margin-left: 1230px; - } - .offset11 { - margin-left: 1130px; - } - .offset10 { - margin-left: 1030px; - } - .offset9 { - margin-left: 930px; - } - .offset8 { - margin-left: 830px; - } - .offset7 { - margin-left: 730px; - } - .offset6 { - margin-left: 630px; - } - .offset5 { - margin-left: 530px; - } - .offset4 { - margin-left: 430px; - } - .offset3 { - margin-left: 330px; - } - .offset2 { - margin-left: 230px; - } - .offset1 { - margin-left: 130px; 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- *margin-left: 68.40190431409427%; - } - .row-fluid .offset7 { - margin-left: 62.70718232044199%; - *margin-left: 62.600799341718584%; - } - .row-fluid .offset7:first-child { - margin-left: 59.94475138121547%; - *margin-left: 59.838368402492065%; - } - .row-fluid .offset6 { - margin-left: 54.14364640883978%; - *margin-left: 54.037263430116376%; - } - .row-fluid .offset6:first-child { - margin-left: 51.38121546961326%; - *margin-left: 51.27483249088986%; - } - .row-fluid .offset5 { - margin-left: 45.58011049723757%; - *margin-left: 45.47372751851417%; - } - .row-fluid .offset5:first-child { - margin-left: 42.81767955801105%; - *margin-left: 42.71129657928765%; - } - .row-fluid .offset4 { - margin-left: 37.01657458563536%; - *margin-left: 36.91019160691196%; - } - .row-fluid .offset4:first-child { - margin-left: 34.25414364640884%; - *margin-left: 34.14776066768544%; - } - .row-fluid .offset3 { - margin-left: 28.45303867403315%; - *margin-left: 28.346655695309746%; - } - .row-fluid .offset3:first-child { - margin-left: 25.69060773480663%; - *margin-left: 25.584224756083227%; - } - .row-fluid .offset2 { - margin-left: 19.88950276243094%; - *margin-left: 19.783119783707537%; - } - .row-fluid .offset2:first-child { - margin-left: 17.12707182320442%; - *margin-left: 17.02068884448102%; - } - .row-fluid .offset1 { - margin-left: 11.32596685082873%; - *margin-left: 11.219583872105325%; - } - .row-fluid .offset1:first-child { - margin-left: 8.56353591160221%; - *margin-left: 8.457152932878806%; - } - input, - textarea, - .uneditable-input { - margin-left: 0; - } - .controls-row [class*="span"] + [class*="span"] { - margin-left: 20px; - } - input.span12, - textarea.span12, - .uneditable-input.span12 { - width: 710px; - } - input.span11, - textarea.span11, - .uneditable-input.span11 { - width: 648px; - } - input.span10, - textarea.span10, - .uneditable-input.span10 { - width: 586px; - } - input.span9, - textarea.span9, - .uneditable-input.span9 { - width: 524px; - } - input.span8, - textarea.span8, - .uneditable-input.span8 { - width: 462px; - } - input.span7, - textarea.span7, - .uneditable-input.span7 { - width: 400px; - } - input.span6, - textarea.span6, - .uneditable-input.span6 { - width: 338px; - } - input.span5, - textarea.span5, - .uneditable-input.span5 { - width: 276px; - } - input.span4, - textarea.span4, - .uneditable-input.span4 { - width: 214px; - } - input.span3, - textarea.span3, - .uneditable-input.span3 { - width: 152px; - } - input.span2, - textarea.span2, - .uneditable-input.span2 { - width: 90px; - } - input.span1, - textarea.span1, - .uneditable-input.span1 { - width: 28px; - } -} - -@media (max-width: 767px) { - body { - padding-right: 20px; - padding-left: 20px; - } - .navbar-fixed-top, - .navbar-fixed-bottom, - .navbar-static-top { - margin-right: -20px; - margin-left: -20px; - } - .container-fluid { - padding: 0; - } - .dl-horizontal dt { - float: none; - width: auto; - clear: none; - text-align: left; - } - .dl-horizontal dd { - margin-left: 0; - } - .container { - width: auto; - } - .row-fluid { - width: 100%; - } - .row, - .thumbnails { - margin-left: 0; - } - .thumbnails > li { - float: none; - margin-left: 0; - } - [class*="span"], - .uneditable-input[class*="span"], - .row-fluid [class*="span"] { - display: block; - float: none; - width: 100%; - margin-left: 0; - -webkit-box-sizing: border-box; - -moz-box-sizing: border-box; - box-sizing: border-box; - } - .span12, - .row-fluid .span12 { - width: 100%; - -webkit-box-sizing: border-box; - -moz-box-sizing: border-box; - box-sizing: border-box; - } - .row-fluid [class*="offset"]:first-child { - margin-left: 0; - } - .input-large, - .input-xlarge, - .input-xxlarge, - input[class*="span"], - select[class*="span"], - textarea[class*="span"], - .uneditable-input { - display: block; - width: 100%; - min-height: 30px; - -webkit-box-sizing: border-box; - -moz-box-sizing: border-box; - box-sizing: border-box; - } - .input-prepend input, - .input-append input, - .input-prepend input[class*="span"], - .input-append input[class*="span"] { - display: inline-block; - width: auto; - } - .controls-row [class*="span"] + [class*="span"] { - margin-left: 0; - } - .modal { - position: fixed; - top: 20px; - right: 20px; - left: 20px; - width: auto; - margin: 0; - } - .modal.fade { - top: -100px; - } - .modal.fade.in { - top: 20px; - } -} - -@media (max-width: 480px) { - .nav-collapse { - -webkit-transform: translate3d(0, 0, 0); - } - .page-header h1 small { - display: block; - line-height: 20px; - } - input[type="checkbox"], - input[type="radio"] { - border: 1px solid #ccc; - } - .form-horizontal .control-label { - float: none; - width: auto; - padding-top: 0; - text-align: left; - } - .form-horizontal .controls { - margin-left: 0; - } - .form-horizontal .control-list { - padding-top: 0; - } - .form-horizontal .form-actions { - padding-right: 10px; - padding-left: 10px; - } - .media .pull-left, - .media .pull-right { - display: block; - float: none; - margin-bottom: 10px; - } - .media-object { - margin-right: 0; - margin-left: 0; - } - .modal { - top: 10px; - right: 10px; - left: 10px; - } - .modal-header .close { - padding: 10px; - margin: -10px; - } - .carousel-caption { - position: static; - } -} - -@media (max-width: 979px) { - body { - padding-top: 0; - } - .navbar-fixed-top, - .navbar-fixed-bottom { - position: static; - } - .navbar-fixed-top { - margin-bottom: 20px; - } - .navbar-fixed-bottom { - margin-top: 20px; - } - .navbar-fixed-top .navbar-inner, - .navbar-fixed-bottom .navbar-inner { - padding: 5px; - } - .navbar .container { - width: auto; - padding: 0; - } - .navbar .brand { - padding-right: 10px; - padding-left: 10px; - margin: 0 0 0 -5px; - } - .nav-collapse { - clear: both; - } - .nav-collapse .nav { - float: none; - margin: 0 0 10px; - } - .nav-collapse .nav > li { - float: none; - } - .nav-collapse .nav > li > a { - margin-bottom: 2px; - } - .nav-collapse .nav > .divider-vertical { - display: none; - } - .nav-collapse .nav .nav-header { - color: #777777; - text-shadow: none; - } - .nav-collapse .nav > li > a, - .nav-collapse .dropdown-menu a { - padding: 9px 15px; - font-weight: bold; - color: #777777; - -webkit-border-radius: 3px; - -moz-border-radius: 3px; - border-radius: 3px; - } - .nav-collapse .btn { - padding: 4px 10px 4px; - font-weight: normal; - -webkit-border-radius: 4px; - -moz-border-radius: 4px; - border-radius: 4px; - } - .nav-collapse .dropdown-menu li + li a { - margin-bottom: 2px; - } - .nav-collapse .nav > li > a:hover, - .nav-collapse .nav > li > a:focus, - .nav-collapse .dropdown-menu a:hover, - .nav-collapse .dropdown-menu a:focus { - background-color: #f2f2f2; - } - .navbar-inverse .nav-collapse .nav > li > a, - .navbar-inverse .nav-collapse .dropdown-menu a { - color: #999999; - } - .navbar-inverse .nav-collapse .nav > li > a:hover, - .navbar-inverse .nav-collapse .nav > li > a:focus, - .navbar-inverse .nav-collapse .dropdown-menu a:hover, - .navbar-inverse .nav-collapse .dropdown-menu a:focus { - background-color: #111111; - } - .nav-collapse.in .btn-group { - padding: 0; - margin-top: 5px; - } - .nav-collapse .dropdown-menu { - position: static; - top: auto; - left: auto; - display: none; - float: none; - max-width: none; - padding: 0; - margin: 0 15px; - background-color: transparent; - border: none; - -webkit-border-radius: 0; - -moz-border-radius: 0; - border-radius: 0; - -webkit-box-shadow: none; - -moz-box-shadow: none; - box-shadow: none; - } - .nav-collapse .open > .dropdown-menu { - display: block; - } - .nav-collapse .dropdown-menu:before, - .nav-collapse .dropdown-menu:after { - display: none; - } - .nav-collapse .dropdown-menu .divider { - display: none; - } - .nav-collapse .nav > li > .dropdown-menu:before, - .nav-collapse .nav > li > .dropdown-menu:after { - display: none; - } - .nav-collapse .navbar-form, - .nav-collapse .navbar-search { - float: none; - padding: 10px 15px; - margin: 10px 0; - border-top: 1px solid #f2f2f2; - border-bottom: 1px solid #f2f2f2; - -webkit-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.1); - -moz-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.1); - box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.1); - } - .navbar-inverse .nav-collapse .navbar-form, - .navbar-inverse .nav-collapse .navbar-search { - border-top-color: #111111; - border-bottom-color: #111111; - } - .navbar .nav-collapse .nav.pull-right { - float: none; - margin-left: 0; - } - .nav-collapse, - .nav-collapse.collapse { - height: 0; - overflow: hidden; - } - .navbar .btn-navbar { - display: block; - } - .navbar-static .navbar-inner { - padding-right: 10px; - padding-left: 10px; - } -} - -@media (min-width: 980px) { - .nav-collapse.collapse { - height: auto !important; - overflow: visible !important; - } -}
--- a/bin/css/bootstrap-table.css Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,313 +0,0 @@ -/** - * @author zhixin wen <wenzhixin2010@gmail.com> - * version: 1.11.1 - * https://github.com/wenzhixin/bootstrap-table/ - */ - -.bootstrap-table .table { - margin-bottom: 0 !important; - border-bottom: 1px solid #dddddd; - border-collapse: collapse !important; - border-radius: 1px; -} - -.bootstrap-table .table:not(.table-condensed), -.bootstrap-table .table:not(.table-condensed) > tbody > tr > th, -.bootstrap-table .table:not(.table-condensed) > tfoot > tr > th, -.bootstrap-table .table:not(.table-condensed) > thead > tr > td, -.bootstrap-table .table:not(.table-condensed) > tbody > tr > td, -.bootstrap-table .table:not(.table-condensed) > tfoot > tr > td { - padding: 8px; -} - -.bootstrap-table .table.table-no-bordered > thead > tr > th, -.bootstrap-table .table.table-no-bordered > tbody > tr > td { - border-right: 2px solid transparent; -} - -.bootstrap-table .table.table-no-bordered > tbody > tr > td:last-child { - border-right: none; -} - -.fixed-table-container { - position: relative; - clear: both; - border: 1px solid #dddddd; - border-radius: 4px; - -webkit-border-radius: 4px; - -moz-border-radius: 4px; -} - -.fixed-table-container.table-no-bordered { - border: 1px solid transparent; -} - -.fixed-table-footer, -.fixed-table-header { - overflow: hidden; -} - -.fixed-table-footer { - border-top: 1px solid #dddddd; -} - -.fixed-table-body { - overflow-x: auto; - overflow-y: auto; - height: 100%; -} - -.fixed-table-container table { - width: 100%; -} - -.fixed-table-container thead th { - height: 0; - padding: 0; - margin: 0; - border-left: 1px solid #dddddd; -} - -.fixed-table-container thead th:focus { - outline: 0 solid transparent; -} - -.fixed-table-container thead th:first-child { - border-left: none; - border-top-left-radius: 4px; - -webkit-border-top-left-radius: 4px; - -moz-border-radius-topleft: 4px; -} - -.fixed-table-container thead th .th-inner, -.fixed-table-container tbody td .th-inner { - padding: 8px; - line-height: 24px; - vertical-align: top; - overflow: hidden; - text-overflow: ellipsis; - white-space: nowrap; -} - -.fixed-table-container thead th .sortable { - cursor: pointer; - background-position: right; - background-repeat: no-repeat; - padding-right: 30px; -} - -.fixed-table-container thead th .both { - background-image: url('data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABMAAAATCAQAAADYWf5HAAAAkElEQVQoz7X QMQ5AQBCF4dWQSJxC5wwax1Cq1e7BAdxD5SL+Tq/QCM1oNiJidwox0355mXnG/DrEtIQ6azioNZQxI0ykPhTQIwhCR+BmBYtlK7kLJYwWCcJA9M4qdrZrd8pPjZWPtOqdRQy320YSV17OatFC4euts6z39GYMKRPCTKY9UnPQ6P+GtMRfGtPnBCiqhAeJPmkqAAAAAElFTkSuQmCC'); -} - -.fixed-table-container thead th .asc { - background-image: url('data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABMAAAATCAYAAAByUDbMAAAAZ0lEQVQ4y2NgGLKgquEuFxBPAGI2ahhWCsS/gDibUoO0gPgxEP8H4ttArEyuQYxAPBdqEAxPBImTY5gjEL9DM+wTENuQahAvEO9DMwiGdwAxOymGJQLxTyD+jgWDxCMZRsEoGAVoAADeemwtPcZI2wAAAABJRU5ErkJggg=='); -} - -.fixed-table-container thead th .desc { - background-image: url('data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABMAAAATCAYAAAByUDbMAAAAZUlEQVQ4y2NgGAWjYBSggaqGu5FA/BOIv2PBIPFEUgxjB+IdQPwfC94HxLykus4GiD+hGfQOiB3J8SojEE9EM2wuSJzcsFMG4ttQgx4DsRalkZENxL+AuJQaMcsGxBOAmGvopk8AVz1sLZgg0bsAAAAASUVORK5CYII= '); -} - -.fixed-table-container th.detail { - width: 30px; -} - -.fixed-table-container tbody td { - border-left: 1px solid #dddddd; -} - -.fixed-table-container tbody tr:first-child td { - border-top: none; -} - -.fixed-table-container tbody td:first-child { - border-left: none; -} - -/* the same color with .active */ -.fixed-table-container tbody .selected td { - background-color: #f5f5f5; -} - -.fixed-table-container .bs-checkbox { - text-align: center; -} - -.fixed-table-container .bs-checkbox .th-inner { - padding: 8px 0; -} - -.fixed-table-container input[type="radio"], -.fixed-table-container input[type="checkbox"] { - margin: 0 auto !important; -} - -.fixed-table-container .no-records-found { - text-align: center; -} - -.fixed-table-pagination div.pagination, -.fixed-table-pagination .pagination-detail { - margin-top: 10px; - margin-bottom: 10px; -} - -.fixed-table-pagination div.pagination .pagination { - margin: 0; -} - -.fixed-table-pagination .pagination a { - padding: 6px 12px; - line-height: 1.428571429; -} - -.fixed-table-pagination .pagination-info { - line-height: 34px; - margin-right: 5px; -} - -.fixed-table-pagination .btn-group { - position: relative; - display: inline-block; - vertical-align: middle; -} - -.fixed-table-pagination .dropup .dropdown-menu { - margin-bottom: 0; -} - -.fixed-table-pagination .page-list { - display: inline-block; -} - -.fixed-table-toolbar .columns-left { - margin-right: 5px; -} - -.fixed-table-toolbar .columns-right { - margin-left: 5px; -} - -.fixed-table-toolbar .columns label { - display: block; - padding: 3px 20px; - clear: both; - font-weight: normal; - line-height: 1.428571429; -} - -.fixed-table-toolbar .bs-bars, -.fixed-table-toolbar .search, -.fixed-table-toolbar .columns { - position: relative; - margin-top: 10px; - margin-bottom: 10px; - line-height: 34px; -} - -.fixed-table-pagination li.disabled a { - pointer-events: none; - cursor: default; -} - -.fixed-table-loading { - display: none; - position: absolute; - top: 42px; - right: 0; - bottom: 0; - left: 0; - z-index: 99; - background-color: #fff; - text-align: center; -} - -.fixed-table-body .card-view .title { - font-weight: bold; - display: inline-block; - min-width: 30%; - text-align: left !important; -} - -/* support bootstrap 2 */ -.fixed-table-body thead th .th-inner { - box-sizing: border-box; -} - -.table th, .table td { - vertical-align: middle; - box-sizing: border-box; -} - -.fixed-table-toolbar .dropdown-menu { - text-align: left; - max-height: 300px; - overflow: auto; -} - -.fixed-table-toolbar .btn-group > .btn-group { - display: inline-block; - margin-left: -1px !important; -} - -.fixed-table-toolbar .btn-group > .btn-group > .btn { - border-radius: 0; -} - -.fixed-table-toolbar .btn-group > .btn-group:first-child > .btn { - border-top-left-radius: 4px; - border-bottom-left-radius: 4px; -} - -.fixed-table-toolbar .btn-group > .btn-group:last-child > .btn { - border-top-right-radius: 4px; - border-bottom-right-radius: 4px; -} - -.bootstrap-table .table > thead > tr > th { - vertical-align: bottom; - border-bottom: 1px solid #ddd; -} - -/* support bootstrap 3 */ -.bootstrap-table .table thead > tr > th { - padding: 0; - margin: 0; -} - -.bootstrap-table .fixed-table-footer tbody > tr > td { - padding: 0 !important; -} - -.bootstrap-table .fixed-table-footer .table { - border-bottom: none; - border-radius: 0; - padding: 0 !important; -} - -.bootstrap-table .pull-right .dropdown-menu { - right: 0; - left: auto; -} - -/* calculate scrollbar width */ -p.fixed-table-scroll-inner { - width: 100%; - height: 200px; -} - -div.fixed-table-scroll-outer { - top: 0; - left: 0; - visibility: hidden; - width: 200px; - height: 150px; - overflow: hidden; -} - -/* for get correct heights */ -.fixed-table-toolbar:after, .fixed-table-pagination:after { - content: ""; - display: block; - clear: both; -}
--- a/bin/css/bootstrap.css Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,6167 +0,0 @@ -/*! - * Bootstrap v2.3.2 - * - * Copyright 2012 Twitter, Inc - * Licensed under the Apache License v2.0 - * http://www.apache.org/licenses/LICENSE-2.0 - * - * Designed and built with all the love in the world @twitter by @mdo and @fat. - */ - -.clearfix { - *zoom: 1; -} - -.clearfix:before, -.clearfix:after { - display: table; - line-height: 0; - content: ""; -} - -.clearfix:after { - clear: both; -} - -.hide-text { - font: 0/0 a; - color: transparent; - text-shadow: none; - background-color: transparent; - border: 0; -} - -.input-block-level { - display: block; - width: 100%; - min-height: 30px; - -webkit-box-sizing: border-box; - -moz-box-sizing: border-box; - box-sizing: border-box; -} - -article, -aside, -details, -figcaption, -figure, -footer, -header, -hgroup, -nav, -section { - display: block; -} - -audio, -canvas, -video { - display: inline-block; - *display: inline; - *zoom: 1; -} - -audio:not([controls]) { - display: none; -} - -html { - font-size: 100%; - -webkit-text-size-adjust: 100%; - -ms-text-size-adjust: 100%; -} - -a:focus { - outline: thin dotted #333; - outline: 5px auto -webkit-focus-ring-color; - outline-offset: -2px; -} - -a:hover, -a:active { - outline: 0; -} - -sub, -sup { - position: relative; - font-size: 75%; - line-height: 0; - vertical-align: baseline; -} - -sup { - top: -0.5em; -} - -sub { - bottom: -0.25em; -} - -img { - width: auto\9; - height: auto; - max-width: 100%; - vertical-align: middle; - border: 0; - -ms-interpolation-mode: bicubic; -} - -#map_canvas img, -.google-maps img { - max-width: none; -} - -button, -input, -select, -textarea { - margin: 0; - font-size: 100%; - vertical-align: middle; -} - -button, -input { - *overflow: visible; - line-height: normal; -} - -button::-moz-focus-inner, -input::-moz-focus-inner { - padding: 0; - border: 0; -} - -button, -html input[type="button"], -input[type="reset"], -input[type="submit"] { - cursor: pointer; 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-} - -.icon-trash { - background-position: -456px 0; -} - -.icon-home { - background-position: 0 -24px; -} - -.icon-file { - background-position: -24px -24px; -} - -.icon-time { - background-position: -48px -24px; -} - -.icon-road { - background-position: -72px -24px; -} - -.icon-download-alt { - background-position: -96px -24px; -} - -.icon-download { - background-position: -120px -24px; -} - -.icon-upload { - background-position: -144px -24px; -} - -.icon-inbox { - background-position: -168px -24px; -} - -.icon-play-circle { - background-position: -192px -24px; -} - -.icon-repeat { - background-position: -216px -24px; -} - -.icon-refresh { - background-position: -240px -24px; -} - -.icon-list-alt { - background-position: -264px -24px; -} - -.icon-lock { - background-position: -287px -24px; -} - -.icon-flag { - background-position: -312px -24px; -} - -.icon-headphones { - background-position: -336px -24px; -} - -.icon-volume-off { - background-position: -360px -24px; -} - -.icon-volume-down { - background-position: -384px -24px; 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-} - -.icon-pause { - background-position: -288px -72px; -} - -.icon-stop { - background-position: -312px -72px; -} - -.icon-forward { - background-position: -336px -72px; -} - -.icon-fast-forward { - background-position: -360px -72px; -} - -.icon-step-forward { - background-position: -384px -72px; -} - -.icon-eject { - background-position: -408px -72px; -} - -.icon-chevron-left { - background-position: -432px -72px; -} - -.icon-chevron-right { - background-position: -456px -72px; -} - -.icon-plus-sign { - background-position: 0 -96px; -} - -.icon-minus-sign { - background-position: -24px -96px; -} - -.icon-remove-sign { - background-position: -48px -96px; -} - -.icon-ok-sign { - background-position: -72px -96px; -} - -.icon-question-sign { - background-position: -96px -96px; -} - -.icon-info-sign { - background-position: -120px -96px; -} - -.icon-screenshot { - background-position: -144px -96px; -} - -.icon-remove-circle { - background-position: -168px -96px; -} - -.icon-ok-circle { - background-position: -192px -96px; -} - -.icon-ban-circle { - background-position: -216px -96px; -} - -.icon-arrow-left { - background-position: -240px -96px; -} - -.icon-arrow-right { - background-position: -264px -96px; -} - -.icon-arrow-up { - background-position: -289px -96px; -} - -.icon-arrow-down { - background-position: -312px -96px; -} - -.icon-share-alt { - background-position: -336px -96px; -} - -.icon-resize-full { - background-position: -360px -96px; -} - -.icon-resize-small { - background-position: -384px -96px; -} - -.icon-plus { - background-position: -408px -96px; -} - -.icon-minus { - background-position: -433px -96px; -} - -.icon-asterisk { - background-position: -456px -96px; -} - -.icon-exclamation-sign { - background-position: 0 -120px; -} - -.icon-gift { - background-position: -24px -120px; -} - -.icon-leaf { - background-position: -48px -120px; -} - -.icon-fire { - background-position: -72px -120px; -} - -.icon-eye-open { - background-position: -96px -120px; -} - -.icon-eye-close { - background-position: -120px -120px; -} - -.icon-warning-sign { - background-position: -144px -120px; -} - -.icon-plane { - background-position: -168px -120px; -} - -.icon-calendar { - background-position: -192px -120px; -} - -.icon-random { - width: 16px; - background-position: -216px -120px; -} - -.icon-comment { - background-position: -240px -120px; -} - -.icon-magnet { - background-position: -264px -120px; -} - -.icon-chevron-up { - background-position: -288px -120px; -} - -.icon-chevron-down { - background-position: -313px -119px; -} - -.icon-retweet { - background-position: -336px -120px; -} - -.icon-shopping-cart { - background-position: -360px -120px; -} - -.icon-folder-close { - width: 16px; - background-position: -384px -120px; -} - -.icon-folder-open { - width: 16px; - background-position: -408px -120px; -} - -.icon-resize-vertical { - background-position: -432px -119px; -} - -.icon-resize-horizontal { - background-position: -456px -118px; -} - -.icon-hdd { - background-position: 0 -144px; -} - -.icon-bullhorn { - background-position: -24px -144px; -} - -.icon-bell { - background-position: -48px -144px; -} - -.icon-certificate { - background-position: -72px -144px; -} - -.icon-thumbs-up { - background-position: -96px -144px; -} - -.icon-thumbs-down { - background-position: -120px -144px; -} - -.icon-hand-right { - background-position: -144px -144px; -} - -.icon-hand-left { - background-position: -168px -144px; -} - -.icon-hand-up { - background-position: -192px -144px; -} - -.icon-hand-down { - background-position: -216px -144px; -} - -.icon-circle-arrow-right { - background-position: -240px -144px; -} - -.icon-circle-arrow-left { - background-position: -264px -144px; -} - -.icon-circle-arrow-up { - background-position: -288px -144px; -} - -.icon-circle-arrow-down { - background-position: -312px -144px; -} - -.icon-globe { - background-position: -336px -144px; -} - -.icon-wrench { - background-position: -360px -144px; -} - -.icon-tasks { - background-position: -384px -144px; -} - -.icon-filter { - background-position: -408px -144px; -} - -.icon-briefcase { - background-position: -432px -144px; -} - -.icon-fullscreen { - background-position: -456px -144px; -} - -.dropup, -.dropdown { - position: relative; -} - -.dropdown-toggle { - *margin-bottom: -3px; -} - -.dropdown-toggle:active, -.open .dropdown-toggle { - outline: 0; -} - -.caret { - display: inline-block; - width: 0; - height: 0; - vertical-align: top; - border-top: 4px solid #000000; - border-right: 4px solid transparent; - border-left: 4px solid transparent; - content: ""; -} - -.dropdown .caret { - margin-top: 8px; - margin-left: 2px; -} - -.dropdown-menu { - position: absolute; - top: 100%; - left: 0; - z-index: 1000; - display: none; - float: left; - min-width: 160px; - padding: 5px 0; - margin: 2px 0 0; - list-style: none; - background-color: #ffffff; - border: 1px solid #ccc; - border: 1px solid rgba(0, 0, 0, 0.2); - *border-right-width: 2px; - *border-bottom-width: 2px; - -webkit-border-radius: 6px; - -moz-border-radius: 6px; - border-radius: 6px; - -webkit-box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); - -moz-box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); - box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); - -webkit-background-clip: padding-box; - -moz-background-clip: padding; - background-clip: padding-box; -} - -.dropdown-menu.pull-right { - right: 0; - left: auto; -} - -.dropdown-menu .divider { - *width: 100%; - height: 1px; - margin: 9px 1px; - *margin: -5px 0 5px; - overflow: hidden; - background-color: #e5e5e5; - border-bottom: 1px solid #ffffff; -} - -.dropdown-menu > li > a { - display: block; - padding: 3px 20px; - clear: both; - font-weight: normal; - line-height: 20px; - color: #333333; - white-space: nowrap; -} - -.dropdown-menu > li > a:hover, -.dropdown-menu > li > a:focus, -.dropdown-submenu:hover > a, -.dropdown-submenu:focus > a { - color: #ffffff; - text-decoration: none; - background-color: #0081c2; - background-image: -moz-linear-gradient(top, #0088cc, #0077b3); - background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#0088cc), to(#0077b3)); - background-image: -webkit-linear-gradient(top, #0088cc, #0077b3); - background-image: -o-linear-gradient(top, #0088cc, #0077b3); - background-image: linear-gradient(to bottom, #0088cc, #0077b3); - background-repeat: repeat-x; - filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff0088cc', endColorstr='#ff0077b3', GradientType=0); -} - -.dropdown-menu > .active > a, -.dropdown-menu > .active > a:hover, -.dropdown-menu > .active > a:focus { - color: #ffffff; - text-decoration: none; - background-color: #0081c2; - background-image: -moz-linear-gradient(top, #0088cc, #0077b3); - background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#0088cc), to(#0077b3)); - background-image: -webkit-linear-gradient(top, #0088cc, #0077b3); - background-image: -o-linear-gradient(top, #0088cc, #0077b3); - background-image: linear-gradient(to bottom, #0088cc, #0077b3); - background-repeat: repeat-x; - outline: 0; - filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff0088cc', endColorstr='#ff0077b3', GradientType=0); -} - -.dropdown-menu > .disabled > a, -.dropdown-menu > .disabled > a:hover, -.dropdown-menu > .disabled > a:focus { - color: #999999; -} - -.dropdown-menu > .disabled > a:hover, -.dropdown-menu > .disabled > a:focus { - text-decoration: none; - cursor: default; - background-color: transparent; - background-image: none; - filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); -} - -.open { - *z-index: 1000; -} - -.open > .dropdown-menu { - display: block; -} - -.dropdown-backdrop { - position: fixed; - top: 0; - right: 0; - bottom: 0; - left: 0; - z-index: 990; -} - -.pull-right > .dropdown-menu { - right: 0; - left: auto; -} - -.dropup .caret, -.navbar-fixed-bottom .dropdown .caret { - border-top: 0; - border-bottom: 4px solid #000000; - content: ""; -} - -.dropup .dropdown-menu, -.navbar-fixed-bottom .dropdown .dropdown-menu { - top: auto; - bottom: 100%; - margin-bottom: 1px; -} - -.dropdown-submenu { - position: relative; -} - -.dropdown-submenu > .dropdown-menu { - top: 0; - left: 100%; - margin-top: -6px; - margin-left: -1px; - -webkit-border-radius: 0 6px 6px 6px; - -moz-border-radius: 0 6px 6px 6px; - border-radius: 0 6px 6px 6px; -} - -.dropdown-submenu:hover > .dropdown-menu { - display: block; -} - -.dropup .dropdown-submenu > .dropdown-menu { - top: auto; - bottom: 0; - margin-top: 0; - margin-bottom: -2px; - -webkit-border-radius: 5px 5px 5px 0; - -moz-border-radius: 5px 5px 5px 0; - border-radius: 5px 5px 5px 0; -} - -.dropdown-submenu > a:after { - display: block; - float: right; - width: 0; - height: 0; - margin-top: 5px; - margin-right: -10px; - border-color: transparent; - border-left-color: #cccccc; - border-style: solid; - border-width: 5px 0 5px 5px; - content: " "; -} - -.dropdown-submenu:hover > a:after { - border-left-color: #ffffff; -} - -.dropdown-submenu.pull-left { - float: none; -} - -.dropdown-submenu.pull-left > .dropdown-menu { - left: -100%; - margin-left: 10px; - -webkit-border-radius: 6px 0 6px 6px; - -moz-border-radius: 6px 0 6px 6px; - border-radius: 6px 0 6px 6px; -} - -.dropdown .dropdown-menu .nav-header { - padding-right: 20px; - padding-left: 20px; -} - -.typeahead { - z-index: 1051; - margin-top: 2px; - -webkit-border-radius: 4px; - -moz-border-radius: 4px; - border-radius: 4px; -} - -.well { - min-height: 20px; - padding: 19px; - margin-bottom: 20px; - background-color: #f5f5f5; - border: 1px solid #e3e3e3; - -webkit-border-radius: 4px; - -moz-border-radius: 4px; - border-radius: 4px; - -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.05); - -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.05); - box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.05); -} - -.well blockquote { - border-color: #ddd; - border-color: rgba(0, 0, 0, 0.15); -} - -.well-large { - padding: 24px; - -webkit-border-radius: 6px; - -moz-border-radius: 6px; - border-radius: 6px; -} - -.well-small { - padding: 9px; - -webkit-border-radius: 3px; - -moz-border-radius: 3px; - border-radius: 3px; -} - -.fade { - opacity: 0; - -webkit-transition: opacity 0.15s linear; - -moz-transition: opacity 0.15s linear; - -o-transition: opacity 0.15s linear; - transition: opacity 0.15s linear; -} - -.fade.in { - opacity: 1; -} - -.collapse { - position: relative; - height: 0; - overflow: hidden; - -webkit-transition: height 0.35s ease; - -moz-transition: height 0.35s ease; - -o-transition: height 0.35s ease; - transition: height 0.35s ease; -} - -.collapse.in { - height: auto; -} - -.close { - float: right; - font-size: 20px; - font-weight: bold; - line-height: 20px; - color: #000000; - text-shadow: 0 1px 0 #ffffff; - opacity: 0.2; - filter: alpha(opacity=20); -} - -.close:hover, -.close:focus { - color: #000000; - text-decoration: none; - cursor: pointer; - opacity: 0.4; - filter: alpha(opacity=40); -} - -button.close { - padding: 0; - cursor: pointer; - background: transparent; - border: 0; - -webkit-appearance: none; -} - -.btn { - display: inline-block; - *display: inline; - padding: 4px 12px; - margin-bottom: 0; - *margin-left: .3em; - font-size: 14px; - line-height: 20px; - color: #333333; - text-align: center; - text-shadow: 0 1px 1px rgba(255, 255, 255, 0.75); - vertical-align: middle; - cursor: pointer; - background-color: #f5f5f5; - *background-color: #e6e6e6; - background-image: -moz-linear-gradient(top, #ffffff, #e6e6e6); - background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#ffffff), to(#e6e6e6)); - background-image: -webkit-linear-gradient(top, #ffffff, #e6e6e6); - background-image: -o-linear-gradient(top, #ffffff, #e6e6e6); - background-image: linear-gradient(to bottom, #ffffff, #e6e6e6); - background-repeat: repeat-x; - border: 1px solid #cccccc; - *border: 0; - border-color: #e6e6e6 #e6e6e6 #bfbfbf; - border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); - border-bottom-color: #b3b3b3; - -webkit-border-radius: 4px; - -moz-border-radius: 4px; - border-radius: 4px; - filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ffffffff', endColorstr='#ffe6e6e6', GradientType=0); - filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); - *zoom: 1; - -webkit-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); - -moz-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); - box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); -} - -.btn:hover, -.btn:focus, -.btn:active, -.btn.active, -.btn.disabled, -.btn[disabled] { - color: #333333; - background-color: #e6e6e6; - *background-color: #d9d9d9; -} - -.btn:active, -.btn.active { - background-color: #cccccc \9; -} - -.btn:first-child { - *margin-left: 0; -} - -.btn:hover, -.btn:focus { - color: #333333; - text-decoration: none; - background-position: 0 -15px; - -webkit-transition: background-position 0.1s linear; - -moz-transition: background-position 0.1s linear; - -o-transition: background-position 0.1s linear; - transition: background-position 0.1s linear; -} - -.btn:focus { - outline: thin dotted #333; - outline: 5px auto -webkit-focus-ring-color; - outline-offset: -2px; -} - -.btn.active, -.btn:active { - background-image: none; - outline: 0; - -webkit-box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); - -moz-box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); - box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); -} - -.btn.disabled, -.btn[disabled] { - cursor: default; - background-image: none; - opacity: 0.65; - filter: alpha(opacity=65); - -webkit-box-shadow: none; - -moz-box-shadow: none; - box-shadow: none; -} - -.btn-large { - padding: 11px 19px; - font-size: 17.5px; - -webkit-border-radius: 6px; - -moz-border-radius: 6px; - border-radius: 6px; -} - -.btn-large [class^="icon-"], -.btn-large [class*=" icon-"] { - margin-top: 4px; -} - -.btn-small { - padding: 2px 10px; - font-size: 11.9px; - -webkit-border-radius: 3px; - -moz-border-radius: 3px; - border-radius: 3px; -} - -.btn-small [class^="icon-"], -.btn-small [class*=" icon-"] { - margin-top: 0; -} - -.btn-mini [class^="icon-"], -.btn-mini [class*=" icon-"] { - margin-top: -1px; -} - -.btn-mini { - padding: 0 6px; - font-size: 10.5px; - -webkit-border-radius: 3px; - -moz-border-radius: 3px; 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- *background-color: #151515; -} - -.btn-inverse:active, -.btn-inverse.active { - background-color: #080808 \9; -} - -button.btn, -input[type="submit"].btn { - *padding-top: 3px; - *padding-bottom: 3px; -} - -button.btn::-moz-focus-inner, -input[type="submit"].btn::-moz-focus-inner { - padding: 0; - border: 0; -} - -button.btn.btn-large, -input[type="submit"].btn.btn-large { - *padding-top: 7px; - *padding-bottom: 7px; -} - -button.btn.btn-small, -input[type="submit"].btn.btn-small { - *padding-top: 3px; - *padding-bottom: 3px; -} - -button.btn.btn-mini, -input[type="submit"].btn.btn-mini { - *padding-top: 1px; - *padding-bottom: 1px; -} - -.btn-link, -.btn-link:active, -.btn-link[disabled] { - background-color: transparent; - background-image: none; - -webkit-box-shadow: none; - -moz-box-shadow: none; - box-shadow: none; -} - -.btn-link { - color: #0088cc; - cursor: pointer; - border-color: transparent; - -webkit-border-radius: 0; - -moz-border-radius: 0; - border-radius: 0; -} - -.btn-link:hover, -.btn-link:focus { - color: #005580; - text-decoration: underline; - background-color: transparent; -} - -.btn-link[disabled]:hover, -.btn-link[disabled]:focus { - color: #333333; - text-decoration: none; -} - -.btn-group { - position: relative; - display: inline-block; - *display: inline; - *margin-left: .3em; - font-size: 0; - white-space: nowrap; - vertical-align: middle; - *zoom: 1; -} - -.btn-group:first-child { - *margin-left: 0; -} - -.btn-group + .btn-group { - margin-left: 5px; -} - -.btn-toolbar { - margin-top: 10px; - margin-bottom: 10px; - font-size: 0; -} - -.btn-toolbar > .btn + .btn, -.btn-toolbar > .btn-group + .btn, -.btn-toolbar > .btn + .btn-group { - margin-left: 5px; -} - -.btn-group > .btn { - position: relative; - -webkit-border-radius: 0; - -moz-border-radius: 0; - border-radius: 0; -} - -.btn-group > .btn + .btn { - margin-left: -1px; -} - -.btn-group > .btn, -.btn-group > .dropdown-menu, -.btn-group > .popover { - font-size: 14px; -} - -.btn-group > .btn-mini { - font-size: 10.5px; -} - -.btn-group > .btn-small { - font-size: 11.9px; -} - -.btn-group > .btn-large { - font-size: 17.5px; -} - -.btn-group > .btn:first-child { - margin-left: 0; - -webkit-border-bottom-left-radius: 4px; - border-bottom-left-radius: 4px; - -webkit-border-top-left-radius: 4px; - border-top-left-radius: 4px; - -moz-border-radius-bottomleft: 4px; - -moz-border-radius-topleft: 4px; -} - -.btn-group > .btn:last-child, -.btn-group > .dropdown-toggle { - -webkit-border-top-right-radius: 4px; - border-top-right-radius: 4px; - -webkit-border-bottom-right-radius: 4px; - border-bottom-right-radius: 4px; - -moz-border-radius-topright: 4px; - -moz-border-radius-bottomright: 4px; -} - -.btn-group > .btn.large:first-child { - margin-left: 0; - -webkit-border-bottom-left-radius: 6px; - border-bottom-left-radius: 6px; - -webkit-border-top-left-radius: 6px; - border-top-left-radius: 6px; - -moz-border-radius-bottomleft: 6px; - -moz-border-radius-topleft: 6px; -} - -.btn-group > .btn.large:last-child, -.btn-group > .large.dropdown-toggle { - -webkit-border-top-right-radius: 6px; 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- padding-right: 5px; - *padding-bottom: 2px; - padding-left: 5px; -} - -.btn-group > .btn-small + .dropdown-toggle { - *padding-top: 5px; - *padding-bottom: 4px; -} - -.btn-group > .btn-large + .dropdown-toggle { - *padding-top: 7px; - padding-right: 12px; - *padding-bottom: 7px; - padding-left: 12px; -} - -.btn-group.open .dropdown-toggle { - background-image: none; - -webkit-box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); - -moz-box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); - box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); -} - -.btn-group.open .btn.dropdown-toggle { - background-color: #e6e6e6; -} - -.btn-group.open .btn-primary.dropdown-toggle { - background-color: #0044cc; -} - -.btn-group.open .btn-warning.dropdown-toggle { - background-color: #f89406; -} - -.btn-group.open .btn-danger.dropdown-toggle { - background-color: #bd362f; -} - -.btn-group.open .btn-success.dropdown-toggle { - background-color: #51a351; 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-} - -.nav-pills > li > a { - padding-top: 8px; - padding-bottom: 8px; - margin-top: 2px; - margin-bottom: 2px; - -webkit-border-radius: 5px; - -moz-border-radius: 5px; - border-radius: 5px; -} - -.nav-pills > .active > a, -.nav-pills > .active > a:hover, -.nav-pills > .active > a:focus { - color: #ffffff; - background-color: #0088cc; -} - -.nav-stacked > li { - float: none; -} - -.nav-stacked > li > a { - margin-right: 0; -} - -.nav-tabs.nav-stacked { - border-bottom: 0; -} - -.nav-tabs.nav-stacked > li > a { - border: 1px solid #ddd; - -webkit-border-radius: 0; - -moz-border-radius: 0; - border-radius: 0; -} - -.nav-tabs.nav-stacked > li:first-child > a { - -webkit-border-top-right-radius: 4px; - border-top-right-radius: 4px; - -webkit-border-top-left-radius: 4px; - border-top-left-radius: 4px; - -moz-border-radius-topright: 4px; - -moz-border-radius-topleft: 4px; -} - -.nav-tabs.nav-stacked > li:last-child > a { - -webkit-border-bottom-right-radius: 4px; - border-bottom-right-radius: 4px; 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-} - -.nav .active .dropdown-toggle .caret { - border-top-color: #fff; - border-bottom-color: #fff; -} - -.nav-tabs .active .dropdown-toggle .caret { - border-top-color: #555555; - border-bottom-color: #555555; -} - -.nav > .dropdown.active > a:hover, -.nav > .dropdown.active > a:focus { - cursor: pointer; -} - -.nav-tabs .open .dropdown-toggle, -.nav-pills .open .dropdown-toggle, -.nav > li.dropdown.open.active > a:hover, -.nav > li.dropdown.open.active > a:focus { - color: #ffffff; - background-color: #999999; - border-color: #999999; -} - -.nav li.dropdown.open .caret, -.nav li.dropdown.open.active .caret, -.nav li.dropdown.open a:hover .caret, -.nav li.dropdown.open a:focus .caret { - border-top-color: #ffffff; - border-bottom-color: #ffffff; - opacity: 1; - filter: alpha(opacity=100); -} - -.tabs-stacked .open > a:hover, -.tabs-stacked .open > a:focus { - border-color: #999999; -} - -.tabbable { - *zoom: 1; -} - -.tabbable:before, -.tabbable:after { - display: table; - line-height: 0; 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- background-image: linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); -} - -.progress-info .bar, -.progress .bar-info { - background-color: #4bb1cf; - background-image: -moz-linear-gradient(top, #5bc0de, #339bb9); - background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#5bc0de), to(#339bb9)); - background-image: -webkit-linear-gradient(top, #5bc0de, #339bb9); - background-image: -o-linear-gradient(top, #5bc0de, #339bb9); - background-image: linear-gradient(to bottom, #5bc0de, #339bb9); - background-repeat: repeat-x; - filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff5bc0de', endColorstr='#ff339bb9', GradientType=0); -} - -.progress-info.progress-striped .bar, -.progress-striped .bar-info { - background-color: #5bc0de; - background-image: -webkit-gradient(linear, 0 100%, 100% 0, color-stop(0.25, rgba(255, 255, 255, 0.15)), color-stop(0.25, transparent), color-stop(0.5, transparent), color-stop(0.5, rgba(255, 255, 255, 0.15)), color-stop(0.75, rgba(255, 255, 255, 0.15)), color-stop(0.75, transparent), to(transparent)); - background-image: -webkit-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); - background-image: -moz-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); - background-image: -o-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); - background-image: linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); -} - -.progress-warning .bar, -.progress .bar-warning { - background-color: #faa732; - background-image: -moz-linear-gradient(top, #fbb450, #f89406); - background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#fbb450), to(#f89406)); - background-image: -webkit-linear-gradient(top, #fbb450, #f89406); - background-image: -o-linear-gradient(top, #fbb450, #f89406); - background-image: linear-gradient(to bottom, #fbb450, #f89406); - background-repeat: repeat-x; - filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#fffbb450', endColorstr='#fff89406', GradientType=0); -} - -.progress-warning.progress-striped .bar, -.progress-striped .bar-warning { - background-color: #fbb450; - background-image: -webkit-gradient(linear, 0 100%, 100% 0, color-stop(0.25, rgba(255, 255, 255, 0.15)), color-stop(0.25, transparent), color-stop(0.5, transparent), color-stop(0.5, rgba(255, 255, 255, 0.15)), color-stop(0.75, rgba(255, 255, 255, 0.15)), color-stop(0.75, transparent), to(transparent)); - background-image: -webkit-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); - background-image: -moz-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); - background-image: -o-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); - background-image: linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); -} - -.accordion { - margin-bottom: 20px; -} - -.accordion-group { - margin-bottom: 2px; - border: 1px solid #e5e5e5; - -webkit-border-radius: 4px; - -moz-border-radius: 4px; - border-radius: 4px; -} - -.accordion-heading { - border-bottom: 0; -} - -.accordion-heading .accordion-toggle { - display: block; - padding: 8px 15px; -} - -.accordion-toggle { - cursor: pointer; -} - -.accordion-inner { - padding: 9px 15px; - border-top: 1px solid #e5e5e5; -} - -.carousel { - position: relative; - margin-bottom: 20px; - line-height: 1; -} - -.carousel-inner { - position: relative; - width: 100%; - overflow: hidden; -} - -.carousel-inner > .item { - position: relative; - display: none; - -webkit-transition: 0.6s ease-in-out left; - -moz-transition: 0.6s ease-in-out left; - -o-transition: 0.6s ease-in-out left; - transition: 0.6s ease-in-out left; -} - -.carousel-inner > .item > img, -.carousel-inner > .item > a > img { - display: block; - line-height: 1; -} - -.carousel-inner > .active, -.carousel-inner > .next, -.carousel-inner > .prev { - display: block; -} - -.carousel-inner > .active { - left: 0; -} - -.carousel-inner > .next, -.carousel-inner > .prev { - position: absolute; - top: 0; - width: 100%; -} - -.carousel-inner > .next { - left: 100%; -} - -.carousel-inner > .prev { - left: -100%; -} - -.carousel-inner > .next.left, -.carousel-inner > .prev.right { - left: 0; -} - -.carousel-inner > .active.left { - left: -100%; -} - -.carousel-inner > .active.right { - left: 100%; -} - -.carousel-control { - position: absolute; - top: 40%; - left: 15px; - width: 40px; - height: 40px; - margin-top: -20px; - font-size: 60px; - font-weight: 100; - line-height: 30px; - color: #ffffff; - text-align: center; - background: #222222; - border: 3px solid #ffffff; - -webkit-border-radius: 23px; - -moz-border-radius: 23px; - border-radius: 23px; - opacity: 0.5; - filter: alpha(opacity=50); -} - -.carousel-control.right { - right: 15px; - left: auto; -} - -.carousel-control:hover, -.carousel-control:focus { - color: #ffffff; - text-decoration: none; - opacity: 0.9; - filter: alpha(opacity=90); -} - -.carousel-indicators { - position: absolute; - top: 15px; - right: 15px; - z-index: 5; - margin: 0; - list-style: none; -} - -.carousel-indicators li { - display: block; - float: left; - width: 10px; - height: 10px; - margin-left: 5px; - text-indent: -999px; - background-color: #ccc; - background-color: rgba(255, 255, 255, 0.25); - border-radius: 5px; -} - -.carousel-indicators .active { - background-color: #fff; -} - -.carousel-caption { - position: absolute; - right: 0; - bottom: 0; - left: 0; - padding: 15px; - background: #333333; - background: rgba(0, 0, 0, 0.75); -} - -.carousel-caption h4, -.carousel-caption p { - line-height: 20px; - color: #ffffff; -} - -.carousel-caption h4 { - margin: 0 0 5px; -} - -.carousel-caption p { - margin-bottom: 0; -} - -.hero-unit { - padding: 60px; - margin-bottom: 30px; - font-size: 18px; - font-weight: 200; - line-height: 30px; - color: inherit; - background-color: #eeeeee; - -webkit-border-radius: 6px; - -moz-border-radius: 6px; - border-radius: 6px; -} - -.hero-unit h1 { - margin-bottom: 0; - font-size: 60px; - line-height: 1; - letter-spacing: -1px; - color: inherit; -} - -.hero-unit li { - line-height: 30px; -} - -.pull-right { - float: right; -} - -.pull-left { - float: left; -} - -.hide { - display: none; -} - -.show { - display: block; -} - -.invisible { - visibility: hidden; -} - -.affix { - position: fixed; -}
--- a/bin/html.pm Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,910 +0,0 @@ -package html; - -use strict; -use warnings; -use File::Basename; - -use Exporter; -our @ISA = qw( Exporter ); -our @EXPORT_OK = qw( &main_page &details_pages &menu_page &ppp_page ); - -sub main_page -{ - my ( $dir, $file, $list_mainTabP, $current, $ma, $ma_uni, $dir_root ) = @_; - my ( $futHashP, $uniqueTabP, $randTabP, $pngTabP ) = get_genome ( $dir, $dir_root ); - - open my $h, '>', $file || die "cannot create $file $!\n"; - header ( $h ); - navbar ( $h, $list_mainTabP, $current ); - print $h "<div class=\"container\"><p><a class=\"btn\" href=\"$current-sub.html\">View details »</a></p></div>\n"; - futurette( $h, $current, $pngTabP, $futHashP ); - print $h "<div class=\"container\"><h2>mappers #: $ma</h2><h2>unique mappers #: $ma_uni</h2> </div>\n"; - carousel2( $h, $uniqueTabP, $randTabP, $dir_root ); - footer($h); - close $h; -} - -sub menu_page -{ - my ( $dir, $file, $list_mainTabP, $current, $min, $max, $simin, $simax, $pimin, $pimax, $dir_root ) = @_; - my $html_ref = $1 if $dir =~ /$dir_root(.*)/; - open my $h, '>', $file || die "cannot create $file $!\n"; - header($h); - navbar ( $h, $list_mainTabP, $current ); - span( $h, $current, $min, $max, $simin, $simax, $pimin, $pimax ); - print $h " <div class=\"container\"> <div class=\"row text-center\"> <img src=\"$html_ref/pie_chart.png\"/><br />\n"; - print $h " <A HREF=\"$html_ref/repartition.txt\">text file</A><br/>\n </div></div>"; - footer($h); - close $h; -} - -sub details_pages -{ - my ( $dir_details, $prefix, $list_mainTabP, $current, $misTE, $dir_root, $ppp ) = @_; - my ($Hex, $HTE, $HG, $NonUniTE, $NonUniG, $UniG ) = get_subgroups( $dir_details, $current, $misTE, $dir_root ); - - my $html_ref = $1.'-PPP.html' if $prefix =~ /$dir_root(.*)/; - open my $h, '>', $prefix.'-TEs.html' || die "cannot create $prefix-TEs.html $!\n"; - header($h); - navbar ( $h, $list_mainTabP, $current ); - if ( $prefix =~ /piRNAs$/ && $ppp eq 'true' ) - { - print $h " <div class=\"container\">"; - print $h " <p><a class=\"btn\" href=\"$html_ref\">Ping Pong Partners</a></p>\n"; - print $h "</div>"; - } - fut($h,'Transposable elements',$HTE); - carousel($h,$NonUniTE,$dir_root); - footer($h); - close $h; - - open $h, '>', $prefix.'-genome.html' || die "cannot create $prefix-genome.html $!\n"; - header($h); - navbar ( $h, $list_mainTabP, $current ); - fut($h,'Genome',$HG); - carousel2($h,$UniG, $NonUniG,$dir_root); - footer($h); - close $h; - - open $h, '>', $prefix.'-transcripts.html' || die "cannot create $prefix-transcripts.html $!\n"; - header($h); - navbar ( $h, $list_mainTabP, $current ); - fut($h,'transcripts',$Hex); - footer($h); - close $h; -} - -sub ppp_page -{ - my ( $dir, $file, $list_mainTabP, $current, $ppp, $dir_root ) = @_; - - my $ppp_file = $ppp.'ppp.txt'; - open my $h, '>', $file || die "cannot create $file $!\n"; - header($h); - navbar ( $h, $list_mainTabP, $current ); - print $h '<div class="container"> <table class="wb-tables table table-striped table-hover">'."\n"; - print $h '<thead> - <tr> - <th data-sortable="true">ID</th> - <th data-sortable="true">overlap sum</th> - <th data-sortable="true">ten overlap sum</th> - <th data-sortable="true">mean</th> - <th data-sortable="true">standard deviation</th> - <th data-sortable="true">z-score</th> - <th data-sortable="true">p-value</th> - </tr> - </thead> - <tbody>'; - - open my $f, '<', $ppp_file || die "cannot open $ppp_file $!\n"; - while ( <$f> ) - { - chomp; - print $h '<tr>'; - my ( $id, $sum, $ten, $mean, $sd, $zscore, $prob) = split /\t/, $_; - if( -d "$ppp/$id" ) - { - my $sub_html = $ppp.$id.'.html'; - my $sub_html_ref = $1.$id if $ppp =~ /$dir_root(.*)/; - print $h "<td> <a href=\"$sub_html_ref.html\">$id</a> </td>"; - - open my $sub, '>', $sub_html || die "cannot create $sub_html\n"; - { - header($sub); - print $sub " - <div align=\"center\"> - <h2>$id</h2> - <p> <img class=\"featurette-image\" src=\"$id/histogram.png\"/></p> - <p><a href=\"$id/overlap_size.txt\">ping pong signature</a></p> - <p><a href=\"$id/sensPPP.txt\">sense reads with PPP</a></p> - <p><a href=\"$id/antisensPPP.txt\">reverse reads with PPP</a></p> - <p><a href=\"$id/sens.txt\">sense reads without PPP</a></p> - <p><a href=\"$id/antisens.txt\">reverse reads without PPP</a></p> - </div>"; - footer($sub); - } - close $sub; - } - else { print $h "<td> $id </td>\n"; } - print $h "<td> $sum </td><td> $ten </td><td> $mean </td><td> $sd </td><td> $zscore </td><td> $prob </td>\n"; - - print $h '</tr>'; - } - close $f; - print $h "</tbody></table></div>"; - footer($h); - close $h; -} - -sub get_genome -{ - my ( $dir, $dir_root ) = @_; - my ( %hash, @group, @Unique, @NonUnique, @png ); - - my $fut = "'$dir'".'/*'; - my @fut = glob $fut; - - - foreach my $fr ( @fut ) - { - my $f = $1 if $fr =~ /$dir_root(.*)/; - if ( $fr =~ /.*Gviz/ ) - { - my $nu = "'$fr'".'/rand/*'; - @NonUnique = glob $nu; - my $u = "'$fr'".'/unique/*'; - @Unique = glob $u; - } - elsif ( $f =~ /.*distribution\.txt$/ ) { $hash{'mappers size distribution (txt)'} = $f; } - elsif ( $f =~ /.*distribution\.png$/ ) { push @png, $f; } - elsif ( $f =~ /.*unique\.fastq$/ ) { $hash{'unique mappers (fastq.gz)'} = $f.'.gz'; `gzip '$fr'`; } - elsif ( $f =~ /.*rejected\.fastq$/ ) { $hash{'unmapped (fastq.gz)'} = $f.'.gz'; `gzip '$fr'`; } - elsif ( $f =~ /.*all\.fastq$/ ) { $hash{'mappers (fastq.gz)'} = $f.'.gz'; `gzip '$fr'`; } - elsif ( $f =~ /.*dup_unique\.txt$/ ) { $hash{'unique mappers (txt)'} = $f; } - elsif ( $f =~ /.*dup_mapnum\.txt$/ ) { $hash{'mappers (txt)'} = $f; } - elsif ( $f =~ /.*dup_nonmapp\.txt$/ ) { $hash{'unmapped (txt)'} = $f; } - elsif ( $f =~ /.*_unique_sorted\.bam$/ ) { $hash{'unique alignment (bam)'} = $f; } - elsif ( $f =~ /.*_sorted\.bam$/ ) { $hash{'alignment (bam)'} = $f; } - elsif ( $f =~ /.*unique_plus.bedgraph/) { $hash{'bedgraph unique plus strand'} = $f; } - elsif ( $f =~ /.*unique_minus.bedgraph/) { $hash{'bedgraph unique minus strand'} = $f; } - elsif ( $f =~ /.*plus.bedgraph/) { $hash{'bedgraph plus strand'} = $f; } - elsif ( $f =~ /.*minus.bedgraph/) { $hash{'bedgraph minus strand'} = $f; } - else { unlink $fr; } - } - return (\%hash, \@Unique, \@NonUnique, \@png); -} - -sub span -{ - my ( $file, $name, $min, $max, $simin, $simax, $pimin, $pimax ) = @_; - - print $file " -<div class=\"container text-center\"> - <div class=\"row-fluid\"> - <div class=\"span6\"> - <h2>Bonafide</h2> - reads of size between $min and $max<br>with no mi, sn, t and r RNAs - <p><a class=\"btn\" href=\"$name-bonafide_reads-genome.html\">Genome</a></p> - <p><a class=\"btn\" href=\"$name-bonafide_reads-TEs.html\">TE</a></p> - <p><a class=\"btn\" href=\"$name-bonafide_reads-transcripts.html\">Transcripts</a></p> - <div class=\"row-fluid\"> - <div class=\"span6\"> - <h2>siRNAs</h2> - bonafide reads of size between $simin and $simax - <p><a class=\"btn\" href=\"$name-siRNAs-genome.html\">Genome</a></p> - <p><a class=\"btn\" href=\"$name-siRNAs-TEs.html\">TE</a></p> - <p><a class=\"btn\" href=\"$name-siRNAs-transcripts.html\">Transcripts</a></p> - </div> - <div class=\"span6\"> - <h2>piRNAs</h2> - bonafide reads of size between $pimin and $pimax - <p><a class=\"btn\" href=\"$name-piRNAs-genome.html\">Genome</a></p> - <p><a class=\"btn\" href=\"$name-piRNAs-TEs.html\">TE</a></p> - <p><a class=\"btn\" href=\"$name-piRNAs-transcripts.html\">Transcripts</a></p> - </div> - </div> - </div> - <div class=\"span6\"> - <h2>miRNAs</h2> - <p><a class=\"btn\" href=\"$name-miRNAs-genome.html\">Genome</a></p> - <p><a class=\"btn\" href=\"$name-miRNAs-TEs.html\">TE</a></p> - <p><a class=\"btn\" href=\"$name-miRNAs-transcripts.html\">Transcripts</a></p> - </div> - </div> -</div> -"; -} - -sub get_subgroups -{ - my ( $dir, $name, $misTE, $dir_root ) = @_; - my (%Hex, %HTE, %HG, @group, @png, @pngTE, @NonUniTE, @UniG, @NonUniG ); - - my $fut = "'$dir'".'/*'; - my @fut = glob $fut; - my $f =''; - foreach my $fr ( @fut ) - { - $f = $1 if $fr =~ /$dir_root(.*)/; - - if ( $f =~ /genome_unique_sorted\.bam$/ ) { $HG{'genome unique mappers (sorted bam)'} = $f; } - elsif ( $f =~ /genome_sorted\.bam$/ ) { $HG{'genome mappers (sorted bam)'} = $f; } - elsif ( $f =~ /miRNAs_reads_counts\.txt$/ ) { $HG{'miRNAs per type (txt)'} = $f; } - elsif ( $f =~ /genome_unique_plus\.bedgraph$/) { $HG{'bedgraph unique plus strand'} = $f; } - elsif ( $f =~ /genome_unique_minus\.bedgraph$/) { $HG{'bedgraph unique minus strand'} = $f; } - elsif ( $f =~ /genome_plus\.bedgraph$/) { $HG{'bedgraph plus strand'} = $f; } - elsif ( $f =~ /genome_minus\.bedgraph$/) { $HG{'bedgraph minus strand'} = $f; } - elsif ( $f =~ /TEs_plus\.bedgraph$/) { $HTE{'bedgraph plus strand'} = $f; } - elsif ( $f =~ /TEs_minus\.bedgraph$/) { $HTE{'bedgraph minus strand'} = $f; } - elsif ( $f =~ /transcripts_sorted\.bam$/) { $Hex{'transcripts mappers (sorted bam)'} = $f;} - elsif ( $f =~ /transcripts_unique_sorted\.bam$/) { $Hex{'transcripts unique mappers (sorted bam)'} = $f;} - elsif ( $f =~ /transcripts_reads_counts\.txt$/) { $Hex{'read number per transcript (txt)'} = $f;} - elsif ( $f =~ /TEs_reads_counts\.txt$/) { $HTE{"read number per TE 0 to $misTE mismatches (txt)"} = $f; } - elsif ( $f =~ /TEs_reads_counts_mismatches\.txt$/) { $HTE{"read number per TE with 1 to $misTE mismatches (txt)"} = $f; } - elsif ( $f =~ /TEs_reads_counts_nomismatches\.txt$/) { $HTE{'read number per TE with no mismatch (txt)'} = $f; } - elsif ( $f =~ /TEs_unique_sorted\.bam$/) { $HTE{'TEs unique mappers (sorted bam)'} = $f; } - elsif ( $f =~ /TEs_sorted\.bam$/) { $HTE{'TEs mappers (sorted bam)'} = $f; } - elsif ( $fr =~ /.*Gviz_TEs/ ) - { - my $nu = "'$fr'".'/*'; - @NonUniTE = glob $nu; - } - elsif ( $fr =~ /.*Gviz_genome/ ) - { - my $nu = "'$fr'".'/rand/*'; - @NonUniG = glob $nu; - my $u = "'$fr'".'/unique/*'; - @UniG = glob $u; - } - else { unlink $fr; } - } - return (\%Hex, \%HTE, \%HG, \@NonUniTE, \@NonUniG, \@UniG); -} - -sub header -{ - my $file = shift; - print $file " - <!DOCTYPE html> - <html lang=\"en\"> - <head> - <meta charset=\"utf-8\"> - <title>pipeline</title> - <meta name=\"viewport\" content=\"width=device-width, initial-scale=1.0\"> - <meta name=\"description\" content=\"\"> - <meta name=\"author\" content=\"\"> - <!-- Le styles --> - <link href=\"css/bootstrap.css\" rel=\"stylesheet\"> - <link href=\"css/bootstrap-table.css\" rel=\"stylesheet\"> - <style type=\"text/css\"> - body { - padding-top: 60px; - padding-bottom: 40px; - } - div#page { - width: 940px; - background-color: #fff; - margin: 0 auto; - text-align: left; - border-color: #fff; - border-style: none solid solid; - border-width: medium 1px 1px; - } - - div.content { - display: none; - float: right; - width: 550px; - } - div.content a, div.navigation a { - text-decoration: none; - color: #777; - } - div.content a:focus, div.content a:hover, div.content a:active { - text-decoration: underline; - } - - div.controls { - margin-top: 5px; - height: 23px; - } - - div.controls a { - padding: 5px; - } - div.ss-controls { - float: left; - } - div.nav-controls { - float: right; - } - div.slideshow-container { - position: relative; - clear: both; - height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */ - } - div.loader { - position: absolute; - top: 0; - left: 0; - background-image: url('loader.gif'); - background-repeat: no-repeat; - background-position: center; - width: 550px; - height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */ - } - div.slideshow { - - } - - div.slideshow span.image-wrapper { - display: block; - position: absolute; - top: 0; - left: 0; - } - div.slideshow a.advance-link { - display: block; - width: 550px; - height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */ - line-height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */ - text-align: center; - } - div.slideshow a.advance-link:hover, div.slideshow a.advance-link:active, div.slideshow a.advance-link:visited { - text-decoration: none; - } - div.slideshow img { - vertical-align: middle; - border: 1px solid #ccc; - } - - div.image-title { - font-weight: bold; - font-size: 1.4em; - } - - div.image-desc { - line-height: 1.3em; - padding-top: 12px; - } - div.navigation { - - } - ul.thumbs { - clear: both; - margin: 0; - padding: 0; - } - ul.thumbs li { - float: none; - padding: 0; - margin: 0; - list-style: none; - } - a.thumb { - padding: 0; - display: inline; - border: none; - } - ul.thumbs li.selected a.thumb { - color: #000; - font-weight: bold; - } - a.thumb:focus { - outline: none; - } - ul.thumbs img { - border: none; - display: block; - } - div.pagination { - clear: both; - } - div.navigation div.top { - margin-bottom: 12px; - height: 11px; - } - div.navigation div.bottom { - margin-top: 12px; - } - div.pagination a, div.pagination span.current, div.pagination span.ellipsis { - display: block; - float: left; - margin-right: 2px; - padding: 4px 7px 2px 7px; - border: 1px solid #ccc; - } - div.pagination a:hover { - background-color: #eee; - text-decoration: none; - } - div.pagination span.current { - font-weight: bold; - background-color: #000; - border-color: #000; - color: #fff; - } - div.pagination span.ellipsis { - border: none; - padding: 5px 0 3px 2px; - } - - div.download { - float: right; - } - - div.caption-container { - position: relative; - clear: left; - height: 75px; - } - span.image-caption { - display: block; - position: absolute; - width: 550px; - top: 0; - left: 0; - } - div.caption { - padding: 12px; - } - - /* Featurettes - ------------------------- */ - - .featurette { - padding-top: 20px; /* Vertically center images part 1: add padding above and below text. */ - overflow: hidden; /* Vertically center images part 2: clear their floats. */ - text-align: center; - } - - .featurette-p - { - text-align: left; - } - - .featurette-image { - margin-top: 10px; /* Vertically center images part 3: negative margin up the image the same amount of the padding to center it. */ - width: 450px; - height: auto; - } - - </style> - <link href=\"css/bootstrap-responsive.css\" rel=\"stylesheet\"> - </head> - <body> - "; -} - -sub navbar -{ - my ( $file, $fastq, $actif ) = @_; - - print $file " - <div class=\"navbar navbar-inverse navbar-fixed-top\"> - <div class=\"navbar-inner\"> - <div class=\"container\"> - <button type=\"button\" class=\"btn btn-navbar\" data-toggle=\"collapse\" data-target=\".nav-collapse\"> - <span class=\"icon-bar\"></span> - <span class=\"icon-bar\"></span> - <span class=\"icon-bar\"></span> - </button> - <a class=\"brand\" href=\"report.txt\">Report</a> - <div class=\"nav-collapse collapse\"> - <ul class=\"nav\"> - "; - for (my $i = 0 ; $i <= $#{$fastq}; $i++) - { - # my $fa = basename($fastq->[$i],'.dat'); - my $fa = $fastq->[$i]; - if ($actif eq $fa){ print $file "<li class=\"active\"><a href=\"$fastq->[$i].html\">$fa</a></li>";} - else {print $file "<li><a href=\"$fastq->[$i].html\">$fa</a></li>" ;} - } - print $file " - </ul> - </div><!--/.nav-collapse --> - </div> - </div> - </div>"; -} - -sub footer -{ - my $file = shift; - print $file " - <!-- FOOTER --> - <div class=\"container\"> - <footer> - - </footer> - </div> - <!-- Le javascript - ================================================== --> - <!-- Placed at the end of the document so the pages load faster --> - <script type=\"text/javascript\" src=\"js/filter.js\"></script> - <script type=\"text/javascript\" src=\"js/jquery.js\"></script> - <script type=\"text/javascript\" src=\"js/jquery-1.3.2.js\"></script> - <script type=\"text/javascript\" src=\"js/jquery.galleriffic.js\"></script> - <script type=\"text/javascript\" src=\"js/jquery.opacityrollover.js\"></script> - <script type=\"text/javascript\" src=\"js/bootstrap-table.js\"></script> - <script type=\"text/javascript\" src=\"js/bootstrap.min.js\"></script> - <script type=\"text/javascript\"> - jQuery(document).ready(function(\$) { - // We only want these styles applied when javascript is enabled - \$('div.navigation').css({'width' : '300px', 'float' : 'left'}); - \$('div.content').css('display', 'block'); - - \$(\".each-gallery\").each(function(i){ - // Initially set opacity on thumbs and add - // additional styling for hover effect on thumbs - var onMouseOutOpacity = 0.67; - \$('#thumbs + i + ul.thumbs li').opacityrollover({ - mouseOutOpacity: onMouseOutOpacity, - mouseOverOpacity: 1.0, - fadeSpeed: 'fast', - exemptionSelector: '.selected' - }); - - // Initialize Advanced Galleriffic Gallery - var gallery = \$('#thumbs'+i).galleriffic({ - delay: 2500, - numThumbs: 22, - preloadAhead: 10, - enableTopPager: true, - enableBottomPager: true, - maxPagesToShow: 7, - imageContainerSel: '#slideshow'+ i, - controlsContainerSel: '#controls' + i, - captionContainerSel: '#caption' + i, - loadingContainerSel: '#loading' + i, - renderSSControls: true, - renderNavControls: true, - playLinkText: 'Play', - pauseLinkText: 'Pause', - prevLinkText: '‹ Previous', - nextLinkText: 'Next ›', - nextPageLinkText: 'Next ›', - prevPageLinkText: '‹ Prev', - enableHistory: false, - autoStart: false, - syncTransitions: true, - defaultTransitionDuration: 900, - onSlideChange: function(prevIndex, nextIndex) { - // 'this' refers to the gallery, which is an extension of \$('#thumbs') - this.find('ul.thumbs').children() - .eq(prevIndex).fadeTo('fast', onMouseOutOpacity).end() - .eq(nextIndex).fadeTo('fast', 1.0); - }, - onPageTransitionOut: function(callback) { - this.fadeTo('fast', 0.0, callback); - }, - onPageTransitionIn: function() { - this.fadeTo('fast', 1.0); - } - }); - }); - }); - </script> - </body> - </html> - "; -} - -sub carousel -{ - my ($file, $non_unique, $dir_root) = @_; - my $ac = 0; - print $file " - <div id=\"page\"> - <div id=\"container\"> - <div class=\"each-gallery\"> - <div id=\"gallery\" class=\"content\"> - <div id=\"controls0\" class=\"controls\"></div> - <div class=\"slideshow-container\"> - <div id=\"loading0\" class=\"loader\"></div> - <div id=\"slideshow0\" class=\"slideshow\"></div> - </div> - <div id=\"caption0\" class=\"caption-container\">Reads randomly assigned</div> - </div> - <div id=\"thumbs0\" class=\"navigation\"> - <input type=\"text\" id=\"myInput0\" onkeyup=\"search(this)\" placeholder=\"Search for names...\"> - <ul class=\"thumbs noscript\"> - "; - foreach my $u (@{$non_unique}) - { - my $name = basename($u,'.png'); - $u = $1 if $u =~ /$dir_root(.*)/; - print $file " - <li> - <a class=\"thumb\" href=\"$u\" title=\"$name\">$name</a> - </li> - "; - } - print $file " - </ul> - </div> - <div style=\"clear: both;\"></div></div> - </div> - </div> - "; -} - -sub carousel2 -{ - my ($file, $unique, $non_unique, $dir_root) = @_; - print $file " - <div id=\"page\"> - <div id=\"container\"> - <div class=\"each-gallery\"> - <div id=\"gallery\" class=\"content\"> - <div id=\"controls0\" class=\"controls\"></div> - <div class=\"slideshow-container\"> - <div id=\"loading0\" class=\"loader\"></div> - <div id=\"slideshow0\" class=\"slideshow\"></div> - </div> - <div id=\"caption0\" class=\"caption-container\">Uniquely mapped reads</div> - </div> - <div id=\"thumbs0\" class=\"navigation\"> - <input type=\"text\" id=\"myInput0\" onkeyup=\"search(this)\" placeholder=\"Search for names...\"> - <ul class=\"thumbs noscript\"> - "; - - foreach my $u (@{$unique}) - { - my $name = basename($u,'.png'); - $u = $1 if $u =~ /$dir_root(.*)/; - print $file " - <li> - <a class=\"thumb\" href=\"$u\" title=\"$name\">$name</a> - </li> - "; - } - print $file " - </ul> - </div> - </div> - <div id=\"page\"> - <div id=\"container\"> - <div class=\"each-gallery\"> - <div id=\"gallery\" class=\"content\"> - <div id=\"controls1\" class=\"controls\"></div> - <div class=\"slideshow-container\"> - <div id=\"loading1\" class=\"loader\"></div> - <div id=\"slideshow1\" class=\"slideshow\"></div> - </div> - <div id=\"caption1\" class=\"caption-container\">Reads randomly assigned</div> - </div> - <div id=\"thumbs1\" class=\"navigation\"> - <input type=\"text\" id=\"myInput1\" onkeyup=\"search(this)\" placeholder=\"Search for names...\"> - <ul class=\"thumbs noscript\"> - "; - - foreach my $nu (@{$non_unique}) - { - my $name = basename($nu,'.png'); - $nu = $1 if $nu =~ /$dir_root(.*)/; - print $file " - <li> - <a class=\"thumb\" href=\"$nu\" title=\"$name\">$name</a> - </li> - "; - } - print $file " - </ul> - </div> - <div style=\"clear: both;\"></div></div> - </div> - </div> - "; -} - -sub futurette -{ - my ($file, $name, $png, $hash) = @_; - print $file " - <div class=\"container\"> - <div class=\"featurette\"> - <h1>$name</h1> - <p class=\"featurette-p\"> - "; - foreach my $k (sort keys %{$hash}) - { - print $file "<A HREF=\"".${$hash}{$k}."\">$k</A><br/> \n" ; - } - - print $file " - </p>"; - - foreach my $pn (@{$png}){print $file "<img class=\"featurette-image\" src=\"$pn\"/><br />";} - - print $file " - </div> - </div> - "; -} - -sub fut -{ - my ($file, $name, $hash) = @_; - print $file " - <div class=\"container\"> - <div class=\"featurette\"> - <h1>$name</h1> - <p class=\"featurette-p\"> - "; - - foreach my $k (sort { ${$hash}{$a} cmp ${$hash}{$b} } keys %{$hash}) - { - print $file "<A HREF=\"".${$hash}{$k}."\">$k</A><br/> \n" ; - } - - print $file " - </p> - </div> - </div> - "; -} - -sub get_distri_exon -{ - my ($dir, $name) = @_; - my (@out,@group); - my $group = "'$dir'".'/'."'$name'".'-subgroups-bonafide_reads-transcripts-*distribution-*.png'; - @group = glob $group; - foreach (my $g =0; $g <= $#group; $g++) - { - if ($group[$g] =~ /.*($name-subgroups-bonafide_reads-transcripts-.*distribution-.*\.png)/ ) - { - my $tmp = $1; - push @out, $1; - } - } - return (\@out); -} - -sub get_distri_TE -{ - my ($dir, $name) = @_; - my (@out,@group); - my $group = "'$dir'".'/'."'$name'".'-subgroups-bonafide_reads-TE-*distribution-*.png'; - @group = glob $group; - foreach (my $g =0; $g <= $#group; $g++) - { - if ($group[$g] =~ /.*($name-subgroups-bonafide_reads-TE-.*distribution-.*\.png)/ ) - { - my $tmp = $1; - push @out, $1; - } - } - return (\@out); -} - -sub get_PPP -{ - my ($dir,$name) = @_; - my (%distri,@group); - my $group = "'$dir'".'/'."'$name'".'-subgroups-bonafide_reads-TE-PPPartners-*'; - @group = glob $group; - - foreach (my $g =0; $g <= $#group; $g++) - { - if ($group[$g] =~ /.*($name-subgroups-bonafide_reads-TE-PPPartners-.*)/ ) - { - my $tmp = $1; - if ($tmp =~ /PPPartners-(.*?)-sens\.txt$/) - { - $distri{$1} = ['','','','','',''] unless exists $distri{$1}; - $distri{$1}->[0] = $tmp; - } - elsif ($tmp =~ /PPPartners-(.*?)-antisens\.txt$/) - { - $distri{$1} = ['','','','','',''] unless exists $distri{$1}; - $distri{$1}->[1] = $tmp; - } - elsif ($tmp =~ /PPPartners-(.*?)-sensPPP\.txt$/) - { - $distri{$1} = ['','','','','',''] unless exists $distri{$1}; - $distri{$1}->[2] = $tmp; - } - elsif ($tmp =~ /PPPartners-(.*?)-antisensPPP\.txt$/) - { - $distri{$1} = ['','','','','',''] unless exists $distri{$1}; - $distri{$1}->[3] = $tmp; - } - elsif ($tmp =~ /PPPartners-(.*?)-overlap_size\.txt$/) - { - $distri{$1} = ['','','','','',''] unless exists $distri{$1}; - $distri{$1}->[4] = $tmp; - } - elsif ($tmp =~ /PPPartners-(.*?)-histogram\.png$/) - { - $distri{$1} = ['','','','','',''] unless exists $distri{$1}; - $distri{$1}->[5] = $tmp; - } - } - } - return \%distri; -} - -sub PPPrint -{ - my ($h, $hash) = @_; - my $cmp = 0; - - print $h "<div class=\"container\">\n"; - print $h "<div class=\"row text-center\">"; - while ( my ($k,$v) = each %{$hash} ) - { - print $h "</div><div class=\"row text-center\">" if $cmp != 0 && $cmp % 2 == 0; - print $h " - - <div class=\"span6\"> - <h2>$k</h2> - <p class=\"featurette-p\"> <img src=\"$v->[5]\"/></p> - <p class=\"featurette-p\"><a href=\"$v->[4]\">ping pong signature</a></p> - <p class=\"featurette-p\"><a href=\"$v->[2]\">sense reads with PPP</a></p> - <p class=\"featurette-p\"><a href=\"$v->[3]\">reverse reads with PPP</a></p> - <p class=\"featurette-p\"><a href=\"$v->[0]\">sense reads without PPP</a></p> - <p class=\"featurette-p\"><a href=\"$v->[1]\">reverse reads without PPP</a></p> - </div> - "; - $cmp++; - } - - print $h "</div></div>"; -} - -sub printDistri -{ - my ($h, $tab) = @_; - my ($txt, $name); - my $cmp = 0; - print $h "<div class=\"container\">\n"; - print $h "<div class=\"row text-center\">"; - foreach my $k (@{$tab}) - { - if ($k =~ /(.*)-(.*)\.png$/) - { - $txt = $1.'-'.$2.'.txt'; - $name = $2; - } - print $h "</div><div class=\"row text-center\">" if $cmp != 0 && $cmp % 2 == 0; - print $h " - - <div class=\"span6\"> - <h2>$name</h2> - <p> <img src=\"$k\"/></p> - <p class=\"featurette-p\"><a href=\"$txt\">text file</a></p> - </div> - "; - $cmp++; - } - - print $h "</div></div>"; -} - -sub mapnum -{ - my $dupmapnum = shift; - my $dupnum_genome = shift; - open (my $dupTE, $dupmapnum) || die "cannot open ".$dupmapnum."\n"; - my %dupnum_TE = (); - my $header = <$dupTE>; - while (<$dupTE>) - { - chomp $_; - my @dupline = split /\t/, $_; - $dupnum_TE{$dupline[0]} = $dupline[2]; - } - close $dupTE; - open (my $du_TE, '>'.$dupmapnum) || die "cannot open to write ".$dupmapnum."\n"; - print $du_TE "sequence\tduplicate\tgenome map num\tmap num\n"; - while (my ($k, $v) = each %dupnum_TE ) - { - my $hashRef = ${$dupnum_genome}{$k}; - print $du_TE "$k\t$hashRef->[0]\t$hashRef->[1]\t$v\n"; - } - close $du_TE; -} - -1;
--- a/bin/js/bootstrap-table.js Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,3094 +0,0 @@ -/** - * @author zhixin wen <wenzhixin2010@gmail.com> - * version: 1.11.1 - * https://github.com/wenzhixin/bootstrap-table/ - */ - -(function ($) { - 'use strict'; - - // TOOLS DEFINITION - // ====================== - - var cachedWidth = null; - - // it only does '%s', and return '' when arguments are undefined - var sprintf = function (str) { - var args = arguments, - flag = true, - i = 1; - - str = str.replace(/%s/g, function () { - var arg = args[i++]; - - if (typeof arg === 'undefined') { - flag = false; - return ''; - } - return arg; - }); - return flag ? str : ''; - }; - - var getPropertyFromOther = function (list, from, to, value) { - var result = ''; - $.each(list, function (i, item) { - if (item[from] === value) { - result = item[to]; - return false; - } - return true; - }); - return result; - }; - - var getFieldIndex = function (columns, field) { - var index = -1; - - $.each(columns, function (i, column) { - if (column.field === field) { - index = i; - return false; - } - return true; - }); - return index; - }; - - // http://jsfiddle.net/wenyi/47nz7ez9/3/ - var setFieldIndex = function (columns) { - var i, j, k, - totalCol = 0, - flag = []; - - for (i = 0; i < columns[0].length; i++) { - totalCol += columns[0][i].colspan || 1; - } - - for (i = 0; i < columns.length; i++) { - flag[i] = []; - for (j = 0; j < totalCol; j++) { - flag[i][j] = false; - } - } - - for (i = 0; i < columns.length; i++) { - for (j = 0; j < columns[i].length; j++) { - var r = columns[i][j], - rowspan = r.rowspan || 1, - colspan = r.colspan || 1, - index = $.inArray(false, flag[i]); - - if (colspan === 1) { - r.fieldIndex = index; - // when field is undefined, use index instead - if (typeof r.field === 'undefined') { - r.field = index; - } - } - - for (k = 0; k < rowspan; k++) { - flag[i + k][index] = true; - } - for (k = 0; k < colspan; k++) { - flag[i][index + k] = true; - } - } - } - }; - - var getScrollBarWidth = function () { - if (cachedWidth === null) { - var inner = $('<p/>').addClass('fixed-table-scroll-inner'), - outer = $('<div/>').addClass('fixed-table-scroll-outer'), - w1, w2; - - outer.append(inner); - $('body').append(outer); - - w1 = inner[0].offsetWidth; - outer.css('overflow', 'scroll'); - w2 = inner[0].offsetWidth; - - if (w1 === w2) { - w2 = outer[0].clientWidth; - } - - outer.remove(); - cachedWidth = w1 - w2; - } - return cachedWidth; - }; - - var calculateObjectValue = function (self, name, args, defaultValue) { - var func = name; - - if (typeof name === 'string') { - // support obj.func1.func2 - var names = name.split('.'); - - if (names.length > 1) { - func = window; - $.each(names, function (i, f) { - func = func[f]; - }); - } else { - func = window[name]; - } - } - if (typeof func === 'object') { - return func; - } - if (typeof func === 'function') { - return func.apply(self, args || []); - } - if (!func && typeof name === 'string' && sprintf.apply(this, [name].concat(args))) { - return sprintf.apply(this, [name].concat(args)); - } - return defaultValue; - }; - - var compareObjects = function (objectA, objectB, compareLength) { - // Create arrays of property names - var objectAProperties = Object.getOwnPropertyNames(objectA), - objectBProperties = Object.getOwnPropertyNames(objectB), - propName = ''; - - if (compareLength) { - // If number of properties is different, objects are not equivalent - if (objectAProperties.length !== objectBProperties.length) { - return false; - } - } - - for (var i = 0; i < objectAProperties.length; i++) { - propName = objectAProperties[i]; - - // If the property is not in the object B properties, continue with the next property - if ($.inArray(propName, objectBProperties) > -1) { - // If values of same property are not equal, objects are not equivalent - if (objectA[propName] !== objectB[propName]) { - return false; - } - } - } - - // If we made it this far, objects are considered equivalent - return true; - }; - - var escapeHTML = function (text) { - if (typeof text === 'string') { - return text - .replace(/&/g, '&') - .replace(/</g, '<') - .replace(/>/g, '>') - .replace(/"/g, '"') - .replace(/'/g, ''') - .replace(/`/g, '`'); - } - return text; - }; - - var getRealDataAttr = function (dataAttr) { - for (var attr in dataAttr) { - var auxAttr = attr.split(/(?=[A-Z])/).join('-').toLowerCase(); - if (auxAttr !== attr) { - dataAttr[auxAttr] = dataAttr[attr]; - delete dataAttr[attr]; - } - } - - return dataAttr; - }; - - var getItemField = function (item, field, escape) { - var value = item; - - if (typeof field !== 'string' || item.hasOwnProperty(field)) { - return escape ? escapeHTML(item[field]) : item[field]; - } - var props = field.split('.'); - for (var p in props) { - if (props.hasOwnProperty(p)) { - value = value && value[props[p]]; - } - } - return escape ? escapeHTML(value) : value; - }; - - var isIEBrowser = function () { - return !!(navigator.userAgent.indexOf("MSIE ") > 0 || !!navigator.userAgent.match(/Trident.*rv\:11\./)); - }; - - var objectKeys = function () { - // From https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/Object/keys - if (!Object.keys) { - Object.keys = (function() { - var hasOwnProperty = Object.prototype.hasOwnProperty, - hasDontEnumBug = !({ toString: null }).propertyIsEnumerable('toString'), - dontEnums = [ - 'toString', - 'toLocaleString', - 'valueOf', - 'hasOwnProperty', - 'isPrototypeOf', - 'propertyIsEnumerable', - 'constructor' - ], - dontEnumsLength = dontEnums.length; - - return function(obj) { - if (typeof obj !== 'object' && (typeof obj !== 'function' || obj === null)) { - throw new TypeError('Object.keys called on non-object'); - } - - var result = [], prop, i; - - for (prop in obj) { - if (hasOwnProperty.call(obj, prop)) { - result.push(prop); - } - } - - if (hasDontEnumBug) { - for (i = 0; i < dontEnumsLength; i++) { - if (hasOwnProperty.call(obj, dontEnums[i])) { - result.push(dontEnums[i]); - } - } - } - return result; - }; - }()); - } - }; - - // BOOTSTRAP TABLE CLASS DEFINITION - // ====================== - - var BootstrapTable = function (el, options) { - this.options = options; - this.$el = $(el); - this.$el_ = this.$el.clone(); - this.timeoutId_ = 0; - this.timeoutFooter_ = 0; - - this.init(); - }; - - BootstrapTable.DEFAULTS = { - classes: 'table table-hover', - sortClass: undefined, - locale: undefined, - height: undefined, - undefinedText: '-', - sortName: undefined, - sortOrder: 'asc', - sortStable: false, - striped: false, - columns: [[]], - data: [], - totalField: 'total', - dataField: 'rows', - method: 'get', - url: undefined, - ajax: undefined, - cache: true, - contentType: 'application/json', - dataType: 'json', - ajaxOptions: {}, - queryParams: function (params) { - return params; - }, - queryParamsType: 'limit', // undefined - responseHandler: function (res) { - return res; - }, - pagination: false, - onlyInfoPagination: false, - paginationLoop: true, - sidePagination: 'client', // client or server - totalRows: 0, // server side need to set - pageNumber: 1, - pageSize: 10, - pageList: [10, 25, 50, 100], - paginationHAlign: 'right', //right, left - paginationVAlign: 'bottom', //bottom, top, both - paginationDetailHAlign: 'left', //right, left - paginationPreText: '‹', - paginationNextText: '›', - search: false, - searchOnEnterKey: false, - strictSearch: false, - searchAlign: 'right', - selectItemName: 'btSelectItem', - showHeader: true, - showFooter: false, - showColumns: false, - showPaginationSwitch: false, - showRefresh: false, - showToggle: false, - buttonsAlign: 'right', - smartDisplay: true, - escape: false, - minimumCountColumns: 1, - idField: undefined, - uniqueId: undefined, - cardView: false, - detailView: false, - detailFormatter: function (index, row) { - return ''; - }, - trimOnSearch: true, - clickToSelect: false, - singleSelect: false, - toolbar: undefined, - toolbarAlign: 'left', - checkboxHeader: true, - sortable: true, - silentSort: true, - maintainSelected: false, - searchTimeOut: 500, - searchText: '', - iconSize: undefined, - buttonsClass: 'default', - iconsPrefix: 'glyphicon', // glyphicon of fa (font awesome) - icons: { - paginationSwitchDown: 'glyphicon-collapse-down icon-chevron-down', - paginationSwitchUp: 'glyphicon-collapse-up icon-chevron-up', - refresh: 'glyphicon-refresh icon-refresh', - toggle: 'glyphicon-list-alt icon-list-alt', - columns: 'glyphicon-th icon-th', - detailOpen: 'glyphicon-plus icon-plus', - detailClose: 'glyphicon-minus icon-minus' - }, - - customSearch: $.noop, - - customSort: $.noop, - - rowStyle: function (row, index) { - return {}; - }, - - rowAttributes: function (row, index) { - return {}; - }, - - footerStyle: function (row, index) { - return {}; - }, - - onAll: function (name, args) { - return false; - }, - onClickCell: function (field, value, row, $element) { - return false; - }, - onDblClickCell: function (field, value, row, $element) { - return false; - }, - onClickRow: function (item, $element) { - return false; - }, - onDblClickRow: function (item, $element) { - return false; - }, - onSort: function (name, order) { - return false; - }, - onCheck: function (row) { - return false; - }, - onUncheck: function (row) { - return false; - }, - onCheckAll: function (rows) { - return false; - }, - onUncheckAll: function (rows) { - return false; - }, - onCheckSome: function (rows) { - return false; - }, - onUncheckSome: function (rows) { - return false; - }, - onLoadSuccess: function (data) { - return false; - }, - onLoadError: function (status) { - return false; - }, - onColumnSwitch: function (field, checked) { - return false; - }, - onPageChange: function (number, size) { - return false; - }, - onSearch: function (text) { - return false; - }, - onToggle: function (cardView) { - return false; - }, - onPreBody: function (data) { - return false; - }, - onPostBody: function () { - return false; - }, - onPostHeader: function () { - return false; - }, - onExpandRow: function (index, row, $detail) { - return false; - }, - onCollapseRow: function (index, row) { - return false; - }, - onRefreshOptions: function (options) { - return false; - }, - onRefresh: function (params) { - return false; - }, - onResetView: function () { - return false; - } - }; - - BootstrapTable.LOCALES = {}; - - BootstrapTable.LOCALES['en-US'] = BootstrapTable.LOCALES.en = { - formatLoadingMessage: function () { - return 'Loading, please wait...'; - }, - formatRecordsPerPage: function (pageNumber) { - return sprintf('%s rows per page', pageNumber); - }, - formatShowingRows: function (pageFrom, pageTo, totalRows) { - return sprintf('Showing %s to %s of %s rows', pageFrom, pageTo, totalRows); - }, - formatDetailPagination: function (totalRows) { - return sprintf('Showing %s rows', totalRows); - }, - formatSearch: function () { - return 'Search'; - }, - formatNoMatches: function () { - return 'No matching records found'; - }, - formatPaginationSwitch: function () { - return 'Hide/Show pagination'; - }, - formatRefresh: function () { - return 'Refresh'; - }, - formatToggle: function () { - return 'Toggle'; - }, - formatColumns: function () { - return 'Columns'; - }, - formatAllRows: function () { - return 'All'; - } - }; - - $.extend(BootstrapTable.DEFAULTS, BootstrapTable.LOCALES['en-US']); - - BootstrapTable.COLUMN_DEFAULTS = { - radio: false, - checkbox: false, - checkboxEnabled: true, - field: undefined, - title: undefined, - titleTooltip: undefined, - 'class': undefined, - align: undefined, // left, right, center - halign: undefined, // left, right, center - falign: undefined, // left, right, center - valign: undefined, // top, middle, bottom - width: undefined, - sortable: false, - order: 'asc', // asc, desc - visible: true, - switchable: true, - clickToSelect: true, - formatter: undefined, - footerFormatter: undefined, - events: undefined, - sorter: undefined, - sortName: undefined, - cellStyle: undefined, - searchable: true, - searchFormatter: true, - cardVisible: true, - escape : false - }; - - BootstrapTable.EVENTS = { - 'all.bs.table': 'onAll', - 'click-cell.bs.table': 'onClickCell', - 'dbl-click-cell.bs.table': 'onDblClickCell', - 'click-row.bs.table': 'onClickRow', - 'dbl-click-row.bs.table': 'onDblClickRow', - 'sort.bs.table': 'onSort', - 'check.bs.table': 'onCheck', - 'uncheck.bs.table': 'onUncheck', - 'check-all.bs.table': 'onCheckAll', - 'uncheck-all.bs.table': 'onUncheckAll', - 'check-some.bs.table': 'onCheckSome', - 'uncheck-some.bs.table': 'onUncheckSome', - 'load-success.bs.table': 'onLoadSuccess', - 'load-error.bs.table': 'onLoadError', - 'column-switch.bs.table': 'onColumnSwitch', - 'page-change.bs.table': 'onPageChange', - 'search.bs.table': 'onSearch', - 'toggle.bs.table': 'onToggle', - 'pre-body.bs.table': 'onPreBody', - 'post-body.bs.table': 'onPostBody', - 'post-header.bs.table': 'onPostHeader', - 'expand-row.bs.table': 'onExpandRow', - 'collapse-row.bs.table': 'onCollapseRow', - 'refresh-options.bs.table': 'onRefreshOptions', - 'reset-view.bs.table': 'onResetView', - 'refresh.bs.table': 'onRefresh' - }; - - BootstrapTable.prototype.init = function () { - this.initLocale(); - this.initContainer(); - this.initTable(); - this.initHeader(); - this.initData(); - this.initHiddenRows(); - this.initFooter(); - this.initToolbar(); - this.initPagination(); - this.initBody(); - this.initSearchText(); - this.initServer(); - }; - - BootstrapTable.prototype.initLocale = function () { - if (this.options.locale) { - var parts = this.options.locale.split(/-|_/); - parts[0].toLowerCase(); - if (parts[1]) parts[1].toUpperCase(); - if ($.fn.bootstrapTable.locales[this.options.locale]) { - // locale as requested - $.extend(this.options, $.fn.bootstrapTable.locales[this.options.locale]); - } else if ($.fn.bootstrapTable.locales[parts.join('-')]) { - // locale with sep set to - (in case original was specified with _) - $.extend(this.options, $.fn.bootstrapTable.locales[parts.join('-')]); - } else if ($.fn.bootstrapTable.locales[parts[0]]) { - // short locale language code (i.e. 'en') - $.extend(this.options, $.fn.bootstrapTable.locales[parts[0]]); - } - } - }; - - BootstrapTable.prototype.initContainer = function () { - this.$container = $([ - '<div class="bootstrap-table">', - '<div class="fixed-table-toolbar"></div>', - this.options.paginationVAlign === 'top' || this.options.paginationVAlign === 'both' ? - '<div class="fixed-table-pagination" style="clear: both;"></div>' : - '', - '<div class="fixed-table-container">', - '<div class="fixed-table-header"><table></table></div>', - '<div class="fixed-table-body">', - '<div class="fixed-table-loading">', - this.options.formatLoadingMessage(), - '</div>', - '</div>', - '<div class="fixed-table-footer"><table><tr></tr></table></div>', - this.options.paginationVAlign === 'bottom' || this.options.paginationVAlign === 'both' ? - '<div class="fixed-table-pagination"></div>' : - '', - '</div>', - '</div>' - ].join('')); - - this.$container.insertAfter(this.$el); - this.$tableContainer = this.$container.find('.fixed-table-container'); - this.$tableHeader = this.$container.find('.fixed-table-header'); - this.$tableBody = this.$container.find('.fixed-table-body'); - this.$tableLoading = this.$container.find('.fixed-table-loading'); - this.$tableFooter = this.$container.find('.fixed-table-footer'); - this.$toolbar = this.$container.find('.fixed-table-toolbar'); - this.$pagination = this.$container.find('.fixed-table-pagination'); - - this.$tableBody.append(this.$el); - this.$container.after('<div class="clearfix"></div>'); - - this.$el.addClass(this.options.classes); - if (this.options.striped) { - this.$el.addClass('table-striped'); - } - if ($.inArray('table-no-bordered', this.options.classes.split(' ')) !== -1) { - this.$tableContainer.addClass('table-no-bordered'); - } - }; - - BootstrapTable.prototype.initTable = function () { - var that = this, - columns = [], - data = []; - - this.$header = this.$el.find('>thead'); - if (!this.$header.length) { - this.$header = $('<thead></thead>').appendTo(this.$el); - } - this.$header.find('tr').each(function () { - var column = []; - - $(this).find('th').each(function () { - // Fix #2014 - getFieldIndex and elsewhere assume this is string, causes issues if not - if (typeof $(this).data('field') !== 'undefined') { - $(this).data('field', $(this).data('field') + ''); - } - column.push($.extend({}, { - title: $(this).html(), - 'class': $(this).attr('class'), - titleTooltip: $(this).attr('title'), - rowspan: $(this).attr('rowspan') ? +$(this).attr('rowspan') : undefined, - colspan: $(this).attr('colspan') ? +$(this).attr('colspan') : undefined - }, $(this).data())); - }); - columns.push(column); - }); - if (!$.isArray(this.options.columns[0])) { - this.options.columns = [this.options.columns]; - } - this.options.columns = $.extend(true, [], columns, this.options.columns); - this.columns = []; - - setFieldIndex(this.options.columns); - $.each(this.options.columns, function (i, columns) { - $.each(columns, function (j, column) { - column = $.extend({}, BootstrapTable.COLUMN_DEFAULTS, column); - - if (typeof column.fieldIndex !== 'undefined') { - that.columns[column.fieldIndex] = column; - } - - that.options.columns[i][j] = column; - }); - }); - - // if options.data is setting, do not process tbody data - if (this.options.data.length) { - return; - } - - var m = []; - this.$el.find('>tbody>tr').each(function (y) { - var row = {}; - - // save tr's id, class and data-* attributes - row._id = $(this).attr('id'); - row._class = $(this).attr('class'); - row._data = getRealDataAttr($(this).data()); - - $(this).find('>td').each(function (x) { - var $this = $(this), - cspan = +$this.attr('colspan') || 1, - rspan = +$this.attr('rowspan') || 1, - tx, ty; - - for (; m[y] && m[y][x]; x++); //skip already occupied cells in current row - - for (tx = x; tx < x + cspan; tx++) { //mark matrix elements occupied by current cell with true - for (ty = y; ty < y + rspan; ty++) { - if (!m[ty]) { //fill missing rows - m[ty] = []; - } - m[ty][tx] = true; - } - } - - var field = that.columns[x].field; - - row[field] = $(this).html(); - // save td's id, class and data-* attributes - row['_' + field + '_id'] = $(this).attr('id'); - row['_' + field + '_class'] = $(this).attr('class'); - row['_' + field + '_rowspan'] = $(this).attr('rowspan'); - row['_' + field + '_colspan'] = $(this).attr('colspan'); - row['_' + field + '_title'] = $(this).attr('title'); - row['_' + field + '_data'] = getRealDataAttr($(this).data()); - }); - data.push(row); - }); - this.options.data = data; - if (data.length) this.fromHtml = true; - }; - - BootstrapTable.prototype.initHeader = function () { - var that = this, - visibleColumns = {}, - html = []; - - this.header = { - fields: [], - styles: [], - classes: [], - formatters: [], - events: [], - sorters: [], - sortNames: [], - cellStyles: [], - searchables: [] - }; - - $.each(this.options.columns, function (i, columns) { - html.push('<tr>'); - - if (i === 0 && !that.options.cardView && that.options.detailView) { - html.push(sprintf('<th class="detail" rowspan="%s"><div class="fht-cell"></div></th>', - that.options.columns.length)); - } - - $.each(columns, function (j, column) { - var text = '', - halign = '', // header align style - align = '', // body align style - style = '', - class_ = sprintf(' class="%s"', column['class']), - order = that.options.sortOrder || column.order, - unitWidth = 'px', - width = column.width; - - if (column.width !== undefined && (!that.options.cardView)) { - if (typeof column.width === 'string') { - if (column.width.indexOf('%') !== -1) { - unitWidth = '%'; - } - } - } - if (column.width && typeof column.width === 'string') { - width = column.width.replace('%', '').replace('px', ''); - } - - halign = sprintf('text-align: %s; ', column.halign ? column.halign : column.align); - align = sprintf('text-align: %s; ', column.align); - style = sprintf('vertical-align: %s; ', column.valign); - style += sprintf('width: %s; ', (column.checkbox || column.radio) && !width ? - '36px' : (width ? width + unitWidth : undefined)); - - if (typeof column.fieldIndex !== 'undefined') { - that.header.fields[column.fieldIndex] = column.field; - that.header.styles[column.fieldIndex] = align + style; - that.header.classes[column.fieldIndex] = class_; - that.header.formatters[column.fieldIndex] = column.formatter; - that.header.events[column.fieldIndex] = column.events; - that.header.sorters[column.fieldIndex] = column.sorter; - that.header.sortNames[column.fieldIndex] = column.sortName; - that.header.cellStyles[column.fieldIndex] = column.cellStyle; - that.header.searchables[column.fieldIndex] = column.searchable; - - if (!column.visible) { - return; - } - - if (that.options.cardView && (!column.cardVisible)) { - return; - } - - visibleColumns[column.field] = column; - } - - html.push('<th' + sprintf(' title="%s"', column.titleTooltip), - column.checkbox || column.radio ? - sprintf(' class="bs-checkbox %s"', column['class'] || '') : - class_, - sprintf(' style="%s"', halign + style), - sprintf(' rowspan="%s"', column.rowspan), - sprintf(' colspan="%s"', column.colspan), - sprintf(' data-field="%s"', column.field), - '>'); - - html.push(sprintf('<div class="th-inner %s">', that.options.sortable && column.sortable ? - 'sortable both' : '')); - - text = that.options.escape ? escapeHTML(column.title) : column.title; - - if (column.checkbox) { - if (!that.options.singleSelect && that.options.checkboxHeader) { - text = '<input name="btSelectAll" type="checkbox" />'; - } - that.header.stateField = column.field; - } - if (column.radio) { - text = ''; - that.header.stateField = column.field; - that.options.singleSelect = true; - } - - html.push(text); - html.push('</div>'); - html.push('<div class="fht-cell"></div>'); - html.push('</div>'); - html.push('</th>'); - }); - html.push('</tr>'); - }); - - this.$header.html(html.join('')); - this.$header.find('th[data-field]').each(function (i) { - $(this).data(visibleColumns[$(this).data('field')]); - }); - this.$container.off('click', '.th-inner').on('click', '.th-inner', function (event) { - var target = $(this); - - if (that.options.detailView) { - if (target.closest('.bootstrap-table')[0] !== that.$container[0]) - return false; - } - - if (that.options.sortable && target.parent().data().sortable) { - that.onSort(event); - } - }); - - this.$header.children().children().off('keypress').on('keypress', function (event) { - if (that.options.sortable && $(this).data().sortable) { - var code = event.keyCode || event.which; - if (code == 13) { //Enter keycode - that.onSort(event); - } - } - }); - - $(window).off('resize.bootstrap-table'); - if (!this.options.showHeader || this.options.cardView) { - this.$header.hide(); - this.$tableHeader.hide(); - this.$tableLoading.css('top', 0); - } else { - this.$header.show(); - this.$tableHeader.show(); - this.$tableLoading.css('top', this.$header.outerHeight() + 1); - // Assign the correct sortable arrow - this.getCaret(); - $(window).on('resize.bootstrap-table', $.proxy(this.resetWidth, this)); - } - - this.$selectAll = this.$header.find('[name="btSelectAll"]'); - this.$selectAll.off('click').on('click', function () { - var checked = $(this).prop('checked'); - that[checked ? 'checkAll' : 'uncheckAll'](); - that.updateSelected(); - }); - }; - - BootstrapTable.prototype.initFooter = function () { - if (!this.options.showFooter || this.options.cardView) { - this.$tableFooter.hide(); - } else { - this.$tableFooter.show(); - } - }; - - /** - * @param data - * @param type: append / prepend - */ - BootstrapTable.prototype.initData = function (data, type) { - if (type === 'append') { - this.data = this.data.concat(data); - } else if (type === 'prepend') { - this.data = [].concat(data).concat(this.data); - } else { - this.data = data || this.options.data; - } - - // Fix #839 Records deleted when adding new row on filtered table - if (type === 'append') { - this.options.data = this.options.data.concat(data); - } else if (type === 'prepend') { - this.options.data = [].concat(data).concat(this.options.data); - } else { - this.options.data = this.data; - } - - if (this.options.sidePagination === 'server') { - return; - } - this.initSort(); - }; - - BootstrapTable.prototype.initSort = function () { - var that = this, - name = this.options.sortName, - order = this.options.sortOrder === 'desc' ? -1 : 1, - index = $.inArray(this.options.sortName, this.header.fields), - timeoutId = 0; - - if (this.options.customSort !== $.noop) { - this.options.customSort.apply(this, [this.options.sortName, this.options.sortOrder]); - return; - } - - if (index !== -1) { - if (this.options.sortStable) { - $.each(this.data, function (i, row) { - if (!row.hasOwnProperty('_position')) row._position = i; - }); - } - - this.data.sort(function (a, b) { - if (that.header.sortNames[index]) { - name = that.header.sortNames[index]; - } - var aa = getItemField(a, name, that.options.escape), - bb = getItemField(b, name, that.options.escape), - value = calculateObjectValue(that.header, that.header.sorters[index], [aa, bb]); - - if (value !== undefined) { - return order * value; - } - - // Fix #161: undefined or null string sort bug. - if (aa === undefined || aa === null) { - aa = ''; - } - if (bb === undefined || bb === null) { - bb = ''; - } - - if (that.options.sortStable && aa === bb) { - aa = a._position; - bb = b._position; - } - - // IF both values are numeric, do a numeric comparison - if ($.isNumeric(aa) && $.isNumeric(bb)) { - // Convert numerical values form string to float. - aa = parseFloat(aa); - bb = parseFloat(bb); - if (aa < bb) { - return order * -1; - } - return order; - } - - if (aa === bb) { - return 0; - } - - // If value is not a string, convert to string - if (typeof aa !== 'string') { - aa = aa.toString(); - } - - if (aa.localeCompare(bb) === -1) { - return order * -1; - } - - return order; - }); - - if (this.options.sortClass !== undefined) { - clearTimeout(timeoutId); - timeoutId = setTimeout(function () { - that.$el.removeClass(that.options.sortClass); - var index = that.$header.find(sprintf('[data-field="%s"]', - that.options.sortName).index() + 1); - that.$el.find(sprintf('tr td:nth-child(%s)', index)) - .addClass(that.options.sortClass); - }, 250); - } - } - }; - - BootstrapTable.prototype.onSort = function (event) { - var $this = event.type === "keypress" ? $(event.currentTarget) : $(event.currentTarget).parent(), - $this_ = this.$header.find('th').eq($this.index()); - - this.$header.add(this.$header_).find('span.order').remove(); - - if (this.options.sortName === $this.data('field')) { - this.options.sortOrder = this.options.sortOrder === 'asc' ? 'desc' : 'asc'; - } else { - this.options.sortName = $this.data('field'); - this.options.sortOrder = $this.data('order') === 'asc' ? 'desc' : 'asc'; - } - this.trigger('sort', this.options.sortName, this.options.sortOrder); - - $this.add($this_).data('order', this.options.sortOrder); - - // Assign the correct sortable arrow - this.getCaret(); - - if (this.options.sidePagination === 'server') { - this.initServer(this.options.silentSort); - return; - } - - this.initSort(); - this.initBody(); - }; - - BootstrapTable.prototype.initToolbar = function () { - var that = this, - html = [], - timeoutId = 0, - $keepOpen, - $search, - switchableCount = 0; - - if (this.$toolbar.find('.bs-bars').children().length) { - $('body').append($(this.options.toolbar)); - } - this.$toolbar.html(''); - - if (typeof this.options.toolbar === 'string' || typeof this.options.toolbar === 'object') { - $(sprintf('<div class="bs-bars pull-%s"></div>', this.options.toolbarAlign)) - .appendTo(this.$toolbar) - .append($(this.options.toolbar)); - } - - // showColumns, showToggle, showRefresh - html = [sprintf('<div class="columns columns-%s btn-group pull-%s">', - this.options.buttonsAlign, this.options.buttonsAlign)]; - - if (typeof this.options.icons === 'string') { - this.options.icons = calculateObjectValue(null, this.options.icons); - } - - if (this.options.showPaginationSwitch) { - html.push(sprintf('<button class="btn' + - sprintf(' btn-%s', this.options.buttonsClass) + - sprintf(' btn-%s', this.options.iconSize) + - '" type="button" name="paginationSwitch" aria-label="pagination Switch" title="%s">', - this.options.formatPaginationSwitch()), - sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.paginationSwitchDown), - '</button>'); - } - - if (this.options.showRefresh) { - html.push(sprintf('<button class="btn' + - sprintf(' btn-%s', this.options.buttonsClass) + - sprintf(' btn-%s', this.options.iconSize) + - '" type="button" name="refresh" aria-label="refresh" title="%s">', - this.options.formatRefresh()), - sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.refresh), - '</button>'); - } - - if (this.options.showToggle) { - html.push(sprintf('<button class="btn' + - sprintf(' btn-%s', this.options.buttonsClass) + - sprintf(' btn-%s', this.options.iconSize) + - '" type="button" name="toggle" aria-label="toggle" title="%s">', - this.options.formatToggle()), - sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.toggle), - '</button>'); - } - - if (this.options.showColumns) { - html.push(sprintf('<div class="keep-open btn-group" title="%s">', - this.options.formatColumns()), - '<button type="button" aria-label="columns" class="btn' + - sprintf(' btn-%s', this.options.buttonsClass) + - sprintf(' btn-%s', this.options.iconSize) + - ' dropdown-toggle" data-toggle="dropdown">', - sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.columns), - ' <span class="caret"></span>', - '</button>', - '<ul class="dropdown-menu" role="menu">'); - - $.each(this.columns, function (i, column) { - if (column.radio || column.checkbox) { - return; - } - - if (that.options.cardView && !column.cardVisible) { - return; - } - - var checked = column.visible ? ' checked="checked"' : ''; - - if (column.switchable) { - html.push(sprintf('<li role="menuitem">' + - '<label><input type="checkbox" data-field="%s" value="%s"%s> %s</label>' + - '</li>', column.field, i, checked, column.title)); - switchableCount++; - } - }); - html.push('</ul>', - '</div>'); - } - - html.push('</div>'); - - // Fix #188: this.showToolbar is for extensions - if (this.showToolbar || html.length > 2) { - this.$toolbar.append(html.join('')); - } - - if (this.options.showPaginationSwitch) { - this.$toolbar.find('button[name="paginationSwitch"]') - .off('click').on('click', $.proxy(this.togglePagination, this)); - } - - if (this.options.showRefresh) { - this.$toolbar.find('button[name="refresh"]') - .off('click').on('click', $.proxy(this.refresh, this)); - } - - if (this.options.showToggle) { - this.$toolbar.find('button[name="toggle"]') - .off('click').on('click', function () { - that.toggleView(); - }); - } - - if (this.options.showColumns) { - $keepOpen = this.$toolbar.find('.keep-open'); - - if (switchableCount <= this.options.minimumCountColumns) { - $keepOpen.find('input').prop('disabled', true); - } - - $keepOpen.find('li').off('click').on('click', function (event) { - event.stopImmediatePropagation(); - }); - $keepOpen.find('input').off('click').on('click', function () { - var $this = $(this); - - that.toggleColumn($(this).val(), $this.prop('checked'), false); - that.trigger('column-switch', $(this).data('field'), $this.prop('checked')); - }); - } - - if (this.options.search) { - html = []; - html.push( - '<div class="pull-' + this.options.searchAlign + ' search">', - sprintf('<input class="form-control' + - sprintf(' input-%s', this.options.iconSize) + - '" type="text" placeholder="%s">', - this.options.formatSearch()), - '</div>'); - - this.$toolbar.append(html.join('')); - $search = this.$toolbar.find('.search input'); - $search.off('keyup drop blur').on('keyup drop blur', function (event) { - if (that.options.searchOnEnterKey && event.keyCode !== 13) { - return; - } - - if ($.inArray(event.keyCode, [37, 38, 39, 40]) > -1) { - return; - } - - clearTimeout(timeoutId); // doesn't matter if it's 0 - timeoutId = setTimeout(function () { - that.onSearch(event); - }, that.options.searchTimeOut); - }); - - if (isIEBrowser()) { - $search.off('mouseup').on('mouseup', function (event) { - clearTimeout(timeoutId); // doesn't matter if it's 0 - timeoutId = setTimeout(function () { - that.onSearch(event); - }, that.options.searchTimeOut); - }); - } - } - }; - - BootstrapTable.prototype.onSearch = function (event) { - var text = $.trim($(event.currentTarget).val()); - - // trim search input - if (this.options.trimOnSearch && $(event.currentTarget).val() !== text) { - $(event.currentTarget).val(text); - } - - if (text === this.searchText) { - return; - } - this.searchText = text; - this.options.searchText = text; - - this.options.pageNumber = 1; - this.initSearch(); - this.updatePagination(); - this.trigger('search', text); - }; - - BootstrapTable.prototype.initSearch = function () { - var that = this; - - if (this.options.sidePagination !== 'server') { - if (this.options.customSearch !== $.noop) { - this.options.customSearch.apply(this, [this.searchText]); - return; - } - - var s = this.searchText && (this.options.escape ? - escapeHTML(this.searchText) : this.searchText).toLowerCase(); - var f = $.isEmptyObject(this.filterColumns) ? null : this.filterColumns; - - // Check filter - this.data = f ? $.grep(this.options.data, function (item, i) { - for (var key in f) { - if ($.isArray(f[key]) && $.inArray(item[key], f[key]) === -1 || - !$.isArray(f[key]) && item[key] !== f[key]) { - return false; - } - } - return true; - }) : this.options.data; - - this.data = s ? $.grep(this.data, function (item, i) { - for (var j = 0; j < that.header.fields.length; j++) { - - if (!that.header.searchables[j]) { - continue; - } - - var key = $.isNumeric(that.header.fields[j]) ? parseInt(that.header.fields[j], 10) : that.header.fields[j]; - var column = that.columns[getFieldIndex(that.columns, key)]; - var value; - - if (typeof key === 'string') { - value = item; - var props = key.split('.'); - for (var prop_index = 0; prop_index < props.length; prop_index++) { - value = value[props[prop_index]]; - } - - // Fix #142: respect searchForamtter boolean - if (column && column.searchFormatter) { - value = calculateObjectValue(column, - that.header.formatters[j], [value, item, i], value); - } - } else { - value = item[key]; - } - - if (typeof value === 'string' || typeof value === 'number') { - if (that.options.strictSearch) { - if ((value + '').toLowerCase() === s) { - return true; - } - } else { - if ((value + '').toLowerCase().indexOf(s) !== -1) { - return true; - } - } - } - } - return false; - }) : this.data; - } - }; - - BootstrapTable.prototype.initPagination = function () { - if (!this.options.pagination) { - this.$pagination.hide(); - return; - } else { - this.$pagination.show(); - } - - var that = this, - html = [], - $allSelected = false, - i, from, to, - $pageList, - $first, $pre, - $next, $last, - $number, - data = this.getData(), - pageList = this.options.pageList; - - if (this.options.sidePagination !== 'server') { - this.options.totalRows = data.length; - } - - this.totalPages = 0; - if (this.options.totalRows) { - if (this.options.pageSize === this.options.formatAllRows()) { - this.options.pageSize = this.options.totalRows; - $allSelected = true; - } else if (this.options.pageSize === this.options.totalRows) { - // Fix #667 Table with pagination, - // multiple pages and a search that matches to one page throws exception - var pageLst = typeof this.options.pageList === 'string' ? - this.options.pageList.replace('[', '').replace(']', '') - .replace(/ /g, '').toLowerCase().split(',') : this.options.pageList; - if ($.inArray(this.options.formatAllRows().toLowerCase(), pageLst) > -1) { - $allSelected = true; - } - } - - this.totalPages = ~~((this.options.totalRows - 1) / this.options.pageSize) + 1; - - this.options.totalPages = this.totalPages; - } - if (this.totalPages > 0 && this.options.pageNumber > this.totalPages) { - this.options.pageNumber = this.totalPages; - } - - this.pageFrom = (this.options.pageNumber - 1) * this.options.pageSize + 1; - this.pageTo = this.options.pageNumber * this.options.pageSize; - if (this.pageTo > this.options.totalRows) { - this.pageTo = this.options.totalRows; - } - - html.push( - '<div class="pull-' + this.options.paginationDetailHAlign + ' pagination-detail">', - '<span class="pagination-info">', - this.options.onlyInfoPagination ? this.options.formatDetailPagination(this.options.totalRows) : - this.options.formatShowingRows(this.pageFrom, this.pageTo, this.options.totalRows), - '</span>'); - - if (!this.options.onlyInfoPagination) { - html.push('<span class="page-list">'); - - var pageNumber = [ - sprintf('<span class="btn-group %s">', - this.options.paginationVAlign === 'top' || this.options.paginationVAlign === 'both' ? - 'dropdown' : 'dropup'), - '<button type="button" class="btn' + - sprintf(' btn-%s', this.options.buttonsClass) + - sprintf(' btn-%s', this.options.iconSize) + - ' dropdown-toggle" data-toggle="dropdown">', - '<span class="page-size">', - $allSelected ? this.options.formatAllRows() : this.options.pageSize, - '</span>', - ' <span class="caret"></span>', - '</button>', - '<ul class="dropdown-menu" role="menu">' - ]; - - if (typeof this.options.pageList === 'string') { - var list = this.options.pageList.replace('[', '').replace(']', '') - .replace(/ /g, '').split(','); - - pageList = []; - $.each(list, function (i, value) { - pageList.push(value.toUpperCase() === that.options.formatAllRows().toUpperCase() ? - that.options.formatAllRows() : +value); - }); - } - - $.each(pageList, function (i, page) { - if (!that.options.smartDisplay || i === 0 || pageList[i - 1] < that.options.totalRows) { - var active; - if ($allSelected) { - active = page === that.options.formatAllRows() ? ' class="active"' : ''; - } else { - active = page === that.options.pageSize ? ' class="active"' : ''; - } - pageNumber.push(sprintf('<li role="menuitem"%s><a href="#">%s</a></li>', active, page)); - } - }); - pageNumber.push('</ul></span>'); - - html.push(this.options.formatRecordsPerPage(pageNumber.join(''))); - html.push('</span>'); - - html.push('</div>', - '<div class="pull-' + this.options.paginationHAlign + ' pagination">', - '<ul class="pagination' + sprintf(' pagination-%s', this.options.iconSize) + '">', - '<li class="page-pre"><a href="#">' + this.options.paginationPreText + '</a></li>'); - - if (this.totalPages < 5) { - from = 1; - to = this.totalPages; - } else { - from = this.options.pageNumber - 2; - to = from + 4; - if (from < 1) { - from = 1; - to = 5; - } - if (to > this.totalPages) { - to = this.totalPages; - from = to - 4; - } - } - - if (this.totalPages >= 6) { - if (this.options.pageNumber >= 3) { - html.push('<li class="page-first' + (1 === this.options.pageNumber ? ' active' : '') + '">', - '<a href="#">', 1, '</a>', - '</li>'); - - from++; - } - - if (this.options.pageNumber >= 4) { - if (this.options.pageNumber == 4 || this.totalPages == 6 || this.totalPages == 7) { - from--; - } else { - html.push('<li class="page-first-separator disabled">', - '<a href="#">...</a>', - '</li>'); - } - - to--; - } - } - - if (this.totalPages >= 7) { - if (this.options.pageNumber >= (this.totalPages - 2)) { - from--; - } - } - - if (this.totalPages == 6) { - if (this.options.pageNumber >= (this.totalPages - 2)) { - to++; - } - } else if (this.totalPages >= 7) { - if (this.totalPages == 7 || this.options.pageNumber >= (this.totalPages - 3)) { - to++; - } - } - - for (i = from; i <= to; i++) { - html.push('<li class="page-number' + (i === this.options.pageNumber ? ' active' : '') + '">', - '<a href="#">', i, '</a>', - '</li>'); - } - - if (this.totalPages >= 8) { - if (this.options.pageNumber <= (this.totalPages - 4)) { - html.push('<li class="page-last-separator disabled">', - '<a href="#">...</a>', - '</li>'); - } - } - - if (this.totalPages >= 6) { - if (this.options.pageNumber <= (this.totalPages - 3)) { - html.push('<li class="page-last' + (this.totalPages === this.options.pageNumber ? ' active' : '') + '">', - '<a href="#">', this.totalPages, '</a>', - '</li>'); - } - } - - html.push( - '<li class="page-next"><a href="#">' + this.options.paginationNextText + '</a></li>', - '</ul>', - '</div>'); - } - this.$pagination.html(html.join('')); - - if (!this.options.onlyInfoPagination) { - $pageList = this.$pagination.find('.page-list a'); - $first = this.$pagination.find('.page-first'); - $pre = this.$pagination.find('.page-pre'); - $next = this.$pagination.find('.page-next'); - $last = this.$pagination.find('.page-last'); - $number = this.$pagination.find('.page-number'); - - if (this.options.smartDisplay) { - if (this.totalPages <= 1) { - this.$pagination.find('div.pagination').hide(); - } - if (pageList.length < 2 || this.options.totalRows <= pageList[0]) { - this.$pagination.find('span.page-list').hide(); - } - - // when data is empty, hide the pagination - this.$pagination[this.getData().length ? 'show' : 'hide'](); - } - - if (!this.options.paginationLoop) { - if (this.options.pageNumber === 1) { - $pre.addClass('disabled'); - } - if (this.options.pageNumber === this.totalPages) { - $next.addClass('disabled'); - } - } - - if ($allSelected) { - this.options.pageSize = this.options.formatAllRows(); - } - $pageList.off('click').on('click', $.proxy(this.onPageListChange, this)); - $first.off('click').on('click', $.proxy(this.onPageFirst, this)); - $pre.off('click').on('click', $.proxy(this.onPagePre, this)); - $next.off('click').on('click', $.proxy(this.onPageNext, this)); - $last.off('click').on('click', $.proxy(this.onPageLast, this)); - $number.off('click').on('click', $.proxy(this.onPageNumber, this)); - } - }; - - BootstrapTable.prototype.updatePagination = function (event) { - // Fix #171: IE disabled button can be clicked bug. - if (event && $(event.currentTarget).hasClass('disabled')) { - return; - } - - if (!this.options.maintainSelected) { - this.resetRows(); - } - - this.initPagination(); - if (this.options.sidePagination === 'server') { - this.initServer(); - } else { - this.initBody(); - } - - this.trigger('page-change', this.options.pageNumber, this.options.pageSize); - }; - - BootstrapTable.prototype.onPageListChange = function (event) { - var $this = $(event.currentTarget); - - $this.parent().addClass('active').siblings().removeClass('active'); - this.options.pageSize = $this.text().toUpperCase() === this.options.formatAllRows().toUpperCase() ? - this.options.formatAllRows() : +$this.text(); - this.$toolbar.find('.page-size').text(this.options.pageSize); - - this.updatePagination(event); - return false; - }; - - BootstrapTable.prototype.onPageFirst = function (event) { - this.options.pageNumber = 1; - this.updatePagination(event); - return false; - }; - - BootstrapTable.prototype.onPagePre = function (event) { - if ((this.options.pageNumber - 1) === 0) { - this.options.pageNumber = this.options.totalPages; - } else { - this.options.pageNumber--; - } - this.updatePagination(event); - return false; - }; - - BootstrapTable.prototype.onPageNext = function (event) { - if ((this.options.pageNumber + 1) > this.options.totalPages) { - this.options.pageNumber = 1; - } else { - this.options.pageNumber++; - } - this.updatePagination(event); - return false; - }; - - BootstrapTable.prototype.onPageLast = function (event) { - this.options.pageNumber = this.totalPages; - this.updatePagination(event); - return false; - }; - - BootstrapTable.prototype.onPageNumber = function (event) { - if (this.options.pageNumber === +$(event.currentTarget).text()) { - return; - } - this.options.pageNumber = +$(event.currentTarget).text(); - this.updatePagination(event); - return false; - }; - - BootstrapTable.prototype.initRow = function(item, i, data, parentDom) { - var that=this, - key, - html = [], - style = {}, - csses = [], - data_ = '', - attributes = {}, - htmlAttributes = []; - - if ($.inArray(item, this.hiddenRows) > -1) { - return; - } - - style = calculateObjectValue(this.options, this.options.rowStyle, [item, i], style); - - if (style && style.css) { - for (key in style.css) { - csses.push(key + ': ' + style.css[key]); - } - } - - attributes = calculateObjectValue(this.options, - this.options.rowAttributes, [item, i], attributes); - - if (attributes) { - for (key in attributes) { - htmlAttributes.push(sprintf('%s="%s"', key, escapeHTML(attributes[key]))); - } - } - - if (item._data && !$.isEmptyObject(item._data)) { - $.each(item._data, function(k, v) { - // ignore data-index - if (k === 'index') { - return; - } - data_ += sprintf(' data-%s="%s"', k, v); - }); - } - - html.push('<tr', - sprintf(' %s', htmlAttributes.join(' ')), - sprintf(' id="%s"', $.isArray(item) ? undefined : item._id), - sprintf(' class="%s"', style.classes || ($.isArray(item) ? undefined : item._class)), - sprintf(' data-index="%s"', i), - sprintf(' data-uniqueid="%s"', item[this.options.uniqueId]), - sprintf('%s', data_), - '>' - ); - - if (this.options.cardView) { - html.push(sprintf('<td colspan="%s"><div class="card-views">', this.header.fields.length)); - } - - if (!this.options.cardView && this.options.detailView) { - html.push('<td>', - '<a class="detail-icon" href="#">', - sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.detailOpen), - '</a>', - '</td>'); - } - - $.each(this.header.fields, function(j, field) { - var text = '', - value_ = getItemField(item, field, that.options.escape), - value = '', - type = '', - cellStyle = {}, - id_ = '', - class_ = that.header.classes[j], - data_ = '', - rowspan_ = '', - colspan_ = '', - title_ = '', - column = that.columns[j]; - - if (that.fromHtml && typeof value_ === 'undefined') { - return; - } - - if (!column.visible) { - return; - } - - if (that.options.cardView && (!column.cardVisible)) { - return; - } - - if (column.escape) { - value_ = escapeHTML(value_); - } - - style = sprintf('style="%s"', csses.concat(that.header.styles[j]).join('; ')); - - // handle td's id and class - if (item['_' + field + '_id']) { - id_ = sprintf(' id="%s"', item['_' + field + '_id']); - } - if (item['_' + field + '_class']) { - class_ = sprintf(' class="%s"', item['_' + field + '_class']); - } - if (item['_' + field + '_rowspan']) { - rowspan_ = sprintf(' rowspan="%s"', item['_' + field + '_rowspan']); - } - if (item['_' + field + '_colspan']) { - colspan_ = sprintf(' colspan="%s"', item['_' + field + '_colspan']); - } - if (item['_' + field + '_title']) { - title_ = sprintf(' title="%s"', item['_' + field + '_title']); - } - cellStyle = calculateObjectValue(that.header, - that.header.cellStyles[j], [value_, item, i, field], cellStyle); - if (cellStyle.classes) { - class_ = sprintf(' class="%s"', cellStyle.classes); - } - if (cellStyle.css) { - var csses_ = []; - for (var key in cellStyle.css) { - csses_.push(key + ': ' + cellStyle.css[key]); - } - style = sprintf('style="%s"', csses_.concat(that.header.styles[j]).join('; ')); - } - - value = calculateObjectValue(column, - that.header.formatters[j], [value_, item, i], value_); - - if (item['_' + field + '_data'] && !$.isEmptyObject(item['_' + field + '_data'])) { - $.each(item['_' + field + '_data'], function(k, v) { - // ignore data-index - if (k === 'index') { - return; - } - data_ += sprintf(' data-%s="%s"', k, v); - }); - } - - if (column.checkbox || column.radio) { - type = column.checkbox ? 'checkbox' : type; - type = column.radio ? 'radio' : type; - - text = [sprintf(that.options.cardView ? - '<div class="card-view %s">' : '<td class="bs-checkbox %s">', column['class'] || ''), - '<input' + - sprintf(' data-index="%s"', i) + - sprintf(' name="%s"', that.options.selectItemName) + - sprintf(' type="%s"', type) + - sprintf(' value="%s"', item[that.options.idField]) + - sprintf(' checked="%s"', value === true || - (value_ || value && value.checked) ? 'checked' : undefined) + - sprintf(' disabled="%s"', !column.checkboxEnabled || - (value && value.disabled) ? 'disabled' : undefined) + - ' />', - that.header.formatters[j] && typeof value === 'string' ? value : '', - that.options.cardView ? '</div>' : '</td>' - ].join(''); - - item[that.header.stateField] = value === true || (value && value.checked); - } else { - value = typeof value === 'undefined' || value === null ? - that.options.undefinedText : value; - - text = that.options.cardView ? ['<div class="card-view">', - that.options.showHeader ? sprintf('<span class="title" %s>%s</span>', style, - getPropertyFromOther(that.columns, 'field', 'title', field)) : '', - sprintf('<span class="value">%s</span>', value), - '</div>' - ].join('') : [sprintf('<td%s %s %s %s %s %s %s>', - id_, class_, style, data_, rowspan_, colspan_, title_), - value, - '</td>' - ].join(''); - - // Hide empty data on Card view when smartDisplay is set to true. - if (that.options.cardView && that.options.smartDisplay && value === '') { - // Should set a placeholder for event binding correct fieldIndex - text = '<div class="card-view"></div>'; - } - } - - html.push(text); - }); - - if (this.options.cardView) { - html.push('</div></td>'); - } - html.push('</tr>'); - - return html.join(' '); - }; - - BootstrapTable.prototype.initBody = function (fixedScroll) { - var that = this, - html = [], - data = this.getData(); - - this.trigger('pre-body', data); - - this.$body = this.$el.find('>tbody'); - if (!this.$body.length) { - this.$body = $('<tbody></tbody>').appendTo(this.$el); - } - - //Fix #389 Bootstrap-table-flatJSON is not working - - if (!this.options.pagination || this.options.sidePagination === 'server') { - this.pageFrom = 1; - this.pageTo = data.length; - } - - var trFragments = $(document.createDocumentFragment()); - var hasTr; - - for (var i = this.pageFrom - 1; i < this.pageTo; i++) { - var item = data[i]; - var tr = this.initRow(item, i, data, trFragments); - hasTr = hasTr || !!tr; - if (tr&&tr!==true) { - trFragments.append(tr); - } - } - - // show no records - if (!hasTr) { - trFragments.append('<tr class="no-records-found">' + - sprintf('<td colspan="%s">%s</td>', - this.$header.find('th').length, - this.options.formatNoMatches()) + - '</tr>'); - } - - this.$body.html(trFragments); - - if (!fixedScroll) { - this.scrollTo(0); - } - - // click to select by column - this.$body.find('> tr[data-index] > td').off('click dblclick').on('click dblclick', function (e) { - var $td = $(this), - $tr = $td.parent(), - item = that.data[$tr.data('index')], - index = $td[0].cellIndex, - fields = that.getVisibleFields(), - field = fields[that.options.detailView && !that.options.cardView ? index - 1 : index], - column = that.columns[getFieldIndex(that.columns, field)], - value = getItemField(item, field, that.options.escape); - - if ($td.find('.detail-icon').length) { - return; - } - - that.trigger(e.type === 'click' ? 'click-cell' : 'dbl-click-cell', field, value, item, $td); - that.trigger(e.type === 'click' ? 'click-row' : 'dbl-click-row', item, $tr, field); - - // if click to select - then trigger the checkbox/radio click - if (e.type === 'click' && that.options.clickToSelect && column.clickToSelect) { - var $selectItem = $tr.find(sprintf('[name="%s"]', that.options.selectItemName)); - if ($selectItem.length) { - $selectItem[0].click(); // #144: .trigger('click') bug - } - } - }); - - this.$body.find('> tr[data-index] > td > .detail-icon').off('click').on('click', function () { - var $this = $(this), - $tr = $this.parent().parent(), - index = $tr.data('index'), - row = data[index]; // Fix #980 Detail view, when searching, returns wrong row - - // remove and update - if ($tr.next().is('tr.detail-view')) { - $this.find('i').attr('class', sprintf('%s %s', that.options.iconsPrefix, that.options.icons.detailOpen)); - that.trigger('collapse-row', index, row); - $tr.next().remove(); - } else { - $this.find('i').attr('class', sprintf('%s %s', that.options.iconsPrefix, that.options.icons.detailClose)); - $tr.after(sprintf('<tr class="detail-view"><td colspan="%s"></td></tr>', $tr.find('td').length)); - var $element = $tr.next().find('td'); - var content = calculateObjectValue(that.options, that.options.detailFormatter, [index, row, $element], ''); - if($element.length === 1) { - $element.append(content); - } - that.trigger('expand-row', index, row, $element); - } - that.resetView(); - return false; - }); - - this.$selectItem = this.$body.find(sprintf('[name="%s"]', this.options.selectItemName)); - this.$selectItem.off('click').on('click', function (event) { - event.stopImmediatePropagation(); - - var $this = $(this), - checked = $this.prop('checked'), - row = that.data[$this.data('index')]; - - if (that.options.maintainSelected && $(this).is(':radio')) { - $.each(that.options.data, function (i, row) { - row[that.header.stateField] = false; - }); - } - - row[that.header.stateField] = checked; - - if (that.options.singleSelect) { - that.$selectItem.not(this).each(function () { - that.data[$(this).data('index')][that.header.stateField] = false; - }); - that.$selectItem.filter(':checked').not(this).prop('checked', false); - } - - that.updateSelected(); - that.trigger(checked ? 'check' : 'uncheck', row, $this); - }); - - $.each(this.header.events, function (i, events) { - if (!events) { - return; - } - // fix bug, if events is defined with namespace - if (typeof events === 'string') { - events = calculateObjectValue(null, events); - } - - var field = that.header.fields[i], - fieldIndex = $.inArray(field, that.getVisibleFields()); - - if (that.options.detailView && !that.options.cardView) { - fieldIndex += 1; - } - - for (var key in events) { - that.$body.find('>tr:not(.no-records-found)').each(function () { - var $tr = $(this), - $td = $tr.find(that.options.cardView ? '.card-view' : 'td').eq(fieldIndex), - index = key.indexOf(' '), - name = key.substring(0, index), - el = key.substring(index + 1), - func = events[key]; - - $td.find(el).off(name).on(name, function (e) { - var index = $tr.data('index'), - row = that.data[index], - value = row[field]; - - func.apply(this, [e, value, row, index]); - }); - }); - } - }); - - this.updateSelected(); - this.resetView(); - - this.trigger('post-body', data); - }; - - BootstrapTable.prototype.initServer = function (silent, query, url) { - var that = this, - data = {}, - params = { - searchText: this.searchText, - sortName: this.options.sortName, - sortOrder: this.options.sortOrder - }, - request; - - if (this.options.pagination) { - params.pageSize = this.options.pageSize === this.options.formatAllRows() ? - this.options.totalRows : this.options.pageSize; - params.pageNumber = this.options.pageNumber; - } - - if (!(url || this.options.url) && !this.options.ajax) { - return; - } - - if (this.options.queryParamsType === 'limit') { - params = { - search: params.searchText, - sort: params.sortName, - order: params.sortOrder - }; - - if (this.options.pagination) { - params.offset = this.options.pageSize === this.options.formatAllRows() ? - 0 : this.options.pageSize * (this.options.pageNumber - 1); - params.limit = this.options.pageSize === this.options.formatAllRows() ? - this.options.totalRows : this.options.pageSize; - } - } - - if (!($.isEmptyObject(this.filterColumnsPartial))) { - params.filter = JSON.stringify(this.filterColumnsPartial, null); - } - - data = calculateObjectValue(this.options, this.options.queryParams, [params], data); - - $.extend(data, query || {}); - - // false to stop request - if (data === false) { - return; - } - - if (!silent) { - this.$tableLoading.show(); - } - request = $.extend({}, calculateObjectValue(null, this.options.ajaxOptions), { - type: this.options.method, - url: url || this.options.url, - data: this.options.contentType === 'application/json' && this.options.method === 'post' ? - JSON.stringify(data) : data, - cache: this.options.cache, - contentType: this.options.contentType, - dataType: this.options.dataType, - success: function (res) { - res = calculateObjectValue(that.options, that.options.responseHandler, [res], res); - - that.load(res); - that.trigger('load-success', res); - if (!silent) that.$tableLoading.hide(); - }, - error: function (res) { - that.trigger('load-error', res.status, res); - if (!silent) that.$tableLoading.hide(); - } - }); - - if (this.options.ajax) { - calculateObjectValue(this, this.options.ajax, [request], null); - } else { - if (this._xhr && this._xhr.readyState !== 4) { - this._xhr.abort(); - } - this._xhr = $.ajax(request); - } - }; - - BootstrapTable.prototype.initSearchText = function () { - if (this.options.search) { - if (this.options.searchText !== '') { - var $search = this.$toolbar.find('.search input'); - $search.val(this.options.searchText); - this.onSearch({currentTarget: $search}); - } - } - }; - - BootstrapTable.prototype.getCaret = function () { - var that = this; - - $.each(this.$header.find('th'), function (i, th) { - $(th).find('.sortable').removeClass('desc asc').addClass($(th).data('field') === that.options.sortName ? that.options.sortOrder : 'both'); - }); - }; - - BootstrapTable.prototype.updateSelected = function () { - var checkAll = this.$selectItem.filter(':enabled').length && - this.$selectItem.filter(':enabled').length === - this.$selectItem.filter(':enabled').filter(':checked').length; - - this.$selectAll.add(this.$selectAll_).prop('checked', checkAll); - - this.$selectItem.each(function () { - $(this).closest('tr')[$(this).prop('checked') ? 'addClass' : 'removeClass']('selected'); - }); - }; - - BootstrapTable.prototype.updateRows = function () { - var that = this; - - this.$selectItem.each(function () { - that.data[$(this).data('index')][that.header.stateField] = $(this).prop('checked'); - }); - }; - - BootstrapTable.prototype.resetRows = function () { - var that = this; - - $.each(this.data, function (i, row) { - that.$selectAll.prop('checked', false); - that.$selectItem.prop('checked', false); - if (that.header.stateField) { - row[that.header.stateField] = false; - } - }); - this.initHiddenRows(); - }; - - BootstrapTable.prototype.trigger = function (name) { - var args = Array.prototype.slice.call(arguments, 1); - - name += '.bs.table'; - this.options[BootstrapTable.EVENTS[name]].apply(this.options, args); - this.$el.trigger($.Event(name), args); - - this.options.onAll(name, args); - this.$el.trigger($.Event('all.bs.table'), [name, args]); - }; - - BootstrapTable.prototype.resetHeader = function () { - // fix #61: the hidden table reset header bug. - // fix bug: get $el.css('width') error sometime (height = 500) - clearTimeout(this.timeoutId_); - this.timeoutId_ = setTimeout($.proxy(this.fitHeader, this), this.$el.is(':hidden') ? 100 : 0); - }; - - BootstrapTable.prototype.fitHeader = function () { - var that = this, - fixedBody, - scrollWidth, - focused, - focusedTemp; - - if (that.$el.is(':hidden')) { - that.timeoutId_ = setTimeout($.proxy(that.fitHeader, that), 100); - return; - } - fixedBody = this.$tableBody.get(0); - - scrollWidth = fixedBody.scrollWidth > fixedBody.clientWidth && - fixedBody.scrollHeight > fixedBody.clientHeight + this.$header.outerHeight() ? - getScrollBarWidth() : 0; - - this.$el.css('margin-top', -this.$header.outerHeight()); - - focused = $(':focus'); - if (focused.length > 0) { - var $th = focused.parents('th'); - if ($th.length > 0) { - var dataField = $th.attr('data-field'); - if (dataField !== undefined) { - var $headerTh = this.$header.find("[data-field='" + dataField + "']"); - if ($headerTh.length > 0) { - $headerTh.find(":input").addClass("focus-temp"); - } - } - } - } - - this.$header_ = this.$header.clone(true, true); - this.$selectAll_ = this.$header_.find('[name="btSelectAll"]'); - this.$tableHeader.css({ - 'margin-right': scrollWidth - }).find('table').css('width', this.$el.outerWidth()) - .html('').attr('class', this.$el.attr('class')) - .append(this.$header_); - - - focusedTemp = $('.focus-temp:visible:eq(0)'); - if (focusedTemp.length > 0) { - focusedTemp.focus(); - this.$header.find('.focus-temp').removeClass('focus-temp'); - } - - // fix bug: $.data() is not working as expected after $.append() - this.$header.find('th[data-field]').each(function (i) { - that.$header_.find(sprintf('th[data-field="%s"]', $(this).data('field'))).data($(this).data()); - }); - - var visibleFields = this.getVisibleFields(), - $ths = this.$header_.find('th'); - - this.$body.find('>tr:first-child:not(.no-records-found) > *').each(function (i) { - var $this = $(this), - index = i; - - if (that.options.detailView && !that.options.cardView) { - if (i === 0) { - that.$header_.find('th.detail').find('.fht-cell').width($this.innerWidth()); - } - index = i - 1; - } - - var $th = that.$header_.find(sprintf('th[data-field="%s"]', visibleFields[index])); - if ($th.length > 1) { - $th = $($ths[$this[0].cellIndex]); - } - - $th.find('.fht-cell').width($this.innerWidth()); - }); - // horizontal scroll event - // TODO: it's probably better improving the layout than binding to scroll event - this.$tableBody.off('scroll').on('scroll', function () { - that.$tableHeader.scrollLeft($(this).scrollLeft()); - - if (that.options.showFooter && !that.options.cardView) { - that.$tableFooter.scrollLeft($(this).scrollLeft()); - } - }); - that.trigger('post-header'); - }; - - BootstrapTable.prototype.resetFooter = function () { - var that = this, - data = that.getData(), - html = []; - - if (!this.options.showFooter || this.options.cardView) { //do nothing - return; - } - - if (!this.options.cardView && this.options.detailView) { - html.push('<td><div class="th-inner"> </div><div class="fht-cell"></div></td>'); - } - - $.each(this.columns, function (i, column) { - var key, - falign = '', // footer align style - valign = '', - csses = [], - style = {}, - class_ = sprintf(' class="%s"', column['class']); - - if (!column.visible) { - return; - } - - if (that.options.cardView && (!column.cardVisible)) { - return; - } - - falign = sprintf('text-align: %s; ', column.falign ? column.falign : column.align); - valign = sprintf('vertical-align: %s; ', column.valign); - - style = calculateObjectValue(null, that.options.footerStyle); - - if (style && style.css) { - for (key in style.css) { - csses.push(key + ': ' + style.css[key]); - } - } - - html.push('<td', class_, sprintf(' style="%s"', falign + valign + csses.concat().join('; ')), '>'); - html.push('<div class="th-inner">'); - - html.push(calculateObjectValue(column, column.footerFormatter, [data], ' ') || ' '); - - html.push('</div>'); - html.push('<div class="fht-cell"></div>'); - html.push('</div>'); - html.push('</td>'); - }); - - this.$tableFooter.find('tr').html(html.join('')); - this.$tableFooter.show(); - clearTimeout(this.timeoutFooter_); - this.timeoutFooter_ = setTimeout($.proxy(this.fitFooter, this), - this.$el.is(':hidden') ? 100 : 0); - }; - - BootstrapTable.prototype.fitFooter = function () { - var that = this, - $footerTd, - elWidth, - scrollWidth; - - clearTimeout(this.timeoutFooter_); - if (this.$el.is(':hidden')) { - this.timeoutFooter_ = setTimeout($.proxy(this.fitFooter, this), 100); - return; - } - - elWidth = this.$el.css('width'); - scrollWidth = elWidth > this.$tableBody.width() ? getScrollBarWidth() : 0; - - this.$tableFooter.css({ - 'margin-right': scrollWidth - }).find('table').css('width', elWidth) - .attr('class', this.$el.attr('class')); - - $footerTd = this.$tableFooter.find('td'); - - this.$body.find('>tr:first-child:not(.no-records-found) > *').each(function (i) { - var $this = $(this); - - $footerTd.eq(i).find('.fht-cell').width($this.innerWidth()); - }); - }; - - BootstrapTable.prototype.toggleColumn = function (index, checked, needUpdate) { - if (index === -1) { - return; - } - this.columns[index].visible = checked; - this.initHeader(); - this.initSearch(); - this.initPagination(); - this.initBody(); - - if (this.options.showColumns) { - var $items = this.$toolbar.find('.keep-open input').prop('disabled', false); - - if (needUpdate) { - $items.filter(sprintf('[value="%s"]', index)).prop('checked', checked); - } - - if ($items.filter(':checked').length <= this.options.minimumCountColumns) { - $items.filter(':checked').prop('disabled', true); - } - } - }; - - BootstrapTable.prototype.getVisibleFields = function () { - var that = this, - visibleFields = []; - - $.each(this.header.fields, function (j, field) { - var column = that.columns[getFieldIndex(that.columns, field)]; - - if (!column.visible) { - return; - } - visibleFields.push(field); - }); - return visibleFields; - }; - - // PUBLIC FUNCTION DEFINITION - // ======================= - - BootstrapTable.prototype.resetView = function (params) { - var padding = 0; - - if (params && params.height) { - this.options.height = params.height; - } - - this.$selectAll.prop('checked', this.$selectItem.length > 0 && - this.$selectItem.length === this.$selectItem.filter(':checked').length); - - if (this.options.height) { - var toolbarHeight = this.$toolbar.outerHeight(true), - paginationHeight = this.$pagination.outerHeight(true), - height = this.options.height - toolbarHeight - paginationHeight; - - this.$tableContainer.css('height', height + 'px'); - } - - if (this.options.cardView) { - // remove the element css - this.$el.css('margin-top', '0'); - this.$tableContainer.css('padding-bottom', '0'); - this.$tableFooter.hide(); - return; - } - - if (this.options.showHeader && this.options.height) { - this.$tableHeader.show(); - this.resetHeader(); - padding += this.$header.outerHeight(); - } else { - this.$tableHeader.hide(); - this.trigger('post-header'); - } - - if (this.options.showFooter) { - this.resetFooter(); - if (this.options.height) { - padding += this.$tableFooter.outerHeight() + 1; - } - } - - // Assign the correct sortable arrow - this.getCaret(); - this.$tableContainer.css('padding-bottom', padding + 'px'); - this.trigger('reset-view'); - }; - - BootstrapTable.prototype.getData = function (useCurrentPage) { - return (this.searchText || !$.isEmptyObject(this.filterColumns) || !$.isEmptyObject(this.filterColumnsPartial)) ? - (useCurrentPage ? this.data.slice(this.pageFrom - 1, this.pageTo) : this.data) : - (useCurrentPage ? this.options.data.slice(this.pageFrom - 1, this.pageTo) : this.options.data); - }; - - BootstrapTable.prototype.load = function (data) { - var fixedScroll = false; - - // #431: support pagination - if (this.options.sidePagination === 'server') { - this.options.totalRows = data[this.options.totalField]; - fixedScroll = data.fixedScroll; - data = data[this.options.dataField]; - } else if (!$.isArray(data)) { // support fixedScroll - fixedScroll = data.fixedScroll; - data = data.data; - } - - this.initData(data); - this.initSearch(); - this.initPagination(); - this.initBody(fixedScroll); - }; - - BootstrapTable.prototype.append = function (data) { - this.initData(data, 'append'); - this.initSearch(); - this.initPagination(); - this.initSort(); - this.initBody(true); - }; - - BootstrapTable.prototype.prepend = function (data) { - this.initData(data, 'prepend'); - this.initSearch(); - this.initPagination(); - this.initSort(); - this.initBody(true); - }; - - BootstrapTable.prototype.remove = function (params) { - var len = this.options.data.length, - i, row; - - if (!params.hasOwnProperty('field') || !params.hasOwnProperty('values')) { - return; - } - - for (i = len - 1; i >= 0; i--) { - row = this.options.data[i]; - - if (!row.hasOwnProperty(params.field)) { - continue; - } - if ($.inArray(row[params.field], params.values) !== -1) { - this.options.data.splice(i, 1); - if (this.options.sidePagination === 'server') { - this.options.totalRows -= 1; - } - } - } - - if (len === this.options.data.length) { - return; - } - - this.initSearch(); - this.initPagination(); - this.initSort(); - this.initBody(true); - }; - - BootstrapTable.prototype.removeAll = function () { - if (this.options.data.length > 0) { - this.options.data.splice(0, this.options.data.length); - this.initSearch(); - this.initPagination(); - this.initBody(true); - } - }; - - BootstrapTable.prototype.getRowByUniqueId = function (id) { - var uniqueId = this.options.uniqueId, - len = this.options.data.length, - dataRow = null, - i, row, rowUniqueId; - - for (i = len - 1; i >= 0; i--) { - row = this.options.data[i]; - - if (row.hasOwnProperty(uniqueId)) { // uniqueId is a column - rowUniqueId = row[uniqueId]; - } else if(row._data.hasOwnProperty(uniqueId)) { // uniqueId is a row data property - rowUniqueId = row._data[uniqueId]; - } else { - continue; - } - - if (typeof rowUniqueId === 'string') { - id = id.toString(); - } else if (typeof rowUniqueId === 'number') { - if ((Number(rowUniqueId) === rowUniqueId) && (rowUniqueId % 1 === 0)) { - id = parseInt(id); - } else if ((rowUniqueId === Number(rowUniqueId)) && (rowUniqueId !== 0)) { - id = parseFloat(id); - } - } - - if (rowUniqueId === id) { - dataRow = row; - break; - } - } - - return dataRow; - }; - - BootstrapTable.prototype.removeByUniqueId = function (id) { - var len = this.options.data.length, - row = this.getRowByUniqueId(id); - - if (row) { - this.options.data.splice(this.options.data.indexOf(row), 1); - } - - if (len === this.options.data.length) { - return; - } - - this.initSearch(); - this.initPagination(); - this.initBody(true); - }; - - BootstrapTable.prototype.updateByUniqueId = function (params) { - var that = this; - var allParams = $.isArray(params) ? params : [ params ]; - - $.each(allParams, function(i, params) { - var rowId; - - if (!params.hasOwnProperty('id') || !params.hasOwnProperty('row')) { - return; - } - - rowId = $.inArray(that.getRowByUniqueId(params.id), that.options.data); - - if (rowId === -1) { - return; - } - $.extend(that.options.data[rowId], params.row); - }); - - this.initSearch(); - this.initPagination(); - this.initSort(); - this.initBody(true); - }; - - BootstrapTable.prototype.insertRow = function (params) { - if (!params.hasOwnProperty('index') || !params.hasOwnProperty('row')) { - return; - } - this.data.splice(params.index, 0, params.row); - this.initSearch(); - this.initPagination(); - this.initSort(); - this.initBody(true); - }; - - BootstrapTable.prototype.updateRow = function (params) { - var that = this; - var allParams = $.isArray(params) ? params : [ params ]; - - $.each(allParams, function(i, params) { - if (!params.hasOwnProperty('index') || !params.hasOwnProperty('row')) { - return; - } - $.extend(that.options.data[params.index], params.row); - }); - - this.initSearch(); - this.initPagination(); - this.initSort(); - this.initBody(true); - }; - - BootstrapTable.prototype.initHiddenRows = function () { - this.hiddenRows = []; - }; - - BootstrapTable.prototype.showRow = function (params) { - this.toggleRow(params, true); - }; - - BootstrapTable.prototype.hideRow = function (params) { - this.toggleRow(params, false); - }; - - BootstrapTable.prototype.toggleRow = function (params, visible) { - var row, index; - - if (params.hasOwnProperty('index')) { - row = this.getData()[params.index]; - } else if (params.hasOwnProperty('uniqueId')) { - row = this.getRowByUniqueId(params.uniqueId); - } - - if (!row) { - return; - } - - index = $.inArray(row, this.hiddenRows); - - if (!visible && index === -1) { - this.hiddenRows.push(row); - } else if (visible && index > -1) { - this.hiddenRows.splice(index, 1); - } - this.initBody(true); - }; - - BootstrapTable.prototype.getHiddenRows = function (show) { - var that = this, - data = this.getData(), - rows = []; - - $.each(data, function (i, row) { - if ($.inArray(row, that.hiddenRows) > -1) { - rows.push(row); - } - }); - this.hiddenRows = rows; - return rows; - }; - - BootstrapTable.prototype.mergeCells = function (options) { - var row = options.index, - col = $.inArray(options.field, this.getVisibleFields()), - rowspan = options.rowspan || 1, - colspan = options.colspan || 1, - i, j, - $tr = this.$body.find('>tr'), - $td; - - if (this.options.detailView && !this.options.cardView) { - col += 1; - } - - $td = $tr.eq(row).find('>td').eq(col); - - if (row < 0 || col < 0 || row >= this.data.length) { - return; - } - - for (i = row; i < row + rowspan; i++) { - for (j = col; j < col + colspan; j++) { - $tr.eq(i).find('>td').eq(j).hide(); - } - } - - $td.attr('rowspan', rowspan).attr('colspan', colspan).show(); - }; - - BootstrapTable.prototype.updateCell = function (params) { - if (!params.hasOwnProperty('index') || - !params.hasOwnProperty('field') || - !params.hasOwnProperty('value')) { - return; - } - this.data[params.index][params.field] = params.value; - - if (params.reinit === false) { - return; - } - this.initSort(); - this.initBody(true); - }; - - BootstrapTable.prototype.getOptions = function () { - return this.options; - }; - - BootstrapTable.prototype.getSelections = function () { - var that = this; - - return $.grep(this.options.data, function (row) { - // fix #2424: from html with checkbox - return row[that.header.stateField] === true; - }); - }; - - BootstrapTable.prototype.getAllSelections = function () { - var that = this; - - return $.grep(this.options.data, function (row) { - return row[that.header.stateField]; - }); - }; - - BootstrapTable.prototype.checkAll = function () { - this.checkAll_(true); - }; - - BootstrapTable.prototype.uncheckAll = function () { - this.checkAll_(false); - }; - - BootstrapTable.prototype.checkInvert = function () { - var that = this; - var rows = that.$selectItem.filter(':enabled'); - var checked = rows.filter(':checked'); - rows.each(function() { - $(this).prop('checked', !$(this).prop('checked')); - }); - that.updateRows(); - that.updateSelected(); - that.trigger('uncheck-some', checked); - checked = that.getSelections(); - that.trigger('check-some', checked); - }; - - BootstrapTable.prototype.checkAll_ = function (checked) { - var rows; - if (!checked) { - rows = this.getSelections(); - } - this.$selectAll.add(this.$selectAll_).prop('checked', checked); - this.$selectItem.filter(':enabled').prop('checked', checked); - this.updateRows(); - if (checked) { - rows = this.getSelections(); - } - this.trigger(checked ? 'check-all' : 'uncheck-all', rows); - }; - - BootstrapTable.prototype.check = function (index) { - this.check_(true, index); - }; - - BootstrapTable.prototype.uncheck = function (index) { - this.check_(false, index); - }; - - BootstrapTable.prototype.check_ = function (checked, index) { - var $el = this.$selectItem.filter(sprintf('[data-index="%s"]', index)).prop('checked', checked); - this.data[index][this.header.stateField] = checked; - this.updateSelected(); - this.trigger(checked ? 'check' : 'uncheck', this.data[index], $el); - }; - - BootstrapTable.prototype.checkBy = function (obj) { - this.checkBy_(true, obj); - }; - - BootstrapTable.prototype.uncheckBy = function (obj) { - this.checkBy_(false, obj); - }; - - BootstrapTable.prototype.checkBy_ = function (checked, obj) { - if (!obj.hasOwnProperty('field') || !obj.hasOwnProperty('values')) { - return; - } - - var that = this, - rows = []; - $.each(this.options.data, function (index, row) { - if (!row.hasOwnProperty(obj.field)) { - return false; - } - if ($.inArray(row[obj.field], obj.values) !== -1) { - var $el = that.$selectItem.filter(':enabled') - .filter(sprintf('[data-index="%s"]', index)).prop('checked', checked); - row[that.header.stateField] = checked; - rows.push(row); - that.trigger(checked ? 'check' : 'uncheck', row, $el); - } - }); - this.updateSelected(); - this.trigger(checked ? 'check-some' : 'uncheck-some', rows); - }; - - BootstrapTable.prototype.destroy = function () { - this.$el.insertBefore(this.$container); - $(this.options.toolbar).insertBefore(this.$el); - this.$container.next().remove(); - this.$container.remove(); - this.$el.html(this.$el_.html()) - .css('margin-top', '0') - .attr('class', this.$el_.attr('class') || ''); // reset the class - }; - - BootstrapTable.prototype.showLoading = function () { - this.$tableLoading.show(); - }; - - BootstrapTable.prototype.hideLoading = function () { - this.$tableLoading.hide(); - }; - - BootstrapTable.prototype.togglePagination = function () { - this.options.pagination = !this.options.pagination; - var button = this.$toolbar.find('button[name="paginationSwitch"] i'); - if (this.options.pagination) { - button.attr("class", this.options.iconsPrefix + " " + this.options.icons.paginationSwitchDown); - } else { - button.attr("class", this.options.iconsPrefix + " " + this.options.icons.paginationSwitchUp); - } - this.updatePagination(); - }; - - BootstrapTable.prototype.refresh = function (params) { - if (params && params.url) { - this.options.url = params.url; - } - if (params && params.pageNumber) { - this.options.pageNumber = params.pageNumber; - } - if (params && params.pageSize) { - this.options.pageSize = params.pageSize; - } - this.initServer(params && params.silent, - params && params.query, params && params.url); - this.trigger('refresh', params); - }; - - BootstrapTable.prototype.resetWidth = function () { - if (this.options.showHeader && this.options.height) { - this.fitHeader(); - } - if (this.options.showFooter) { - this.fitFooter(); - } - }; - - BootstrapTable.prototype.showColumn = function (field) { - this.toggleColumn(getFieldIndex(this.columns, field), true, true); - }; - - BootstrapTable.prototype.hideColumn = function (field) { - this.toggleColumn(getFieldIndex(this.columns, field), false, true); - }; - - BootstrapTable.prototype.getHiddenColumns = function () { - return $.grep(this.columns, function (column) { - return !column.visible; - }); - }; - - BootstrapTable.prototype.getVisibleColumns = function () { - return $.grep(this.columns, function (column) { - return column.visible; - }); - }; - - BootstrapTable.prototype.toggleAllColumns = function (visible) { - $.each(this.columns, function (i, column) { - this.columns[i].visible = visible; - }); - - this.initHeader(); - this.initSearch(); - this.initPagination(); - this.initBody(); - if (this.options.showColumns) { - var $items = this.$toolbar.find('.keep-open input').prop('disabled', false); - - if ($items.filter(':checked').length <= this.options.minimumCountColumns) { - $items.filter(':checked').prop('disabled', true); - } - } - }; - - BootstrapTable.prototype.showAllColumns = function () { - this.toggleAllColumns(true); - }; - - BootstrapTable.prototype.hideAllColumns = function () { - this.toggleAllColumns(false); - }; - - BootstrapTable.prototype.filterBy = function (columns) { - this.filterColumns = $.isEmptyObject(columns) ? {} : columns; - this.options.pageNumber = 1; - this.initSearch(); - this.updatePagination(); - }; - - BootstrapTable.prototype.scrollTo = function (value) { - if (typeof value === 'string') { - value = value === 'bottom' ? this.$tableBody[0].scrollHeight : 0; - } - if (typeof value === 'number') { - this.$tableBody.scrollTop(value); - } - if (typeof value === 'undefined') { - return this.$tableBody.scrollTop(); - } - }; - - BootstrapTable.prototype.getScrollPosition = function () { - return this.scrollTo(); - }; - - BootstrapTable.prototype.selectPage = function (page) { - if (page > 0 && page <= this.options.totalPages) { - this.options.pageNumber = page; - this.updatePagination(); - } - }; - - BootstrapTable.prototype.prevPage = function () { - if (this.options.pageNumber > 1) { - this.options.pageNumber--; - this.updatePagination(); - } - }; - - BootstrapTable.prototype.nextPage = function () { - if (this.options.pageNumber < this.options.totalPages) { - this.options.pageNumber++; - this.updatePagination(); - } - }; - - BootstrapTable.prototype.toggleView = function () { - this.options.cardView = !this.options.cardView; - this.initHeader(); - // Fixed remove toolbar when click cardView button. - //that.initToolbar(); - this.initBody(); - this.trigger('toggle', this.options.cardView); - }; - - BootstrapTable.prototype.refreshOptions = function (options) { - //If the objects are equivalent then avoid the call of destroy / init methods - if (compareObjects(this.options, options, true)) { - return; - } - this.options = $.extend(this.options, options); - this.trigger('refresh-options', this.options); - this.destroy(); - this.init(); - }; - - BootstrapTable.prototype.resetSearch = function (text) { - var $search = this.$toolbar.find('.search input'); - $search.val(text || ''); - this.onSearch({currentTarget: $search}); - }; - - BootstrapTable.prototype.expandRow_ = function (expand, index) { - var $tr = this.$body.find(sprintf('> tr[data-index="%s"]', index)); - if ($tr.next().is('tr.detail-view') === (expand ? false : true)) { - $tr.find('> td > .detail-icon').click(); - } - }; - - BootstrapTable.prototype.expandRow = function (index) { - this.expandRow_(true, index); - }; - - BootstrapTable.prototype.collapseRow = function (index) { - this.expandRow_(false, index); - }; - - BootstrapTable.prototype.expandAllRows = function (isSubTable) { - if (isSubTable) { - var $tr = this.$body.find(sprintf('> tr[data-index="%s"]', 0)), - that = this, - detailIcon = null, - executeInterval = false, - idInterval = -1; - - if (!$tr.next().is('tr.detail-view')) { - $tr.find('> td > .detail-icon').click(); - executeInterval = true; - } else if (!$tr.next().next().is('tr.detail-view')) { - $tr.next().find(".detail-icon").click(); - executeInterval = true; - } - - if (executeInterval) { - try { - idInterval = setInterval(function () { - detailIcon = that.$body.find("tr.detail-view").last().find(".detail-icon"); - if (detailIcon.length > 0) { - detailIcon.click(); - } else { - clearInterval(idInterval); - } - }, 1); - } catch (ex) { - clearInterval(idInterval); - } - } - } else { - var trs = this.$body.children(); - for (var i = 0; i < trs.length; i++) { - this.expandRow_(true, $(trs[i]).data("index")); - } - } - }; - - BootstrapTable.prototype.collapseAllRows = function (isSubTable) { - if (isSubTable) { - this.expandRow_(false, 0); - } else { - var trs = this.$body.children(); - for (var i = 0; i < trs.length; i++) { - this.expandRow_(false, $(trs[i]).data("index")); - } - } - }; - - BootstrapTable.prototype.updateFormatText = function (name, text) { - if (this.options[sprintf('format%s', name)]) { - if (typeof text === 'string') { - this.options[sprintf('format%s', name)] = function () { - return text; - }; - } else if (typeof text === 'function') { - this.options[sprintf('format%s', name)] = text; - } - } - this.initToolbar(); - this.initPagination(); - this.initBody(); - }; - - // BOOTSTRAP TABLE PLUGIN DEFINITION - // ======================= - - var allowedMethods = [ - 'getOptions', - 'getSelections', 'getAllSelections', 'getData', - 'load', 'append', 'prepend', 'remove', 'removeAll', - 'insertRow', 'updateRow', 'updateCell', 'updateByUniqueId', 'removeByUniqueId', - 'getRowByUniqueId', 'showRow', 'hideRow', 'getHiddenRows', - 'mergeCells', - 'checkAll', 'uncheckAll', 'checkInvert', - 'check', 'uncheck', - 'checkBy', 'uncheckBy', - 'refresh', - 'resetView', - 'resetWidth', - 'destroy', - 'showLoading', 'hideLoading', - 'showColumn', 'hideColumn', 'getHiddenColumns', 'getVisibleColumns', - 'showAllColumns', 'hideAllColumns', - 'filterBy', - 'scrollTo', - 'getScrollPosition', - 'selectPage', 'prevPage', 'nextPage', - 'togglePagination', - 'toggleView', - 'refreshOptions', - 'resetSearch', - 'expandRow', 'collapseRow', 'expandAllRows', 'collapseAllRows', - 'updateFormatText' - ]; - - $.fn.bootstrapTable = function (option) { - var value, - args = Array.prototype.slice.call(arguments, 1); - - this.each(function () { - var $this = $(this), - data = $this.data('bootstrap.table'), - options = $.extend({}, BootstrapTable.DEFAULTS, $this.data(), - typeof option === 'object' && option); - - if (typeof option === 'string') { - if ($.inArray(option, allowedMethods) < 0) { - throw new Error("Unknown method: " + option); - } - - if (!data) { - return; - } - - value = data[option].apply(data, args); - - if (option === 'destroy') { - $this.removeData('bootstrap.table'); - } - } - - if (!data) { - $this.data('bootstrap.table', (data = new BootstrapTable(this, options))); - } - }); - - return typeof value === 'undefined' ? this : value; - }; - - $.fn.bootstrapTable.Constructor = BootstrapTable; - $.fn.bootstrapTable.defaults = BootstrapTable.DEFAULTS; - $.fn.bootstrapTable.columnDefaults = BootstrapTable.COLUMN_DEFAULTS; - $.fn.bootstrapTable.locales = BootstrapTable.LOCALES; - $.fn.bootstrapTable.methods = allowedMethods; - $.fn.bootstrapTable.utils = { - sprintf: sprintf, - getFieldIndex: getFieldIndex, - compareObjects: compareObjects, - calculateObjectValue: calculateObjectValue, - getItemField: getItemField, - objectKeys: objectKeys, - isIEBrowser: isIEBrowser - }; - - // BOOTSTRAP TABLE INIT - // ======================= - - $(function () { - $('[data-toggle="table"]').bootstrapTable(); - }); -})(jQuery);
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--- a/bin/js/filter.js Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,20 +0,0 @@ -function search(input) { - // Declare variables - var elt, filter, uls, li, a, i; - elt = input.parentElement; - filter = input.value.toUpperCase(); - uls = elt.getElementsByClassName('thumbs'); - - // Loop through all list items, and hide those who don't match the search query - for (j = 0; j < uls.length; j++) { - li = uls[j].getElementsByTagName('li'); - for (i = 0; i < li.length; i++) { - a = li[i].getElementsByTagName("a")[0]; - if (a.innerHTML.toUpperCase().indexOf(filter) > -1) { - li[i].style.display = ""; - } else { - li[i].style.display = "none"; - } - } - } -}
--- a/bin/js/jquery.galleriffic.js Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,979 +0,0 @@ -/** - * jQuery Galleriffic plugin - * - * Copyright (c) 2008 Trent Foley (http://trentacular.com) - * Licensed under the MIT License: - * http://www.opensource.org/licenses/mit-license.php - * - * Much thanks to primary contributer Ponticlaro (http://www.ponticlaro.com) - */ -;(function($) { - // Globally keep track of all images by their unique hash. Each item is an image data object. - var allImages = {}; - var imageCounter = 0; - - // Galleriffic static class - $.galleriffic = { - version: '2.0.1', - - // Strips invalid characters and any leading # characters - normalizeHash: function(hash) { - return hash.replace(/^.*#/, '').replace(/\?.*$/, ''); - }, - - getImage: function(hash) { - if (!hash) - return undefined; - - hash = $.galleriffic.normalizeHash(hash); - return allImages[hash]; - }, - - // Global function that looks up an image by its hash and displays the image. - // Returns false when an image is not found for the specified hash. - // @param {String} hash This is the unique hash value assigned to an image. - gotoImage: function(hash) { - var imageData = $.galleriffic.getImage(hash); - if (!imageData) - return false; - - var gallery = imageData.gallery; - gallery.gotoImage(imageData); - - return true; - }, - - // Removes an image from its respective gallery by its hash. - // Returns false when an image is not found for the specified hash or the - // specified owner gallery does match the located images gallery. - // @param {String} hash This is the unique hash value assigned to an image. - // @param {Object} ownerGallery (Optional) When supplied, the located images - // gallery is verified to be the same as the specified owning gallery before - // performing the remove operation. - removeImageByHash: function(hash, ownerGallery) { - var imageData = $.galleriffic.getImage(hash); - if (!imageData) - return false; - - var gallery = imageData.gallery; - if (ownerGallery && ownerGallery != gallery) - return false; - - return gallery.removeImageByIndex(imageData.index); - } - }; - - var defaults = { - delay: 3000, - numThumbs: 20, - preloadAhead: 40, // Set to -1 to preload all images - enableTopPager: false, - enableBottomPager: true, - maxPagesToShow: 7, - imageContainerSel: '', - captionContainerSel: '', - controlsContainerSel: '', - loadingContainerSel: '', - renderSSControls: true, - renderNavControls: true, - playLinkText: 'Play', - pauseLinkText: 'Pause', - prevLinkText: 'Previous', - nextLinkText: 'Next', - nextPageLinkText: 'Next ›', - prevPageLinkText: '‹ Prev', - enableHistory: false, - enableKeyboardNavigation: true, - autoStart: false, - syncTransitions: false, - defaultTransitionDuration: 1000, - onSlideChange: undefined, // accepts a delegate like such: function(prevIndex, nextIndex) { ... } - onTransitionOut: undefined, // accepts a delegate like such: function(slide, caption, isSync, callback) { ... } - onTransitionIn: undefined, // accepts a delegate like such: function(slide, caption, isSync) { ... } - onPageTransitionOut: undefined, // accepts a delegate like such: function(callback) { ... } - onPageTransitionIn: undefined, // accepts a delegate like such: function() { ... } - onImageAdded: undefined, // accepts a delegate like such: function(imageData, $li) { ... } - onImageRemoved: undefined // accepts a delegate like such: function(imageData, $li) { ... } - }; - - // Primary Galleriffic initialization function that should be called on the thumbnail container. - $.fn.galleriffic = function(settings) { - // Extend Gallery Object - $.extend(this, { - // Returns the version of the script - version: $.galleriffic.version, - - // Current state of the slideshow - isSlideshowRunning: false, - slideshowTimeout: undefined, - - // This function is attached to the click event of generated hyperlinks within the gallery - clickHandler: function(e, link) { - this.pause(); - - if (!this.enableHistory) { - // The href attribute holds the unique hash for an image - var hash = $.galleriffic.normalizeHash($(link).attr('href')); - $.galleriffic.gotoImage(hash); - e.preventDefault(); - } - }, - - // Appends an image to the end of the set of images. Argument listItem can be either a jQuery DOM element or arbitrary html. - // @param listItem Either a jQuery object or a string of html of the list item that is to be added to the gallery. - appendImage: function(listItem) { - this.addImage(listItem, false, false); - return this; - }, - - // Inserts an image into the set of images. Argument listItem can be either a jQuery DOM element or arbitrary html. - // @param listItem Either a jQuery object or a string of html of the list item that is to be added to the gallery. - // @param {Integer} position The index within the gallery where the item shouold be added. - insertImage: function(listItem, position) { - this.addImage(listItem, false, true, position); - return this; - }, - - // Adds an image to the gallery and optionally inserts/appends it to the DOM (thumbExists) - // @param listItem Either a jQuery object or a string of html of the list item that is to be added to the gallery. - // @param {Boolean} thumbExists Specifies whether the thumbnail already exists in the DOM or if it needs to be added. - // @param {Boolean} insert Specifies whether the the image is appended to the end or inserted into the gallery. - // @param {Integer} position The index within the gallery where the item shouold be added. - addImage: function(listItem, thumbExists, insert, position) { - var $li = ( typeof listItem === "string" ) ? $(listItem) : listItem; - var $aThumb = $li.find('a.thumb'); - var slideUrl = $aThumb.attr('href'); - var title = $aThumb.attr('title'); - var $caption = $li.find('.caption').remove(); - var hash = $aThumb.attr('name'); - - // Increment the image counter - imageCounter++; - - // Autogenerate a hash value if none is present or if it is a duplicate - if (!hash || allImages[''+hash]) { - hash = imageCounter; - } - - // Set position to end when not specified - if (!insert) - position = this.data.length; - - var imageData = { - title:title, - slideUrl:slideUrl, - caption:$caption, - hash:hash, - gallery:this, - index:position - }; - - // Add the imageData to this gallery's array of images - if (insert) { - this.data.splice(position, 0, imageData); - - // Reset index value on all imageData objects - this.updateIndices(position); - } - else { - this.data.push(imageData); - } - - var gallery = this; - - // Add the element to the DOM - if (!thumbExists) { - // Update thumbs passing in addition post transition out handler - this.updateThumbs(function() { - var $thumbsUl = gallery.find('ul.thumbs'); - if (insert) - $thumbsUl.children(':eq('+position+')').before($li); - else - $thumbsUl.append($li); - - if (gallery.onImageAdded) - gallery.onImageAdded(imageData, $li); - }); - } - - // Register the image globally - allImages[''+hash] = imageData; - - // Setup attributes and click handler - $aThumb.attr('rel', 'history') - .attr('href', '#'+hash) - .removeAttr('name') - .click(function(e) { - gallery.clickHandler(e, this); - }); - - return this; - }, - - // Removes an image from the gallery based on its index. - // Returns false when the index is out of range. - removeImageByIndex: function(index) { - if (index < 0 || index >= this.data.length) - return false; - - var imageData = this.data[index]; - if (!imageData) - return false; - - this.removeImage(imageData); - - return true; - }, - - // Convenience method that simply calls the global removeImageByHash method. - removeImageByHash: function(hash) { - return $.galleriffic.removeImageByHash(hash, this); - }, - - // Removes an image from the gallery. - removeImage: function(imageData) { - var index = imageData.index; - - // Remove the image from the gallery data array - this.data.splice(index, 1); - - // Remove the global registration - delete allImages[''+imageData.hash]; - - // Remove the image's list item from the DOM - this.updateThumbs(function() { - var $li = gallery.find('ul.thumbs') - .children(':eq('+index+')') - .remove(); - - if (gallery.onImageRemoved) - gallery.onImageRemoved(imageData, $li); - }); - - // Update each image objects index value - this.updateIndices(index); - - return this; - }, - - // Updates the index values of the each of the images in the gallery after the specified index - updateIndices: function(startIndex) { - for (i = startIndex; i < this.data.length; i++) { - this.data[i].index = i; - } - - return this; - }, - - // Scraped the thumbnail container for thumbs and adds each to the gallery - initializeThumbs: function() { - this.data = []; - var gallery = this; - - this.find('ul.thumbs > li').each(function(i) { - gallery.addImage($(this), true, false); - }); - - return this; - }, - - isPreloadComplete: false, - - // Initalizes the image preloader - preloadInit: function() { - if (this.preloadAhead == 0) return this; - - this.preloadStartIndex = this.currentImage.index; - var nextIndex = this.getNextIndex(this.preloadStartIndex); - return this.preloadRecursive(this.preloadStartIndex, nextIndex); - }, - - // Changes the location in the gallery the preloader should work - // @param {Integer} index The index of the image where the preloader should restart at. - preloadRelocate: function(index) { - // By changing this startIndex, the current preload script will restart - this.preloadStartIndex = index; - return this; - }, - - // Recursive function that performs the image preloading - // @param {Integer} startIndex The index of the first image the current preloader started on. - // @param {Integer} currentIndex The index of the current image to preload. - preloadRecursive: function(startIndex, currentIndex) { - // Check if startIndex has been relocated - if (startIndex != this.preloadStartIndex) { - var nextIndex = this.getNextIndex(this.preloadStartIndex); - return this.preloadRecursive(this.preloadStartIndex, nextIndex); - } - - var gallery = this; - - // Now check for preloadAhead count - var preloadCount = currentIndex - startIndex; - if (preloadCount < 0) - preloadCount = this.data.length-1-startIndex+currentIndex; - if (this.preloadAhead >= 0 && preloadCount > this.preloadAhead) { - // Do this in order to keep checking for relocated start index - setTimeout(function() { gallery.preloadRecursive(startIndex, currentIndex); }, 500); - return this; - } - - var imageData = this.data[currentIndex]; - if (!imageData) - return this; - - // If already loaded, continue - if (imageData.image) - return this.preloadNext(startIndex, currentIndex); - - // Preload the image - var image = new Image(); - - image.onload = function() { - imageData.image = this; - gallery.preloadNext(startIndex, currentIndex); - }; - - image.alt = imageData.title; - image.src = imageData.slideUrl; - - return this; - }, - - // Called by preloadRecursive in order to preload the next image after the previous has loaded. - // @param {Integer} startIndex The index of the first image the current preloader started on. - // @param {Integer} currentIndex The index of the current image to preload. - preloadNext: function(startIndex, currentIndex) { - var nextIndex = this.getNextIndex(currentIndex); - if (nextIndex == startIndex) { - this.isPreloadComplete = true; - } else { - // Use setTimeout to free up thread - var gallery = this; - setTimeout(function() { gallery.preloadRecursive(startIndex, nextIndex); }, 100); - } - - return this; - }, - - // Safe way to get the next image index relative to the current image. - // If the current image is the last, returns 0 - getNextIndex: function(index) { - var nextIndex = index+1; - if (nextIndex >= this.data.length) - nextIndex = 0; - return nextIndex; - }, - - // Safe way to get the previous image index relative to the current image. - // If the current image is the first, return the index of the last image in the gallery. - getPrevIndex: function(index) { - var prevIndex = index-1; - if (prevIndex < 0) - prevIndex = this.data.length-1; - return prevIndex; - }, - - // Pauses the slideshow - pause: function() { - this.isSlideshowRunning = false; - if (this.slideshowTimeout) { - clearTimeout(this.slideshowTimeout); - this.slideshowTimeout = undefined; - } - - if (this.$controlsContainer) { - this.$controlsContainer - .find('div.ss-controls a').removeClass().addClass('play') - .attr('title', this.playLinkText) - .attr('href', '#play') - .html(this.playLinkText); - } - - return this; - }, - - // Plays the slideshow - play: function() { - this.isSlideshowRunning = true; - - if (this.$controlsContainer) { - this.$controlsContainer - .find('div.ss-controls a').removeClass().addClass('pause') - .attr('title', this.pauseLinkText) - .attr('href', '#pause') - .html(this.pauseLinkText); - } - - if (!this.slideshowTimeout) { - var gallery = this; - this.slideshowTimeout = setTimeout(function() { gallery.ssAdvance(); }, this.delay); - } - - return this; - }, - - // Toggles the state of the slideshow (playing/paused) - toggleSlideshow: function() { - if (this.isSlideshowRunning) - this.pause(); - else - this.play(); - - return this; - }, - - // Advances the slideshow to the next image and delegates navigation to the - // history plugin when history is enabled - // enableHistory is true - ssAdvance: function() { - if (this.isSlideshowRunning) - this.next(true); - - return this; - }, - - // Advances the gallery to the next image. - // @param {Boolean} dontPause Specifies whether to pause the slideshow. - // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. - next: function(dontPause, bypassHistory) { - this.gotoIndex(this.getNextIndex(this.currentImage.index), dontPause, bypassHistory); - return this; - }, - - // Navigates to the previous image in the gallery. - // @param {Boolean} dontPause Specifies whether to pause the slideshow. - // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. - previous: function(dontPause, bypassHistory) { - this.gotoIndex(this.getPrevIndex(this.currentImage.index), dontPause, bypassHistory); - return this; - }, - - // Navigates to the next page in the gallery. - // @param {Boolean} dontPause Specifies whether to pause the slideshow. - // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. - nextPage: function(dontPause, bypassHistory) { - var page = this.getCurrentPage(); - var lastPage = this.getNumPages() - 1; - if (page < lastPage) { - var startIndex = page * this.numThumbs; - var nextPage = startIndex + this.numThumbs; - this.gotoIndex(nextPage, dontPause, bypassHistory); - } - - return this; - }, - - // Navigates to the previous page in the gallery. - // @param {Boolean} dontPause Specifies whether to pause the slideshow. - // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. - previousPage: function(dontPause, bypassHistory) { - var page = this.getCurrentPage(); - if (page > 0) { - var startIndex = page * this.numThumbs; - var prevPage = startIndex - this.numThumbs; - this.gotoIndex(prevPage, dontPause, bypassHistory); - } - - return this; - }, - - // Navigates to the image at the specified index in the gallery - // @param {Integer} index The index of the image in the gallery to display. - // @param {Boolean} dontPause Specifies whether to pause the slideshow. - // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. - gotoIndex: function(index, dontPause, bypassHistory) { - if (!dontPause) - this.pause(); - - if (index < 0) index = 0; - else if (index >= this.data.length) index = this.data.length-1; - - var imageData = this.data[index]; - - if (!bypassHistory && this.enableHistory) - $.historyLoad(String(imageData.hash)); // At the moment, historyLoad only accepts string arguments - else - this.gotoImage(imageData); - - return this; - }, - - // This function is garaunteed to be called anytime a gallery slide changes. - // @param {Object} imageData An object holding the image metadata of the image to navigate to. - gotoImage: function(imageData) { - var index = imageData.index; - - if (this.onSlideChange) - this.onSlideChange(this.currentImage.index, index); - - this.currentImage = imageData; - this.preloadRelocate(index); - - this.refresh(); - - return this; - }, - - // Returns the default transition duration value. The value is halved when not - // performing a synchronized transition. - // @param {Boolean} isSync Specifies whether the transitions are synchronized. - getDefaultTransitionDuration: function(isSync) { - if (isSync) - return this.defaultTransitionDuration; - return this.defaultTransitionDuration / 2; - }, - - // Rebuilds the slideshow image and controls and performs transitions - refresh: function() { - var imageData = this.currentImage; - if (!imageData) - return this; - - var index = imageData.index; - - // Update Controls - if (this.$controlsContainer) { - this.$controlsContainer - .find('div.nav-controls a.prev').attr('href', '#'+this.data[this.getPrevIndex(index)].hash).end() - .find('div.nav-controls a.next').attr('href', '#'+this.data[this.getNextIndex(index)].hash); - } - - var previousSlide = this.$imageContainer.find('span.current').addClass('previous').removeClass('current'); - var previousCaption = 0; - - if (this.$captionContainer) { - previousCaption = this.$captionContainer.find('span.current').addClass('previous').removeClass('current'); - } - - // Perform transitions simultaneously if syncTransitions is true and the next image is already preloaded - var isSync = this.syncTransitions && imageData.image; - - // Flag we are transitioning - var isTransitioning = true; - var gallery = this; - - var transitionOutCallback = function() { - // Flag that the transition has completed - isTransitioning = false; - - // Remove the old slide - previousSlide.remove(); - - // Remove old caption - if (previousCaption) - previousCaption.remove(); - - if (!isSync) { - if (imageData.image && imageData.hash == gallery.data[gallery.currentImage.index].hash) { - gallery.buildImage(imageData, isSync); - } else { - // Show loading container - if (gallery.$loadingContainer) { - gallery.$loadingContainer.show(); - } - } - } - }; - - if (previousSlide.length == 0) { - // For the first slide, the previous slide will be empty, so we will call the callback immediately - transitionOutCallback(); - } else { - if (this.onTransitionOut) { - this.onTransitionOut(previousSlide, previousCaption, isSync, transitionOutCallback); - } else { - previousSlide.fadeTo(this.getDefaultTransitionDuration(isSync), 0.0, transitionOutCallback); - if (previousCaption) - previousCaption.fadeTo(this.getDefaultTransitionDuration(isSync), 0.0); - } - } - - // Go ahead and begin transitioning in of next image - if (isSync) - this.buildImage(imageData, isSync); - - if (!imageData.image) { - var image = new Image(); - - // Wire up mainImage onload event - image.onload = function() { - imageData.image = this; - - // Only build image if the out transition has completed and we are still on the same image hash - if (!isTransitioning && imageData.hash == gallery.data[gallery.currentImage.index].hash) { - gallery.buildImage(imageData, isSync); - } - }; - - // set alt and src - image.alt = imageData.title; - image.src = imageData.slideUrl; - } - - // This causes the preloader (if still running) to relocate out from the currentIndex - this.relocatePreload = true; - - return this.syncThumbs(); - }, - - // Called by the refresh method after the previous image has been transitioned out or at the same time - // as the out transition when performing a synchronous transition. - // @param {Object} imageData An object holding the image metadata of the image to build. - // @param {Boolean} isSync Specifies whether the transitions are synchronized. - buildImage: function(imageData, isSync) { - var gallery = this; - var nextIndex = this.getNextIndex(imageData.index); - - // Construct new hidden span for the image - var newSlide = this.$imageContainer - .append('<span class="image-wrapper current"><a class="advance-link" rel="history" href="#'+this.data[nextIndex].hash+'" title="'+imageData.title+'"> </a></span>') - .find('span.current').css('opacity', '0'); - - newSlide.find('a') - .append(imageData.image) - .click(function(e) { - gallery.clickHandler(e, this); - }); - - var newCaption = 0; - if (this.$captionContainer) { - // Construct new hidden caption for the image - newCaption = this.$captionContainer - .append('<span class="image-caption current"></span>') - .find('span.current').css('opacity', '0') - .append(imageData.caption); - } - - // Hide the loading conatiner - if (this.$loadingContainer) { - this.$loadingContainer.hide(); - } - - // Transition in the new image - if (this.onTransitionIn) { - this.onTransitionIn(newSlide, newCaption, isSync); - } else { - newSlide.fadeTo(this.getDefaultTransitionDuration(isSync), 1.0); - if (newCaption) - newCaption.fadeTo(this.getDefaultTransitionDuration(isSync), 1.0); - } - - if (this.isSlideshowRunning) { - if (this.slideshowTimeout) - clearTimeout(this.slideshowTimeout); - - this.slideshowTimeout = setTimeout(function() { gallery.ssAdvance(); }, this.delay); - } - - return this; - }, - - // Returns the current page index that should be shown for the currentImage - getCurrentPage: function() { - return Math.floor(this.currentImage.index / this.numThumbs); - }, - - // Applies the selected class to the current image's corresponding thumbnail. - // Also checks if the current page has changed and updates the displayed page of thumbnails if necessary. - syncThumbs: function() { - var page = this.getCurrentPage(); - if (page != this.displayedPage) - this.updateThumbs(); - - // Remove existing selected class and add selected class to new thumb - var $thumbs = this.find('ul.thumbs').children(); - $thumbs.filter('.selected').removeClass('selected'); - $thumbs.eq(this.currentImage.index).addClass('selected'); - - return this; - }, - - // Performs transitions on the thumbnails container and updates the set of - // thumbnails that are to be displayed and the navigation controls. - // @param {Delegate} postTransitionOutHandler An optional delegate that is called after - // the thumbnails container has transitioned out and before the thumbnails are rebuilt. - updateThumbs: function(postTransitionOutHandler) { - var gallery = this; - var transitionOutCallback = function() { - // Call the Post-transition Out Handler - if (postTransitionOutHandler) - postTransitionOutHandler(); - - gallery.rebuildThumbs(); - - // Transition In the thumbsContainer - if (gallery.onPageTransitionIn) - gallery.onPageTransitionIn(); - else - gallery.show(); - }; - - // Transition Out the thumbsContainer - if (this.onPageTransitionOut) { - this.onPageTransitionOut(transitionOutCallback); - } else { - this.hide(); - transitionOutCallback(); - } - - return this; - }, - - // Updates the set of thumbnails that are to be displayed and the navigation controls. - rebuildThumbs: function() { - var needsPagination = this.data.length > this.numThumbs; - - // Rebuild top pager - if (this.enableTopPager) { - var $topPager = this.find('div.top'); - if ($topPager.length == 0) - $topPager = this.prepend('<div class="top pagination"></div>').find('div.top'); - else - $topPager.empty(); - - if (needsPagination) - this.buildPager($topPager); - } - - // Rebuild bottom pager - if (this.enableBottomPager) { - var $bottomPager = this.find('div.bottom'); - if ($bottomPager.length == 0) - $bottomPager = this.append('<div class="bottom pagination"></div>').find('div.bottom'); - else - $bottomPager.empty(); - - if (needsPagination) - this.buildPager($bottomPager); - } - - var page = this.getCurrentPage(); - var startIndex = page*this.numThumbs; - var stopIndex = startIndex+this.numThumbs-1; - if (stopIndex >= this.data.length) - stopIndex = this.data.length-1; - - // Show/Hide thumbs - var $thumbsUl = this.find('ul.thumbs'); - $thumbsUl.find('li').each(function(i) { - var $li = $(this); - if (i >= startIndex && i <= stopIndex) { - $li.show(); - } else { - $li.hide(); - } - }); - - this.displayedPage = page; - - // Remove the noscript class from the thumbs container ul - $thumbsUl.removeClass('noscript'); - - return this; - }, - - // Returns the total number of pages required to display all the thumbnails. - getNumPages: function() { - return Math.ceil(this.data.length/this.numThumbs); - }, - - // Rebuilds the pager control in the specified matched element. - // @param {jQuery} pager A jQuery element set matching the particular pager to be rebuilt. - buildPager: function(pager) { - var gallery = this; - var numPages = this.getNumPages(); - var page = this.getCurrentPage(); - var startIndex = page * this.numThumbs; - var pagesRemaining = this.maxPagesToShow - 1; - - var pageNum = page - Math.floor((this.maxPagesToShow - 1) / 2) + 1; - if (pageNum > 0) { - var remainingPageCount = numPages - pageNum; - if (remainingPageCount < pagesRemaining) { - pageNum = pageNum - (pagesRemaining - remainingPageCount); - } - } - - if (pageNum < 0) { - pageNum = 0; - } - - // Prev Page Link - if (page > 0) { - var prevPage = startIndex - this.numThumbs; - pager.append('<a rel="history" href="#'+this.data[prevPage].hash+'" title="'+this.prevPageLinkText+'">'+this.prevPageLinkText+'</a>'); - } - - // Create First Page link if needed - if (pageNum > 0) { - this.buildPageLink(pager, 0, numPages); - if (pageNum > 1) - pager.append('<span class="ellipsis">…</span>'); - - pagesRemaining--; - } - - // Page Index Links - while (pagesRemaining > 0) { - this.buildPageLink(pager, pageNum, numPages); - pagesRemaining--; - pageNum++; - } - - // Create Last Page link if needed - if (pageNum < numPages) { - var lastPageNum = numPages - 1; - if (pageNum < lastPageNum) - pager.append('<span class="ellipsis">…</span>'); - - this.buildPageLink(pager, lastPageNum, numPages); - } - - // Next Page Link - var nextPage = startIndex + this.numThumbs; - if (nextPage < this.data.length) { - pager.append('<a rel="history" href="#'+this.data[nextPage].hash+'" title="'+this.nextPageLinkText+'">'+this.nextPageLinkText+'</a>'); - } - - pager.find('a').click(function(e) { - gallery.clickHandler(e, this); - }); - - return this; - }, - - // Builds a single page link within a pager. This function is called by buildPager - // @param {jQuery} pager A jQuery element set matching the particular pager to be rebuilt. - // @param {Integer} pageNum The page number of the page link to build. - // @param {Integer} numPages The total number of pages required to display all thumbnails. - buildPageLink: function(pager, pageNum, numPages) { - var pageLabel = pageNum + 1; - var currentPage = this.getCurrentPage(); - if (pageNum == currentPage) - pager.append('<span class="current">'+pageLabel+'</span>'); - else if (pageNum < numPages) { - var imageIndex = pageNum*this.numThumbs; - pager.append('<a rel="history" href="#'+this.data[imageIndex].hash+'" title="'+pageLabel+'">'+pageLabel+'</a>'); - } - - return this; - } - }); - - // Now initialize the gallery - $.extend(this, defaults, settings); - - // Verify the history plugin is available - if (this.enableHistory && !$.historyInit) - this.enableHistory = false; - - // Select containers - if (this.imageContainerSel) this.$imageContainer = $(this.imageContainerSel); - if (this.captionContainerSel) this.$captionContainer = $(this.captionContainerSel); - if (this.loadingContainerSel) this.$loadingContainer = $(this.loadingContainerSel); - - // Initialize the thumbails - this.initializeThumbs(); - - if (this.maxPagesToShow < 3) - this.maxPagesToShow = 3; - - this.displayedPage = -1; - this.currentImage = this.data[0]; - var gallery = this; - - // Hide the loadingContainer - if (this.$loadingContainer) - this.$loadingContainer.hide(); - - // Setup controls - if (this.controlsContainerSel) { - this.$controlsContainer = $(this.controlsContainerSel).empty(); - - if (this.renderSSControls) { - if (this.autoStart) { - this.$controlsContainer - .append('<div class="ss-controls"><a href="#pause" class="pause" title="'+this.pauseLinkText+'">'+this.pauseLinkText+'</a></div>'); - } else { - this.$controlsContainer - .append('<div class="ss-controls"><a href="#play" class="play" title="'+this.playLinkText+'">'+this.playLinkText+'</a></div>'); - } - - this.$controlsContainer.find('div.ss-controls a') - .click(function(e) { - gallery.toggleSlideshow(); - e.preventDefault(); - return false; - }); - } - - if (this.renderNavControls) { - this.$controlsContainer - .append('<div class="nav-controls"><a class="prev" rel="history" title="'+this.prevLinkText+'">'+this.prevLinkText+'</a><a class="next" rel="history" title="'+this.nextLinkText+'">'+this.nextLinkText+'</a></div>') - .find('div.nav-controls a') - .click(function(e) { - gallery.clickHandler(e, this); - }); - } - } - - var initFirstImage = !this.enableHistory || !location.hash; - if (this.enableHistory && location.hash) { - var hash = $.galleriffic.normalizeHash(location.hash); - var imageData = allImages[hash]; - if (!imageData) - initFirstImage = true; - } - - // Setup gallery to show the first image - if (initFirstImage) - this.gotoIndex(0, false, true); - - // Setup Keyboard Navigation - if (this.enableKeyboardNavigation) { - $(document).keydown(function(e) { - var key = e.charCode ? e.charCode : e.keyCode ? e.keyCode : 0; - switch(key) { - case 32: // space - gallery.next(); - e.preventDefault(); - break; - case 33: // Page Up - gallery.previousPage(); - e.preventDefault(); - break; - case 34: // Page Down - gallery.nextPage(); - e.preventDefault(); - break; - case 35: // End - gallery.gotoIndex(gallery.data.length-1); - e.preventDefault(); - break; - case 36: // Home - gallery.gotoIndex(0); - e.preventDefault(); - break; - case 37: // left arrow - gallery.previous(); - e.preventDefault(); - break; - case 39: // right arrow - gallery.next(); - e.preventDefault(); - break; - } - }); - } - - // Auto start the slideshow - if (this.autoStart) - this.play(); - - // Kickoff Image Preloader after 1 second - setTimeout(function() { gallery.preloadInit(); }, 1000); - - return this; - }; -})(jQuery);
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--- a/bin/js/jquery.opacityrollover.js Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,42 +0,0 @@ -/** - * jQuery Opacity Rollover plugin - * - * Copyright (c) 2009 Trent Foley (http://trentacular.com) - * Licensed under the MIT License: - * http://www.opensource.org/licenses/mit-license.php - */ -;(function($) { - var defaults = { - mouseOutOpacity: 0.67, - mouseOverOpacity: 1.0, - fadeSpeed: 'fast', - exemptionSelector: '.selected' - }; - - $.fn.opacityrollover = function(settings) { - // Initialize the effect - $.extend(this, defaults, settings); - - var config = this; - - function fadeTo(element, opacity) { - var $target = $(element); - - if (config.exemptionSelector) - $target = $target.not(config.exemptionSelector); - - $target.fadeTo(config.fadeSpeed, opacity); - } - - this.css('opacity', this.mouseOutOpacity) - .hover( - function () { - fadeTo(this, config.mouseOverOpacity); - }, - function () { - fadeTo(this, config.mouseOutOpacity); - }); - - return this; - }; -})(jQuery);
--- a/bin/ppp.pm Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,230 +0,0 @@ -package ppp; - -use strict; -use warnings; -use FindBin; -use lib $FindBin::Bin; -use Rcall qw ( histogram ); -use Math::CDF; - -use Exporter; -our @ISA = qw( Exporter ); -our @EXPORT_OK = qw( &ping_pong_partners ); - -sub ping_pong_partners -{ - my ( $TE_fai, $sam, $dir, $max ) = @_; - my ( $hashRef, $dupRef, $hasPpp ) = count_mapped ( $TE_fai, $sam ); - my ( %num_per_overlap_size, $overlap_number, $reverseR, $begRev, $endRev, $sensR, $begSens, $endSens, $snum, $rnum, $overlap ); - my ( $SP, $AP, $SN, $AN, $txt ); - my $flag = 0; - my @distri_overlap = (); my @overlaps_names = (); - - open my $ppp_f, '>', $dir."ppp.txt" || die "cannot create ppp.txt $!\n"; - foreach my $k ( sort keys %{$hashRef} ) - { - my $v = $hashRef->{$k}; - my $TE_dir = $dir.$k.'/'; - - %num_per_overlap_size = (); $overlap_number = 0; - $flag = 0; - for ( my $i = 0; $i <= $#{$v->[1]} ; $i++ ) - { - $reverseR = ${$v->[1]}[$i] ; - $begRev = $reverseR->[0]; - $endRev = $begRev + length($reverseR->[1]) - 1; - - my $revR = reverse($reverseR->[1]); - $revR =~ tr/atgcuATGCU/tacgaTACGA/; - - for ( my $j = 0; $j <= $#{$v->[0]}; $j++ ) - { - $sensR = ${$v->[0]}[$j]; - $begSens = $sensR->[0]; - $endSens = $begSens + length($sensR->[1]) - 1; - - if ( $begSens <= $endRev && $endSens > $endRev ) - { - $flag = 1; - mkdir $TE_dir; - open $txt, '>', $TE_dir.'overlap_size.txt' || die "cannot open repartition\n"; - - $overlap = $endRev - $begSens + 1; - $snum = $dupRef->{$sensR->[0].$sensR->[1].$sensR->[2].$sensR->[3]}; - $rnum = $dupRef->{$reverseR->[0].$reverseR->[1].$reverseR->[2].$reverseR->[3]}; - - if ( $overlap == 10 ) - { - $hasPpp->{ $sensR->[0].$sensR->[1].$sensR->[2].$sensR->[3] } = 1; - $hasPpp->{ $reverseR->[0].$reverseR->[1].$reverseR->[2].$reverseR->[3] } = 1; - } - next if $overlap > $max; - if ( $snum < $rnum ) - { - $num_per_overlap_size{$overlap} += $snum; - $overlap_number += $snum; - } - else - { - $num_per_overlap_size{$overlap} += $rnum ; - $overlap_number += $rnum ; - } - } - } - } - if ( $max != 0 ) - { - my @overlaps = (); - push @overlaps_names, $k; - for my $i (1..$max) - { - $num_per_overlap_size{$i} = 0 unless exists( $num_per_overlap_size{$i} ); - push @overlaps, $num_per_overlap_size{$i}; - } - push @distri_overlap, \@overlaps; - } - - if ( $flag == 1 ) - { - open $AP, '>', $TE_dir."antisensPPP.txt" || die "cannot create antisensPPP\n"; - open $AN, '>', $TE_dir."antisens.txt" || die "cannot create antisens\n"; - for ( my $i = 0; $i <= $#{$v->[1]} ; $i++ ) - { - $reverseR = ${$v->[1]}[$i] ; - my $revR = reverse($reverseR->[1]); - $revR =~ tr/atgcuATGCU/tacgaTACGA/; - $rnum = $dupRef->{$reverseR->[0].$reverseR->[1].$reverseR->[2].$reverseR->[3]}; - if ( $hasPpp->{ $reverseR->[0].$reverseR->[1].$reverseR->[2].$reverseR->[3] } == 1 ) - { - print $AP ">$reverseR->[0]|$reverseR->[2]|$reverseR->[3]|$rnum\n$revR\n"; - } - else - { - print $AN ">$reverseR->[0]|$reverseR->[2]|$reverseR->[3]|$rnum\n$revR\n"; - } - } - close $AP; close $AN; - - open $SP, '>', $TE_dir."sensPPP.txt" || die "cannot create sensPPP\n"; - open $SN, '>', $TE_dir."sens.txt" || die "cannot create sens\n"; - for ( my $j = 0; $j <= $#{$v->[0]}; $j++ ) - { - $sensR = ${$v->[0]}[$j]; - $snum = $dupRef->{$sensR->[0].$sensR->[1].$sensR->[2].$sensR->[3]}; - if ( $hasPpp->{ $sensR->[0].$sensR->[1].$sensR->[2].$sensR->[3] } == 1 ) - { - print $SP ">$sensR->[0]|$sensR->[2]|$sensR->[3]|$snum\n$sensR->[1]\n"; - } - else - { - print $SN ">$sensR->[0]|$sensR->[2]|$sensR->[3]|$snum\n$sensR->[1]\n"; - } - } - close $SP; close $SN; - - my $histo_png = $TE_dir.'histogram.png'; - histogram( \%num_per_overlap_size, $histo_png, $overlap_number ); - print $txt "size\tnumber\tpercentage of the total overlap number\n"; - foreach my $k ( sort {$a <=> $b} keys %num_per_overlap_size ) - { - my $percentage = 0; - $percentage = $num_per_overlap_size{$k} * 100 / $overlap_number unless $overlap_number == 0; - print $txt "$k\t$num_per_overlap_size{$k}\t"; printf $txt "%.2f\n",$percentage; - } - close $txt; - } - } - - foreach my $tabP ( @distri_overlap ) - { - my $sum = sum($tabP); - my $ten = $tabP->[9]; - my $mean = mean($tabP); - my $std = standard_deviation($tabP, $mean); - my $zsc = z_significance($ten, $mean, $std); - my $name = shift @overlaps_names; - my $prob = 'NA'; - $prob = 1 - &Math::CDF::pnorm( $zsc ) if $zsc ne 'NA'; - print $ppp_f (join ("\t", $name, $sum, $ten, $mean, $std, $zsc, $prob ),"\n" ); - } - close $ppp_f; -} - -sub count_mapped -{ - my ( $fai, $in_file ) = @_; - my ( %mapped, %dup, %has_ppp ); - - open my $f, '<', $fai || die "cannot open $fai $! \n"; - while(<$f>) - { - if ($_ =~ /(.*)\t(\d+)\n/) - { - $mapped{$1} = []; - $mapped{$1}->[0] = []; $mapped{$1}->[1] = []; - } - } - close $f; - - open my $infile, "samtools view '$in_file' |"|| die "cannot open input file $! \n"; - while(<$infile>) - { - unless ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) - { - my @line = split (/\t/,$_); - if ($line[1] == 0) - { - unless ( exists ($dup{$line[3].$line[9].$line[1].$line[2]}) ) - { - push @{$mapped{$line[2]}->[0]} , [$line[3], $line[9], $line[1], $line[2]]; - $has_ppp {$line[3].$line[9].$line[1].$line[2]} = 0; - } - $dup{$line[3].$line[9].$line[1].$line[2]}+=1; - } - elsif ($line[1] == 16) - { - unless ( exists ($dup{$line[3].$line[9].$line[1].$line[2]}) ) - { - push @{$mapped{$line[2]}->[1]} , [$line[3], $line[9], $line[1], $line[2]]; - $has_ppp{$line[3].$line[9].$line[1].$line[2]} = 0; - } - $dup{$line[3].$line[9].$line[1].$line[2]}+=1 - } - } - } - close $infile; - return (\%mapped, \%dup, \%has_ppp ); -} - -sub sum -{ - my $arrayref = shift; - my $result = 0; - foreach (@$arrayref) {$result += $_} - return $result; -} - -sub mean -{ - my $arrayref = shift; - my $result; - foreach (@$arrayref) {$result += $_} - return $result / scalar(@$arrayref); -} - -sub standard_deviation -{ - my ($arrayref, $mean) = @_; - return sqrt ( mean ( [map $_**2 , @$arrayref ]) - ($mean**2)); -} - -sub z_significance -{ - my ($ten, $mean, $std) = @_; - my $z = 'NA'; - $z = (($ten - $mean) / $std) if $std != 0; - return $z; -} - -1; -
--- a/bin/resize.pm Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,101 +0,0 @@ -package resize; - -use strict; -use warnings; - -use FindBin; -use lib $FindBin::Bin; -use Rcall qw ( histogram ); - -use Exporter; -our @ISA = qw( Exporter ); -our @EXPORT_OK = qw( &size_distribution ); - -sub size_distribution -{ - my ( $fastq, $fastq_out, $dir, $min, $max ) = @_; - - my ( %fragments_size, %duplicates ) ; - my $num = size($min, $max, $fastq, $fastq_out, \%fragments_size, \%duplicates); - - my $png = $dir.'histogram.png'; - histogram(\%fragments_size, $png, $num); - - my $size = $dir.'reads_size.txt'; - - - my $pourcentage; - open my $o, '>', $size || die "cannot open $size $!\n"; - print $o "size\tnumber\tpercentage\n"; - foreach my $k (sort { $a <=> $b } keys %fragments_size ) - { - $pourcentage = $fragments_size{$k} / $num * 100; - - print $o "$k\t$fragments_size{$k}\t"; - printf $o "%.2f\n",$pourcentage; - } - close $o; - - my $dup = $dir.'duplicates.txt' ; - open $o, '>', $dup || die "cannot open $size $!\n"; - print $o "size\tnumber\n"; - foreach my $k (sort { $duplicates{$b} <=> $duplicates{$a} } keys %duplicates ) - { - print $o "$k\t$duplicates{$k}\n"; - } - close $o; -} - -sub size -{ - my ($min, $max, $in_file, $out_file, $sizeHashR, $duplicateHashR) = @_; - my ($numreads, $size, $cmp, $ok, $line) = (0, 0, 0, 0); - my @fastq; - open (my $in, $in_file) || die "cannot open $in_file $!\n"; - open (my $out, ">".$out_file) || die "cannot create $out_file $!\n"; - while(<$in>) - { - chomp $_; - $cmp++; $line++; - if ($cmp == 1) - { - die "file do not contain a @ at line $line\n" unless ($_ =~ /^\@/ ); - $ok = 0; @fastq = (); - push(@fastq,$_); - } - elsif ($cmp == 2) - { - #die "unrecognized symbol at line $line\n" unless ($_ =~ /[atcgATCGnN]+/ || $_ =~ /^$/ ); - push(@fastq,$_); - $size = length($_); - if ($size >= $min && $size <= $max) - { - $numreads++; - ${$sizeHashR}{$size}+=1; - ${$duplicateHashR}{$_}+=1 if (defined($duplicateHashR)); - $ok = 1; - } - } - elsif ($cmp == 3 ) - { - die "file do not contain a + at line $line\n" unless $_ =~ /^\+/; - push(@fastq,$_); - } - elsif ($cmp == 4 ) - { - push(@fastq,$_); - $cmp = 0; - if ($ok == 1) - { - foreach my $t (@fastq) - { - print $out $t."\n"; - } - } - } - } - close $in; close $out; - return $numreads; -} - -1;
--- a/bin/sRNAPipe.pl Thu Jan 24 13:09:46 2019 -0500 +++ b/bin/sRNAPipe.pl Mon Jan 28 11:57:15 2019 -0500 @@ -1,20 +1,21 @@ -#!/usr/bin/perl +#!/usr/bin/env perl +package main; use strict; use warnings; use Getopt::Long; use Parallel::ForkManager; use File::Basename; -use File::Copy::Recursive qw( dircopy ); +use File::Copy; use POSIX; use FindBin; -use lib $FindBin::Bin; -use resize qw ( size_distribution ); -use subgroups qw (subgroups ); -use ppp qw ( ping_pong_partners ); -use Rcall qw (pie_chart bg_to_png ); -use align qw ( to_build get_unique sam_count sam_count_mis sam_sorted_bam rpms_rpkm rpms_rpkm_te BWA_call get_fastq_seq extract_sam sam_to_bam_bg ); -use html qw ( main_page details_pages menu_page ppp_page ); -use File::Copy; +use lib "$FindBin::Bin/../lib"; +use sRNAPipe; +use sRNAPipe::resize qw ( size_distribution ); +use sRNAPipe::subgroups qw ( subgroups ); +use sRNAPipe::ppp qw ( ping_pong_partners ); +use sRNAPipe::Rcall qw (pie_chart bg_to_png ); +use sRNAPipe::align qw ( to_build get_unique sam_count sam_count_mis sam_sorted_bam rpms_rpkm rpms_rpkm_te BWA_call get_fastq_seq extract_sam sam_to_bam_bg ); +use sRNAPipe::html qw ( main_page details_pages menu_page ppp_page copy_css copy_js ); if(@ARGV) { my ( @fastq, @fastq_n, $dir, $min, $max, $mis, $misTE, $help, $Pcheck, $mapnumf, $html_out); @@ -62,8 +63,8 @@ mkdir $dir; mkdir $fq_collection; $dir = $dir.'/' unless $dir =~ /\/$/; mkdir $dir.'/css';mkdir $dir.'/js'; - dircopy( $FindBin::Bin.'/css', $dir.'/css' ); - dircopy( $FindBin::Bin.'/js', $dir.'/js' ); + copy_css( $dir ); + copy_js( $dir ); my $file = $dir.'report.txt'; open my $report, '>', $file or die "Cannot open $file $!\n"; @@ -273,5 +274,34 @@ print $report "Job done!\n"; close $report; } else { - print "sRNAPipe v1.1\n"; + print "sRNAPipe version $sRNAPipe::VERSION + +Usage: + +sRNAPipe --fastq <fastq file 1> --fastq_n <name 1> [--fastq <fastq file 2> --fastq_n <name 2> --fastq <fastq file 3> -- fastq_n <name 3> ...] --ref <reference genome> [--build_index] --transcripts <transcripts> [--build_transcripts] --TE <transposable elements> [--build_TE] --miRNAs <miRNAs> [--build_miRNAs] --snRNAs <snRNAs> [--build_snRNAs] --rRNAs <rRNAs> [--build_rRNAs] --tRNAs <tRNAs> [--buid_tRNAs] [options] + +Arguments: +--fastq <fastq file>\t\tFastq file to process +--fastq_n <name>\t\tName of the content to process +--ref <reference>\t\tFasta file containing the reference genome +--transcripts <transcripts>\tFasta file containing the transcripts +--TE <TE>\t\t\tFasta file containing the transposable elements +--miRNAs <miRNAs>\t\tFasta file containing the miRNAs +--snRNAs <snRNAs>\t\tFasta file containing the snRNAs +--rRNAs <rRNAs>\t\t\tFasta file containing the rRNAs +--tRNAs <tRNAS>\t\t\tFasta file containing the tRNAs + +For any fasta file, if a bwa index is not provided, you should build it through the corresponding '--build_[element]' argument + +Options: +--min <INT>\t\t\tMinimum read size (default: 18) +--max <INT>\t\t\tMaximum read size (default: 29) +--si_min <INT>\t\t\tLower bound of siRNA range (default: 21) +--si_max <INT>\t\t\tHigher bound of siRNA range (default: 21) +--pi_min <INT>\t\t\tLower bound of piRNA range (default: 23) +--pi_max <INT>\t\t\tHigher bound of piRNA range (default: 29) +--mis <INT>\t\t\tMaximal genome mismatches (default: 0) +--misTE <INT>\t\t\tMaximal TE mismatches (default: 3) +--PPPon <true|false>\t\tPing-pong partners (default: true) +"; }
--- a/bin/subgroups.pm Thu Jan 24 13:09:46 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,174 +0,0 @@ -package subgroups; - -use strict; -use warnings; -use Exporter; -our @ISA = qw( Exporter ); -our @EXPORT_OK = qw( &subgroups ); - -use POSIX; -use File::Copy; -use FindBin; -use lib $FindBin::Bin; -use align qw ( get_hash_alignment ); - -sub subgroups -{ - my ($fin, $dir, $mis, $mis_TE, $proc, $tRNAs, $rRNAs, $snRNAs, $miRNAs, $transcripts, $TE, $min_si, $max_si, $min_pi, $max_pi, $report ) = @_; - my (@files, $sum, $pie, $repar, %ismapped, %isjunk, %repartition, @junk_ref, @all_ref ); - - srand(); - print $report "----------------------------\n"; - print $report "Create subgroups:\nfastq_in: $fin\ndirectory_out: $dir\nmismatches: $mis\nmismatches TE: $mis_TE\n"; - - mkdir $dir; - $dir = $dir.'/' unless $dir =~ /(.*)\/$/; - - my $accept_miRNas = $dir.'miRNAs.fastq'; - my $reject_miRNAs = $dir.'miRNAs_rejected.fastq'; - my $sam_miRNAs = $dir.'miRNAs.sam'; - my @tmp = get_hash_alignment($miRNAs, $mis, 1, 1, $accept_miRNas, $reject_miRNAs, $fin, $proc, 'miRNAs',$sam_miRNAs, $report); - my $mi = $tmp[0]; my $sam = ''; - $repartition{'miRNAs'} = $mi; - - - my $reject_rRNAs = $dir.'rRNAs_rejected.fastq'; - if ( $rRNAs eq 'None') - { - move($reject_miRNAs,$reject_rRNAs); - } - else - { - $sam = new String::Random; - $sam = $sam->randpattern("CCcccccc"); - @tmp = get_hash_alignment($rRNAs, $mis, 0, 1, 'NA', $reject_rRNAs, $reject_miRNAs, $proc, 'rRNAs', $sam, $report); - $repartition{'rRNAs'} = $tmp[0]; - unlink $sam, $sam.'_aln.err', $sam.'_samse.err'; - } - - my $reject_tRNAs = $dir.'rRNAs_rejected.fastq'; - if ( $rRNAs eq 'None') - { - move($reject_rRNAs,$reject_tRNAs); - } - else - { - $sam = new String::Random; - $sam = $sam->randpattern("CCcccccc"); - @tmp = get_hash_alignment($tRNAs, $mis, 0, 1, 'NA', $reject_tRNAs, $reject_rRNAs, $proc, 'tRNAs', $sam, $report); - $repartition{'tRNAs'} = $tmp[0]; - unlink $sam, $sam.'_aln.err', $sam.'_samse.err'; - } - - - my $bonafide = $dir.'bonafide_reads.fastq'; - if ( $rRNAs eq 'None') - { - move($reject_tRNAs,$bonafide); - } - else - { - $sam = new String::Random; - $sam = $sam->randpattern("CCcccccc"); - @tmp = get_hash_alignment($snRNAs, $mis, 0, 1, 'NA', $bonafide, $reject_tRNAs, $proc, 'snRNAs', $sam, $report); - $repartition{'snRNAs'} = $tmp[0]; - - unlink $sam, $sam.'_aln.err', $sam.'_samse.err'; - } - my $bo = $tmp[1]; - - my $sam_transcripts = $dir.'transcripts.sam'; - my $reject_transcripts = $dir.'rejected_transcripts.fastq'; - @tmp = get_hash_alignment($transcripts, $mis, 0, 1, 'NA', $reject_transcripts, $bonafide, $proc, 'transcripts', $sam_transcripts, $report, $dir.'transcripts.fai'); - $repartition{'transcripts'} = $tmp[0]; - - - my $sam_TEs = $dir.'TEs.sam'; - my $reject_TEs = $dir.'rejected.fastq'; - @tmp = get_hash_alignment($TE, $mis_TE, 0, 1, 'NA', $reject_TEs, $reject_transcripts, $proc, 'TEs', $sam_TEs, $report, $dir.'TEs.fai' ); - $repartition{'TEs'} = $tmp[0] ; $repartition{'others'} = $tmp[1]; - unlink $sam, $sam.'_aln.err', $sam.'_samse.err'; - unlink $reject_transcripts; - unlink $reject_rRNAs; - unlink $reject_miRNAs; - unlink $reject_tRNAs; - - #create repartition - my $pi = fastqSubgroups($bonafide, $dir, $min_si, $max_si, $min_pi, $max_pi ); - - open (my $re, '>'.$dir.'repartition.txt') || die "cannot open $dir repartition.txt $!\n"; - print $re "type\tnumber\tpercentage\n"; - $sum += $_ foreach values %repartition; - foreach my $k ( sort keys %repartition ) - { - my $prct = 0; - $prct = $repartition{$k} / $sum * 100 if $sum != 0; - print $re "$k\t$repartition{$k}\t"; printf $re "%.2f\n",$prct; - } - return ( $bo, $mi, $pi); -} - -sub fastqSubgroups -{ - my ( $fastq, $output_directory, $min_si, $max_si, $min_pi, $max_pi ) = @_; - my $fastq_siRNA = $output_directory."siRNAs.fastq"; - my $fastq_piRNA = $output_directory."piRNAs.fastq"; - - open my $fic, '<', $fastq || die "cannot open input file $! \n"; - open my $si, '>', $fastq_siRNA || die "cannot open siRNA.fastq $! \n"; - open my $pi, '>', $fastq_piRNA || die "cannot open piRNA.fastq $! \n"; - - my ($length, $cmp, $type, $siRNA_number, $miRNA_h_number, $piRNA_number, $not_pi_number) = (0,0,0,0,0,0,0); - my (@fastq) =(); my $seq_name; - my $out; - while(<$fic>) - { - chomp $_; - $cmp++; - if ($cmp == 1) - { - die "file do not contain a @ at line $cmp\n" unless ($_ =~ /^\@/ ); - $type = 0; @fastq = (); - if ($_ =~ /^\@(.*)\s.*/) { $seq_name = $1;} - elsif ($_ =~ /^\@(.*)/) {$seq_name = $1;} - push(@fastq,$_); - } - elsif ($cmp == 2) - { - #die "unrecognized symbol at line $cmp\n" unless $_ =~ /[atcgATCGnN]+/; - push(@fastq,$_); - $length = length($_); - $type = 0; - if ( $length >= $min_si && $length <= $max_si ) - { - $type = 2; - $siRNA_number++; - } - if ($length >= $min_pi && $length <= $max_pi ) - { - $type += 4; - $piRNA_number++; - } - } - elsif ($cmp == 3 ) - { - die "file do not contain a + at line $cmp\n" unless $_ =~ /^\+/; - push(@fastq,$_); - } - elsif ($cmp == 4 ) - { - push(@fastq,$_); - $cmp = 0; - if ($type != 0) - { - if ($type & 4 ) { foreach my $t (@fastq) { print $pi $t."\n";} } - if ($type & 2 ) { foreach my $t (@fastq) { print $si $t."\n";} } - } - } - } - close $fic; - close $si; close $pi; - return ($piRNA_number); -} - -1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe.pm Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,5 @@ +package sRNAPipe; + +our $VERSION = '1.1'; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/Rcall.pm Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,136 @@ +package sRNAPipe::Rcall; + +use strict; +use warnings; +use Statistics::R; + +use Exporter; +our @ISA = qw(Exporter); +our @EXPORT_OK = qw( &histogram &pie_chart &bg_to_png ); + +sub histogram +{ + my ($size_hashR, $out_png, $size) = @_; + my (@abs, @ord); + my $i = 0; + foreach my $k (sort {$a <=> $b} keys %{$size_hashR}) + { + my $percentage = 0; + $percentage = $size_hashR->{$k} * 100 / $size if $size != 0; + $abs[$i] = $k ; $ord[$i] = $percentage; $i++; + } + my $abs = join (",", @abs ); + my $ord = join (",", @ord ); + if (scalar(@abs) != 0) + { + + my $R = Statistics::R->new(); + $R->startR; + $R->send( + qq`library(ggplot2) + percentage = c($ord) + size =c($abs) + min = min(size) + max = max(size) + dat = data.frame(size,percentage) + png(filename=\"$out_png\", width = 640, height = 640) + c = ggplot(dat,aes(size,percentage)) + c + geom_bar(stat="identity") + scale_x_continuous(breaks=min:max)+theme( axis.text.x = element_text(angle=90, hjust=0.5, size=20), axis.text.y = element_text( size=20 ), axis.title.x = element_text( size=25, face="bold"), axis.title.y = element_text( size=25, face="bold") ) + dev.off()`); + $R->stopR(); + + } +} + +sub bg_to_png +{ + my ( $fai, $bgP, $bgM, $dir, $sb ) = @_; + my $R = Statistics::R->new(); + $R->startR; + $R->send( + qq`library('Sushi') + fai =read.table("$fai") + if ( file.info("$bgP")\$size !=0 ) + { + bgP = read.table("$bgP") + } else { bgP = data.frame(factor(),integer()) } + + if ( file.info("$bgM")\$size !=0 ) + { + bgM = read.table("$bgM") + } else { bgM = data.frame(factor(),integer()) } + + f_both = function(chr,end) { + jpeg( paste0("$dir",as.character(chr),".png"), quality=100) + par(mfrow=c(2,1),mar=c(1,10,1,3)) + plotBedgraph(bgP, chrom=chr,chromstart=0,chromend=end,transparency=.50, color=SushiColors(2)(2)[1]) + axis(side=2,las=2,tcl=.2) + mtext("Scaled Read Depth",side=2,line=4,cex=1,font=2) + plotBedgraph(bgM, chrom=chr,chromstart=0,chromend=end,transparency=.50, flip=TRUE, color=SushiColors(2)(2)[2]) + labelgenome(chrom=chr,chromstart=0,chromend=end,side=3,n=3,scale="$sb", line=0, chromline = 0.5, scaleline = 0.5, scaleadjust =1.05, chromadjust = -0.4) + axis(side=2,las=2,tcl=.2,at=pretty(par("yaxp")[c(1,2)]),labels=-1*pretty(par("yaxp")[c(1,2)])) + mtext("Scaled Read Depth",side=2,line=4.5,cex=1,font=2) + dev.off() + } + + f_plus = function(chr,end) { + jpeg( paste0("$dir",as.character(chr),".png"), quality=100) + plotBedgraph(bgP, chrom=chr,chromstart=0,chromend=end,transparency=.50, color=SushiColors(2)(2)[1]) + labelgenome(chrom=chr,chromstart=0,chromend=end,n=3,scale="$sb", line=0, chromline = 0.5, scaleline = 0.5, scaleadjust =1.05, chromadjust = -0.4) + axis(side=2,las=2,tcl=.2) + mtext("Scaled Read Depth",side=2,line=4,cex=1,font=2) + dev.off() + } + + f_minus = function(chr,end) { + jpeg( paste0("$dir",as.character(chr),".png"), quality=100) + plotBedgraph(bgM, chrom=chr,chromstart=0,chromend=end,transparency=.50, flip=TRUE, color=SushiColors(2)(2)[2]) + labelgenome(chrom=chr,chromstart=0,chromend=end,n=3,scale="$sb", line=0, chromline = 0.5, scaleline = 0.5, scaleadjust =1.05, chromadjust = -0.4) + axis(side=2,las=2,tcl=.2,at=pretty(par("yaxp")[c(1,2)]),labels=-1*pretty(par("yaxp")[c(1,2)])) + mtext("Scaled Read Depth",side=2,line=4.5,cex=1,font=2) + dev.off() + } + + fai_b = fai[fai\$V1 %in% intersect(bgM\$V1,bgP\$V1), ] + mapply( f_both, fai_b\$V1, fai_b\$V2) + + fai_p = fai[fai\$V1 %in% setdiff(bgP\$V1,bgM\$V1), ] + mapply( f_plus, fai_p\$V1, fai_p\$V2) + + fai_m = fai[fai\$V1 %in% setdiff(bgM\$V1,bgP\$V1), ] + mapply( f_minus, fai_m\$V1, fai_m\$V2) `); + + $R->stopR(); +} + +sub pie_chart +{ + my $dir = shift; + my $in = $dir.'repartition.txt'; + my $out = $dir.'pie_chart.png'; + + my $R = Statistics::R->new(); + $R->startR; + $R->send( + qq` + library(plotrix) + library(RColorBrewer) + R =read.table("$in",header=T) + values = round(R\$percentage) + keys = R\$type + lab = paste(values, "%", sep="") + png("$out") + colors <- brewer.pal(7,"Paired") + pie(values, col=colors, labels=lab, clockwise=TRUE) + legend("bottom", legend = keys, fill=colors, bty="n", ncol = 3) + par(mai = c(0,0,0,0)) + layout(c(1,2),heights=c(0.3,1)) + plot.new() + legend("bottom", legend = keys, fill=colors, bty="n",ncol = 3) + pie(values, col=colors, labels=lab, clockwise=TRUE) + dev.off()` + ); + $R->stopR(); +} + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/align.pm Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,551 @@ +package sRNAPipe::align; + +use strict; +use warnings; +use File::Basename; +use String::Random; + +use FindBin; +use lib "$FindBin::Bin/../lib"; +use sRNAPipe::Rcall qw ( histogram ); + +use Exporter; +our @ISA = qw( Exporter ); +our @EXPORT = qw( &rpms_rpkm_te &BWA_call &to_build &get_unique &sam_sorted_bam &get_hash_alignment &sam_to_bam_bg &sam_count &sam_count_mis &rpms_rpkm &get_fastq_seq &extract_sam ); + +sub to_build +{ + my ( $toBuildTabP, $log, $newdir ) = @_; + + foreach my $pairs ( @{ $toBuildTabP } ) + { + if ( $pairs->[0] == 1 ) + { + my $sym = $newdir.basename(${$pairs->[1]}).'_symlink.fa'; + symlink( ${$pairs->[1]}, $sym ); + ${$pairs->[1]} = $sym; + build_index ( ${$pairs->[1]}, $log ); + } + } +} + +sub build_index +{ + my $to_index = shift; + my $log = shift; + my $index_log = $to_index.'_index.err'; + `bwa index '$to_index' 2> '$index_log'`; + print $log "Creating index for $to_index\n"; +} + +sub get_unique +{ + my ( $sam, $s_uni, $out_prefix, $col_prefix, $details, $report ) = @_; + + my $fout = $col_prefix.'_all_mappers.fastq'; + my $funi = $col_prefix.'_unique_mappers.fastq'; + my $frej = $col_prefix.'_unmapped.fastq'; + + my $repartition = $out_prefix.'distribution.txt'; + my $png_rep = $out_prefix.'distribution.png'; + my ( %duplicates, %genome_hits) ; + + #alignement to the first reference + my @return = sam_parse( $sam, $fout, $funi, $frej, $s_uni, \%duplicates, \%genome_hits, $report ); + my $ref_fai = $return[4]; + my $mappers = $return[5]; + my $mappers_uni = $return[6]; + my $size_mappedHashR = $return[7]; + + if ( $details == 1 ) + { + #print number of duplicates and hits number + my ($pourcentage, $total) =(0,0); + + $total += $_ foreach values %{$size_mappedHashR}; + open (my $rep, '>'.$repartition) || die "cannot create $repartition $!\n"; + print $rep "size\tnumber\tpercentage\n"; + foreach my $k (sort{$a cmp $b} keys (%{$size_mappedHashR})) + { + $pourcentage = 0; + $pourcentage = $size_mappedHashR->{$k} / $total * 100 unless $total ==0; + + print $rep "$k\t$size_mappedHashR->{$k}\t"; + printf $rep "%.2f\n",$pourcentage; + } + + histogram($size_mappedHashR, $png_rep, $total); + + + my $dup = $out_prefix.'dup_mapnum.txt'; + my $dup_u = $out_prefix .'dup_unique.txt'; + my $dup_r = $out_prefix .'dup_nonmapp.txt'; + open(my $tab,">".$dup) || die "cannot open output txt file\n"; + open(my $tab_r,">".$dup_r) || die "cannot open output txt file\n"; + open(my $tab_u,">".$dup_u) || die "cannot open output txt file\n"; + print $tab "sequence\tcount\tmapnum\n"; + print $tab_u "sequence\tcount\n"; + print $tab_r "sequence\tcount\n"; + foreach my $k (sort {$duplicates{$b} <=> $duplicates{$a}}keys %duplicates) + { + $duplicates{$k} = 0 unless exists($duplicates{$k}); + $genome_hits{$k} = 0 unless exists($genome_hits{$k}); + if ($genome_hits{$k} != 0) { print $tab $k."\t".$duplicates{$k}."\t".$genome_hits{$k}."\n"; } + else {print $tab_r $k."\t".$duplicates{$k}."\n";} + if ($genome_hits{$k} == 1) { print $tab_u $k."\t".$duplicates{$k}."\n"; } + } + close $dup; close $dup_r; close $dup_u; + } + return ( $ref_fai, $mappers, $mappers_uni ); +} + +sub sam_parse +{ + my ( $sam, $fastq_accepted, $fastq_accepted_unique, $fastq_rejected, $sam_unique, $duplicate_hashR, $best_hit_number_hashR, $report ) = @_ ; + my ($reads, $mappers, $mappersUnique, @garbage, %size_num, %size_num_spe, %number, %numberSens, %numberReverse, %unique_number, %numberNM, %numberM, %size); + $mappers = $mappersUnique = $reads = 0; + + open my $fic, '<', $sam || die "cannot open $sam $!\n"; + open my $accepted, '>', $fastq_accepted || die "cannot create $fastq_accepted $! \n"; + open my $unique, '>', $fastq_accepted_unique || die "cannot create $fastq_accepted_unique $! \n"; + open my $rejected, '>', $fastq_rejected || die "cannot create $fastq_rejected $! \n"; + open my $sam_uni, '>', $sam_unique || die "cannot create $sam_unique $! \n"; + my $sequence = ''; + while(<$fic>) + { + chomp $_; + if ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) + { + if ($_ =~ /\@SQ\tSN:(.*)\tLN:(\d*)/) + { + $size{$1} = $2; + $unique_number{$1} = 0; + $number{$1} = 0; + $numberNM{$1} = 0; + $numberM{$1} = 0; + } + print $sam_uni $_."\n"; + next; + } + $reads++; + my @line = split (/\t/,$_); + $sequence = $line[9]; + if ($line[1] & 16) + { + $sequence =reverse($sequence); + $sequence =~ tr/atgcuATGCU/tacgaTACGA/; + } + if ($line[1] == 16 || $line[1] == 0) + { + my $len = length($sequence); + $size_num{$len} ++; + $size_num_spe{$line[2]}{$len}++; + $mappers ++; + + ${$best_hit_number_hashR}{$sequence} = $1 if ($line[13] =~ /X0:i:(\d*)/ || $line[14] =~/X0:i:(\d*)/ ); + ${$duplicate_hashR}{$sequence}++; + $number{$line[2]}++; + $numberSens{$line[2]}++ if $line[1] == 0 ; + $numberReverse{$line[2]}++ if $line[1] == 16 ; + print $accepted "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n"; + + if ($line[11] eq "XT:A:U") + { + $unique_number{$line[2]}++; + $mappersUnique++; + print $unique "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n"; + print $sam_uni $_."\n"; + } + if ($_ =~ /.*XM:i:(\d+).*/) + { + if ($1 == 0){$numberNM{$line[2]}++;}else{$numberM{$line[2]}++;} + } + } + else + { + ${$best_hit_number_hashR}{$sequence} = 0; + ${$duplicate_hashR}{$sequence}++; + print $rejected "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n"; + } + } + close $fic; close $accepted; close $unique; close $rejected; close $sam_uni; + + print $report "Parsing $sam file\n"; + print $report "\treads: $reads\n"; + print $report "\tmappers: $mappers\n"; + print $report "\tunique mappers: $mappersUnique\n"; + print $report "-----------------------------\n"; + return (\%number, \%unique_number, \%numberSens, \%numberReverse, \%size, $mappers, $mappersUnique, \%size_num, \%size_num_spe, \%numberNM, \%numberM ); +} + +sub get_hash_alignment +{ + my ($index, $mismatches, $accept, $reject, $outA, $outR, $fastq, $number_of_cpus, $name, $sam, $report, $fai_f) = @_ ; + my ($reads, $mappers, $unmapped) = (0,0,0); + my $accep_unique; + BWA_call ( $index, $fastq, $sam, $mismatches, $number_of_cpus, $report ); + + open my $fic, '<', $sam || die "cannot open $sam $!\n"; + open my $accepted, '>', $outA || die "cannot open $outA\n" if $accept == 1; + open my $rejected, '>', $outR || die "cannot open $outR\n" if $reject == 1; + open my $fai, '>', $fai_f || die "cannot open $fai_f\n" if $fai_f; + #if ($name eq "snRNAs") { + # open ( $accep_unique, ">".$1."-unique.fastq") if $outR =~ /(.*)\.fastq/; + #} + my $sequence = ''; + while(<$fic>) + { + chomp $_; + if( $_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) + { + if ($fai_f && $_ =~ /\@SQ\tSN:(.*)\tLN:(\d*)/) + { + print $fai $1."\t".$2."\n"; + } + next; + } + $reads++; + my @line = split (/\t/,$_); + $sequence = $line[9]; + if ($line[1] & 16) + { + $sequence =reverse($sequence); + $sequence =~ tr/atgcuATGCU/tacgaTACGA/; + } + if ($line[1] & 16 || $line[1] == 0) + { + $mappers ++; + if ($accept == 1 ) + { + print $accepted "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n"; + # print $accep_unique "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n" if ($name eq "snRNAs" && $line[11] eq "XT:A:U"); + } + } + else + { + print $rejected "\@".$line[0]."\n".$sequence."\n+\n".$line[10]."\n" if $reject == 1; + $unmapped++; + } + } + # close $accep_unique if ($name eq "bonafide_reads"); + close $fic; + close $accepted if $accept == 1; + close $rejected if $reject ==1; + close $fai if $fai_f; + print $report "\treads: $reads\n"; + print $report "\tmappers: $mappers\n"; + print $report "\tunmapped: $unmapped\n"; + print $report "-----------------------------\n"; + return ($mappers, $unmapped); +} + +sub sam_count +{ + my $sam = shift; + my ( %number, %size ); + + open my $fic, '<', $sam || die "cannot open $sam file $!\n"; + while(<$fic>) + { + chomp $_; + if ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) + { + if ($_ =~ /\@SQ\tSN:(.*)\tLN:(\d*)/) + { + $size{$1} = $2; + $number{$1} = 0; + } + } + else + { + my @line = split (/\t/,$_); + if ( $line[1] & 16 || $line[1] == 0 ) + { + $number{$line[2]}++; + } + } + } + close $fic; + return ( \%number, \%size ); +} + +sub sam_count_mis +{ + + my $sam = shift; + my ( %number, %numberNM, %numberM, %size); + + open my $fic, '<', $sam || die "cannot open $sam file $!\n"; + while(<$fic>) + { + chomp $_; + if ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) + { + if ($_ =~ /\@SQ\tSN:(.*)\tLN:(\d*)/) + { + $size{$1} = $2; + $number{$1} = [0,0,0,0,0,0,0]; + $numberNM{$1} = [0,0,0,0,0,0,0]; + $numberM{$1} = [0,0,0,0,0,0,0]; + } + } + else + { + my @line = split (/\t/,$_); + my @seq = split //, $line[9]; + if ( $line[1] == 16 || $line[1] == 0 ) + { + $number{ $line[2] }->[0]++; + if ($line[1] == 0) + { + $number{$line[2]}->[1]++; + $number{$line[2]}->[3]++ if $seq[0] eq 'T'; + $number{$line[2]}->[5]++ if $seq[9] eq 'A'; + } + else + { + $number{$line[2]}->[2]++; + $number{$line[2]}->[4]++ if $seq[9] eq 'A'; + $number{$line[2]}->[6]++ if $seq[0] eq 'T'; + } + if ($_ =~ /.*XM:i:(\d+).*/) + { + if ( $1 == 0 ) + { + $numberNM{$line[2]}->[0]++; + if ($line[1] == 0) + { + $numberNM{$line[2]}->[1]++; + $numberNM{$line[2]}->[3]++ if $seq[0] eq 'T'; + $numberNM{$line[2]}->[5]++ if $seq[9] eq 'A'; + } + else + { + $numberNM{$line[2]}->[2]++; + $numberNM{$line[2]}->[4]++ if $seq[9] eq 'A'; + $numberNM{$line[2]}->[6]++ if $seq[0] eq 'T'; + } + } + else + { + $numberM{$line[2]}->[0]++; + if ($line[1] == 0) + { + $numberM{$line[2]}->[1]++; + $numberM{$line[2]}->[3]++ if $seq[0] eq 'T'; + $numberM{$line[2]}->[5]++ if $seq[9] eq 'A'; + } + else + { + $numberM{$line[2]}->[2]++; + $numberM{$line[2]}->[4]++ if $seq[9] eq 'A'; + $numberM{$line[2]}->[6]++ if $seq[0] eq 'T'; + } + } + } + } + } + } + return (\%number, \%size, \%numberNM, \%numberM ); +} + +sub rpms_rpkm_te +{ + my ( $counthashR, $sizehashR, $mapped, $out_file, $piRNA_number, $miRNA_number, $bonafide_number ) =@_; + open(my $out, ">".$out_file) || die "cannot open normalized file $! \n"; + print $out "ID\treads counts\tRPKM"; + print $out "\tper million of piRNAs" if ($piRNA_number != 0); + print $out "\tper million of miRNAs" if ($miRNA_number != 0); + print $out "\tper million of bonafide reads" if ($bonafide_number != 0); + print $out "\tsense reads counts\treverse reads counts"; + print $out "\t% of sense 1U\t% of sense 10A\t% of reverse 1U\t% of reverse 10A\n"; + foreach my $k ( sort keys %{$counthashR} ) + { + my ($rpkm, $pirna, $mirna, $bonafide) = (0,0,0,0); + + $rpkm = ( $counthashR->{$k}->[0] * 1000000000) / ( $sizehashR->{$k} * $mapped) if ( $sizehashR->{$k} * $mapped) != 0 ; + print $out $k."\t".$counthashR->{$k}->[0]."\t"; printf $out "%.2f",$rpkm; + + if ($piRNA_number != 0 ) + { + $pirna = ( $counthashR->{$k}->[0] * 1000000) / $piRNA_number; + printf $out "\t%.2f",$pirna; + } + if ($miRNA_number != 0 ) + { + $mirna = ( $counthashR->{$k}->[0] * 1000000) / $miRNA_number; + printf $out "\t%.2f",$mirna; + } + if ($bonafide_number != 0 ) + { + $bonafide = ( $counthashR->{$k}->[0] * 1000000) / $bonafide_number; + printf $out "\t%.2f",$bonafide; + } + + print $out "\t".$counthashR->{$k}->[1]."\t".$counthashR->{$k}->[2] ; + my $S1U = 0; + $S1U = $counthashR->{$k}->[3] / $counthashR->{$k}->[1] * 100 if $counthashR->{$k}->[1] != 0; + my $R1U = 0; + $R1U = $counthashR->{$k}->[6] / $counthashR->{$k}->[2] * 100 if $counthashR->{$k}->[2] != 0; + my $S10A = 0; + $S10A = $counthashR->{$k}->[5] / $counthashR->{$k}->[1] * 100 if $counthashR->{$k}->[1] != 0; + my $R10A = 0; + $R10A = $counthashR->{$k}->[4] / $counthashR->{$k}->[2] * 100 if $counthashR->{$k}->[2] != 0; + print $out "\t".$S1U."\t".$S10A."\t".$R1U."\t".$R10A; + + print $out "\n"; + } + close $out; +} + + +sub sam_to_bam_bg +{ + my ( $sam, $scale, $number_of_cpus ) = @_; + my ( $bam_sorted, $bedgraphM, $bedgraphP, $view_err, $sort_err ) = ( '', '', '', '', '' ); + if ( $sam =~ /(.*?).sam$/ ) + { + $bam_sorted = $1.'_sorted.bam'; + $bedgraphP= $1.'_plus.bedgraph'; + $bedgraphM = $1.'_minus.bedgraph'; + $view_err = $1.'_view.err'; + $sort_err = $1.'_sort.err'; + } + `samtools view -Shb --threads $number_of_cpus '$sam' 2> '$view_err' | samtools sort -O BAM --threads $number_of_cpus /dev/stdin 2> '$sort_err' > '$bam_sorted'`; + `bedtools genomecov -scale $scale -strand + -bga -ibam '$bam_sorted' > '$bedgraphP'`; + `bedtools genomecov -scale $scale -strand - -bga -ibam '$bam_sorted' > '$bedgraphM'`; +} + +sub sam_sorted_bam +{ + my ( $sam, $number_of_cpus ) = @_; + my ( $bam_sorted, $view_err, $sort_err ) = ( '', '', '' ); + if ( $sam =~ /(.*?).sam$/ ) + { + $bam_sorted = $1.'_sorted.bam'; + $view_err = $1.'_view.err'; + $sort_err = $1.'_sort.err'; + + } + `samtools view -Shb --threads $number_of_cpus '$sam' 2> '$view_err' | samtools sort -O BAM --threads $number_of_cpus /dev/stdin 2> '$sort_err' > '$bam_sorted'`; +} + +sub BWA_call +{ + my ( $index, $fastq, $sam, $mismatches, $number_of_cpus, $report ) = @_; + my ( $aln_err, $samse_err, $seq_num ) = ( $sam.'_aln.err', $sam.'_samse.err', 0 ); + print $report "-----------------------------\n"; + print $report "bwa aln -t $number_of_cpus -n $mismatches '$index' '$fastq' 2> '$aln_err' | bwa samse $index /dev/stdin '$fastq' 2> '$samse_err' > '$sam'\n"; + `bwa aln -t $number_of_cpus -n $mismatches '$index' '$fastq' 2> '$aln_err' | bwa samse $index /dev/stdin '$fastq' 2> '$samse_err' > '$sam' `; +} + +sub rpms_rpkm +{ + my ( $counthashR, $sizehashR, $mapped, $out_file, $piRNA_number, $miRNA_number, $bonafide_number ) =@_; + open(my $out, ">".$out_file) || die "cannot open normalized file $! \n"; + print $out "ID\treads counts\tRPKM"; + print $out "\tper million of piRNAs" if ($piRNA_number != 0); + print $out "\tper million of miRNAs" if ($miRNA_number != 0); + print $out "\tper million of bonafide reads" if ($bonafide_number != 0); + print $out "\n"; + foreach my $k ( sort keys %{$counthashR} ) + { + my ($rpkm, $pirna, $mirna, $bonafide) = (0,0,0,0); + + $rpkm = ( $counthashR->{$k} * 1000000000) / ( $sizehashR->{$k} * $mapped) if ( $sizehashR->{$k} * $mapped) != 0 ; + print $out $k."\t".$counthashR->{$k}."\t"; printf $out "%.2f",$rpkm; + + if ($piRNA_number != 0 ) + { + $pirna = ( $counthashR->{$k} * 1000000) / $piRNA_number; + printf $out "\t%.2f",$pirna; + } + if ($miRNA_number != 0 ) + { + $mirna = ( $counthashR->{$k} * 1000000) / $miRNA_number; + printf $out "\t%.2f",$mirna; + } + if ($bonafide_number != 0 ) + { + $bonafide = ( $counthashR->{$k} * 1000000) / $bonafide_number; + printf $out "\t%.2f",$bonafide; + } + print $out "\n"; + } + close $out; +} + +sub extract_sam +{ + my ( $hashRef, $sam_in, $sam_out, $sam_uni_out, $fastq_out, $fastq_uni_out ) = @_; + + open my $s_in, '<', $sam_in || die "cannot open $sam_in file $!\n"; + + open my $f_out, '>', $fastq_out || die "cannot create $fastq_out $!\n"; + open my $f_uni_out, '>', $fastq_uni_out || die "cannot create $fastq_uni_out $!\n"; + + open my $s_out, '>', $sam_out || die "cannot create $sam_out file $!\n" if defined ($hashRef); + open my $s_uni_out, '>', $sam_uni_out || die "cannot create $sam_uni_out file $!\n"; + + my $sequence = ''; + while(<$s_in>) + { + if ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) + { + print $s_out $_ if defined ($hashRef); + print $s_uni_out $_; + next; + } + my @line = split (/\t/,$_); + $sequence = $line[0]; + if ( (! defined ($hashRef) )|| ( exists $hashRef->{$sequence} && $hashRef->{$sequence} == 1 ) ) + { + my $arn = $line[9]; + if ($line[1] & 16) + { + $arn =reverse($arn); + $arn =~ tr/atgcuATGCU/tacgaTACGA/; + } + + if ( ( $line[1] == 16 || $line[1] == 0 ) ) + { + print $f_out "\@".$line[0]."\n".$arn."\n+\n".$line[10]."\n" ; + print $s_out $_ if defined ($hashRef); + if ( $line[11] eq "XT:A:U" ) + { + print $f_uni_out "\@".$line[0]."\n".$arn."\n+\n".$line[10]."\n" ; + print $s_uni_out $_ ; + } + } + } + } + close $s_in; close $s_out if defined ($hashRef); + close $s_uni_out; close $f_out; close $f_uni_out; +} + +sub get_fastq_seq +{ + my $fastq = shift; + my %hash; my $cmp = 0; + + open my $fic, '<', $fastq || die "cannot open input file $! \n"; + while(<$fic>) + { + chomp $_; + $cmp++; + if ($cmp % 4 == 1) + { + die "file do not contain a @ at line $cmp\n" unless ($_ =~ /^\@/ ); + if ($_ =~ /^\@(.*)\s.*/) { $hash{$1} = 1;} + elsif ($_ =~ /^\@(.*)/) { $hash{$1} = 1;} + } + elsif ($cmp % 4 == 3 ) + { + die "file do not contain a + at line $cmp\n" unless $_ =~ /^\+/; + } + } + close $fic; + return \%hash; +} + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/css/bootstrap-responsive.css Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,1109 @@ +/*! + * Bootstrap Responsive v2.3.2 + * + * Copyright 2012 Twitter, Inc + * Licensed under the Apache License v2.0 + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Designed and built with all the love in the world @twitter by @mdo and @fat. + */ + +.clearfix { + *zoom: 1; +} + +.clearfix:before, +.clearfix:after { + display: table; + line-height: 0; + content: ""; +} + +.clearfix:after { + clear: both; +} + +.hide-text { + font: 0/0 a; + color: transparent; + text-shadow: none; + background-color: transparent; + border: 0; +} + +.input-block-level { + display: block; + width: 100%; + min-height: 30px; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; +} + +@-ms-viewport { + width: device-width; +} + +.hidden { + display: none; + visibility: hidden; +} + +.visible-phone { + display: none !important; +} + +.visible-tablet { + display: none !important; +} + +.hidden-desktop { + display: none !important; +} + +.visible-desktop { + display: inherit !important; +} + +@media (min-width: 768px) and (max-width: 979px) { + .hidden-desktop { + display: inherit !important; + } + .visible-desktop { + display: none !important ; + } + .visible-tablet { + display: inherit !important; + } + .hidden-tablet { + display: none !important; + } +} + +@media (max-width: 767px) { + .hidden-desktop { + display: inherit !important; + } + .visible-desktop { + display: none !important; + } + .visible-phone { + display: inherit !important; + } + .hidden-phone { + display: none !important; + } +} + +.visible-print { + display: none !important; +} + +@media print { + .visible-print { + display: inherit !important; + } + .hidden-print { + display: none !important; + } +} + +@media (min-width: 1200px) { + .row { + margin-left: -30px; + *zoom: 1; + } + .row:before, + .row:after { + display: table; + line-height: 0; + content: ""; + } + .row:after { + clear: both; + } + [class*="span"] { + float: left; + min-height: 1px; + margin-left: 30px; + } + .container, + .navbar-static-top .container, + .navbar-fixed-top .container, + .navbar-fixed-bottom .container { + width: 1170px; + } + .span12 { + width: 1170px; + } + .span11 { + width: 1070px; + } + .span10 { + width: 970px; + } + .span9 { + width: 870px; + } + .span8 { + width: 770px; + } + .span7 { + width: 670px; + } + .span6 { + width: 570px; + } + .span5 { + width: 470px; + } + .span4 { + width: 370px; + } + .span3 { + width: 270px; + } + .span2 { + width: 170px; + } + .span1 { + width: 70px; + } + .offset12 { + margin-left: 1230px; + } + .offset11 { + margin-left: 1130px; + } + .offset10 { + margin-left: 1030px; + } + .offset9 { + margin-left: 930px; + } + .offset8 { + margin-left: 830px; + } + .offset7 { + margin-left: 730px; + } + .offset6 { + margin-left: 630px; + } + .offset5 { + margin-left: 530px; + } + .offset4 { + margin-left: 430px; + } + .offset3 { + margin-left: 330px; + } + .offset2 { + margin-left: 230px; + } + .offset1 { + margin-left: 130px; + } + .row-fluid { + width: 100%; + *zoom: 1; + } + .row-fluid:before, + .row-fluid:after { + display: table; + line-height: 0; + content: ""; + } + .row-fluid:after { + clear: both; + } + .row-fluid [class*="span"] { + display: block; + float: left; + width: 100%; + min-height: 30px; + margin-left: 2.564102564102564%; + *margin-left: 2.5109110747408616%; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; + } + .row-fluid [class*="span"]:first-child { + margin-left: 0; + } + .row-fluid .controls-row [class*="span"] + [class*="span"] { + margin-left: 2.564102564102564%; + } + .row-fluid .span12 { + width: 100%; + *width: 99.94680851063829%; + } + .row-fluid .span11 { + width: 91.45299145299145%; + *width: 91.39979996362975%; + } + .row-fluid .span10 { + width: 82.90598290598291%; + *width: 82.8527914166212%; + } + .row-fluid .span9 { + width: 74.35897435897436%; + *width: 74.30578286961266%; + } + .row-fluid .span8 { + width: 65.81196581196582%; + *width: 65.75877432260411%; + } + .row-fluid .span7 { + width: 57.26495726495726%; + *width: 57.21176577559556%; + } + .row-fluid .span6 { + width: 48.717948717948715%; + *width: 48.664757228587014%; + } + .row-fluid .span5 { + width: 40.17094017094017%; + *width: 40.11774868157847%; + } + .row-fluid .span4 { + width: 31.623931623931625%; + *width: 31.570740134569924%; + } + .row-fluid .span3 { + width: 23.076923076923077%; + *width: 23.023731587561375%; + } + .row-fluid .span2 { + width: 14.52991452991453%; + *width: 14.476723040552828%; + } + .row-fluid .span1 { + width: 5.982905982905983%; + *width: 5.929714493544281%; + } + .row-fluid .offset12 { + margin-left: 105.12820512820512%; + *margin-left: 105.02182214948171%; + } + .row-fluid .offset12:first-child { + margin-left: 102.56410256410257%; + *margin-left: 102.45771958537915%; + } + .row-fluid .offset11 { + margin-left: 96.58119658119658%; + *margin-left: 96.47481360247316%; + } + .row-fluid .offset11:first-child { + margin-left: 94.01709401709402%; + *margin-left: 93.91071103837061%; + } + .row-fluid .offset10 { + margin-left: 88.03418803418803%; + *margin-left: 87.92780505546462%; + } + .row-fluid .offset10:first-child { + margin-left: 85.47008547008548%; + *margin-left: 85.36370249136206%; + } + .row-fluid .offset9 { + margin-left: 79.48717948717949%; + *margin-left: 79.38079650845607%; + } + .row-fluid .offset9:first-child { + margin-left: 76.92307692307693%; + *margin-left: 76.81669394435352%; + } + .row-fluid .offset8 { + margin-left: 70.94017094017094%; + *margin-left: 70.83378796144753%; + } + .row-fluid .offset8:first-child { + margin-left: 68.37606837606839%; + *margin-left: 68.26968539734497%; + } + .row-fluid .offset7 { + margin-left: 62.393162393162385%; + *margin-left: 62.28677941443899%; + } + .row-fluid .offset7:first-child { + margin-left: 59.82905982905982%; + *margin-left: 59.72267685033642%; + } + .row-fluid .offset6 { + margin-left: 53.84615384615384%; + *margin-left: 53.739770867430444%; + } + .row-fluid .offset6:first-child { + margin-left: 51.28205128205128%; + *margin-left: 51.175668303327875%; + } + .row-fluid .offset5 { + margin-left: 45.299145299145295%; + *margin-left: 45.1927623204219%; + } + .row-fluid .offset5:first-child { + margin-left: 42.73504273504273%; + *margin-left: 42.62865975631933%; + } + .row-fluid .offset4 { + margin-left: 36.75213675213675%; + *margin-left: 36.645753773413354%; + } + .row-fluid .offset4:first-child { + margin-left: 34.18803418803419%; + *margin-left: 34.081651209310785%; + } + .row-fluid .offset3 { + margin-left: 28.205128205128204%; + *margin-left: 28.0987452264048%; + } + .row-fluid .offset3:first-child { + margin-left: 25.641025641025642%; + *margin-left: 25.53464266230224%; + } + .row-fluid .offset2 { + margin-left: 19.65811965811966%; + *margin-left: 19.551736679396257%; + } + .row-fluid .offset2:first-child { + margin-left: 17.094017094017094%; + *margin-left: 16.98763411529369%; + } + .row-fluid .offset1 { + margin-left: 11.11111111111111%; + *margin-left: 11.004728132387708%; + } + .row-fluid .offset1:first-child { + margin-left: 8.547008547008547%; + *margin-left: 8.440625568285142%; + } + input, + textarea, + .uneditable-input { + margin-left: 0; + } + .controls-row [class*="span"] + [class*="span"] { + margin-left: 30px; + } + input.span12, + textarea.span12, + .uneditable-input.span12 { + width: 1156px; + } + input.span11, + textarea.span11, + .uneditable-input.span11 { + width: 1056px; + } + input.span10, + textarea.span10, + .uneditable-input.span10 { + width: 956px; + } + input.span9, + textarea.span9, + .uneditable-input.span9 { + width: 856px; + } + input.span8, + textarea.span8, + .uneditable-input.span8 { + width: 756px; + } + input.span7, + textarea.span7, + .uneditable-input.span7 { + width: 656px; + } + input.span6, + textarea.span6, + .uneditable-input.span6 { + width: 556px; + } + input.span5, + textarea.span5, + .uneditable-input.span5 { + width: 456px; + } + input.span4, + textarea.span4, + .uneditable-input.span4 { + width: 356px; + } + input.span3, + textarea.span3, + .uneditable-input.span3 { + width: 256px; + } + input.span2, + textarea.span2, + .uneditable-input.span2 { + width: 156px; + } + input.span1, + textarea.span1, + .uneditable-input.span1 { + width: 56px; + } + .thumbnails { + margin-left: -30px; + } + .thumbnails > li { + margin-left: 30px; + } + .row-fluid .thumbnails { + margin-left: 0; + } +} + +@media (min-width: 768px) and (max-width: 979px) { + .row { + margin-left: -20px; + *zoom: 1; + } + .row:before, + .row:after { + display: table; + line-height: 0; + content: ""; + } + .row:after { + clear: both; + } + [class*="span"] { + float: left; + min-height: 1px; + margin-left: 20px; + } + .container, + .navbar-static-top .container, + .navbar-fixed-top .container, + .navbar-fixed-bottom .container { + width: 724px; + } + .span12 { + width: 724px; + } + .span11 { + width: 662px; + } + .span10 { + width: 600px; + } + .span9 { + width: 538px; + } + .span8 { + width: 476px; + } + .span7 { + width: 414px; + } + .span6 { + width: 352px; + } + .span5 { + width: 290px; + } + .span4 { + width: 228px; + } + .span3 { + width: 166px; + } + .span2 { + width: 104px; + } + .span1 { + width: 42px; + } + .offset12 { + margin-left: 764px; + } + .offset11 { + margin-left: 702px; + } + .offset10 { + margin-left: 640px; + } + .offset9 { + margin-left: 578px; + } + .offset8 { + margin-left: 516px; + } + .offset7 { + margin-left: 454px; + } + .offset6 { + margin-left: 392px; + } + .offset5 { + margin-left: 330px; + } + .offset4 { + margin-left: 268px; + } + .offset3 { + margin-left: 206px; + } + .offset2 { + margin-left: 144px; + } + .offset1 { + margin-left: 82px; + } + .row-fluid { + width: 100%; + *zoom: 1; + } + .row-fluid:before, + .row-fluid:after { + display: table; + line-height: 0; + content: ""; + } + .row-fluid:after { + clear: both; + } + .row-fluid [class*="span"] { + display: block; + float: left; + width: 100%; + min-height: 30px; + margin-left: 2.7624309392265194%; + *margin-left: 2.709239449864817%; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; + } + .row-fluid [class*="span"]:first-child { + margin-left: 0; + } + .row-fluid .controls-row [class*="span"] + [class*="span"] { + margin-left: 2.7624309392265194%; + } + .row-fluid .span12 { + width: 100%; + *width: 99.94680851063829%; + } + .row-fluid .span11 { + width: 91.43646408839778%; + *width: 91.38327259903608%; + } + .row-fluid .span10 { + width: 82.87292817679558%; + *width: 82.81973668743387%; + } + .row-fluid .span9 { + width: 74.30939226519337%; + *width: 74.25620077583166%; + } + .row-fluid .span8 { + width: 65.74585635359117%; + *width: 65.69266486422946%; + } + .row-fluid .span7 { + width: 57.18232044198895%; + *width: 57.12912895262725%; + } + .row-fluid .span6 { + width: 48.61878453038674%; + *width: 48.56559304102504%; + } + .row-fluid .span5 { + width: 40.05524861878453%; + *width: 40.00205712942283%; + } + .row-fluid .span4 { + width: 31.491712707182323%; + *width: 31.43852121782062%; + } + .row-fluid .span3 { + width: 22.92817679558011%; + *width: 22.87498530621841%; + } + .row-fluid .span2 { + width: 14.3646408839779%; + *width: 14.311449394616199%; + } + .row-fluid .span1 { + width: 5.801104972375691%; + *width: 5.747913483013988%; + } + .row-fluid .offset12 { + margin-left: 105.52486187845304%; + *margin-left: 105.41847889972962%; + } + .row-fluid .offset12:first-child { + margin-left: 102.76243093922652%; + *margin-left: 102.6560479605031%; + } + .row-fluid .offset11 { + margin-left: 96.96132596685082%; + *margin-left: 96.8549429881274%; + } + .row-fluid .offset11:first-child { + margin-left: 94.1988950276243%; + *margin-left: 94.09251204890089%; + } + .row-fluid .offset10 { + margin-left: 88.39779005524862%; + *margin-left: 88.2914070765252%; + } + .row-fluid .offset10:first-child { + margin-left: 85.6353591160221%; + *margin-left: 85.52897613729868%; + } + .row-fluid .offset9 { + margin-left: 79.8342541436464%; + *margin-left: 79.72787116492299%; + } + .row-fluid .offset9:first-child { + margin-left: 77.07182320441989%; + *margin-left: 76.96544022569647%; + } + .row-fluid .offset8 { + margin-left: 71.2707182320442%; + *margin-left: 71.16433525332079%; + } + .row-fluid .offset8:first-child { + margin-left: 68.50828729281768%; + *margin-left: 68.40190431409427%; + } + .row-fluid .offset7 { + margin-left: 62.70718232044199%; + *margin-left: 62.600799341718584%; + } + .row-fluid .offset7:first-child { + margin-left: 59.94475138121547%; + *margin-left: 59.838368402492065%; + } + .row-fluid .offset6 { + margin-left: 54.14364640883978%; + *margin-left: 54.037263430116376%; + } + .row-fluid .offset6:first-child { + margin-left: 51.38121546961326%; + *margin-left: 51.27483249088986%; + } + .row-fluid .offset5 { + margin-left: 45.58011049723757%; + *margin-left: 45.47372751851417%; + } + .row-fluid .offset5:first-child { + margin-left: 42.81767955801105%; + *margin-left: 42.71129657928765%; + } + .row-fluid .offset4 { + margin-left: 37.01657458563536%; + *margin-left: 36.91019160691196%; + } + .row-fluid .offset4:first-child { + margin-left: 34.25414364640884%; + *margin-left: 34.14776066768544%; + } + .row-fluid .offset3 { + margin-left: 28.45303867403315%; + *margin-left: 28.346655695309746%; + } + .row-fluid .offset3:first-child { + margin-left: 25.69060773480663%; + *margin-left: 25.584224756083227%; + } + .row-fluid .offset2 { + margin-left: 19.88950276243094%; + *margin-left: 19.783119783707537%; + } + .row-fluid .offset2:first-child { + margin-left: 17.12707182320442%; + *margin-left: 17.02068884448102%; + } + .row-fluid .offset1 { + margin-left: 11.32596685082873%; + *margin-left: 11.219583872105325%; + } + .row-fluid .offset1:first-child { + margin-left: 8.56353591160221%; + *margin-left: 8.457152932878806%; + } + input, + textarea, + .uneditable-input { + margin-left: 0; + } + .controls-row [class*="span"] + [class*="span"] { + margin-left: 20px; + } + input.span12, + textarea.span12, + .uneditable-input.span12 { + width: 710px; + } + input.span11, + textarea.span11, + .uneditable-input.span11 { + width: 648px; + } + input.span10, + textarea.span10, + .uneditable-input.span10 { + width: 586px; + } + input.span9, + textarea.span9, + .uneditable-input.span9 { + width: 524px; + } + input.span8, + textarea.span8, + .uneditable-input.span8 { + width: 462px; + } + input.span7, + textarea.span7, + .uneditable-input.span7 { + width: 400px; + } + input.span6, + textarea.span6, + .uneditable-input.span6 { + width: 338px; + } + input.span5, + textarea.span5, + .uneditable-input.span5 { + width: 276px; + } + input.span4, + textarea.span4, + .uneditable-input.span4 { + width: 214px; + } + input.span3, + textarea.span3, + .uneditable-input.span3 { + width: 152px; + } + input.span2, + textarea.span2, + .uneditable-input.span2 { + width: 90px; + } + input.span1, + textarea.span1, + .uneditable-input.span1 { + width: 28px; + } +} + +@media (max-width: 767px) { + body { + padding-right: 20px; + padding-left: 20px; + } + .navbar-fixed-top, + .navbar-fixed-bottom, + .navbar-static-top { + margin-right: -20px; + margin-left: -20px; + } + .container-fluid { + padding: 0; + } + .dl-horizontal dt { + float: none; + width: auto; + clear: none; + text-align: left; + } + .dl-horizontal dd { + margin-left: 0; + } + .container { + width: auto; + } + .row-fluid { + width: 100%; + } + .row, + .thumbnails { + margin-left: 0; + } + .thumbnails > li { + float: none; + margin-left: 0; + } + [class*="span"], + .uneditable-input[class*="span"], + .row-fluid [class*="span"] { + display: block; + float: none; + width: 100%; + margin-left: 0; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; + } + .span12, + .row-fluid .span12 { + width: 100%; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; + } + .row-fluid [class*="offset"]:first-child { + margin-left: 0; + } + .input-large, + .input-xlarge, + .input-xxlarge, + input[class*="span"], + select[class*="span"], + textarea[class*="span"], + .uneditable-input { + display: block; + width: 100%; + min-height: 30px; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; + } + .input-prepend input, + .input-append input, + .input-prepend input[class*="span"], + .input-append input[class*="span"] { + display: inline-block; + width: auto; + } + .controls-row [class*="span"] + [class*="span"] { + margin-left: 0; + } + .modal { + position: fixed; + top: 20px; + right: 20px; + left: 20px; + width: auto; + margin: 0; + } + .modal.fade { + top: -100px; + } + .modal.fade.in { + top: 20px; + } +} + +@media (max-width: 480px) { + .nav-collapse { + -webkit-transform: translate3d(0, 0, 0); + } + .page-header h1 small { + display: block; + line-height: 20px; + } + input[type="checkbox"], + input[type="radio"] { + border: 1px solid #ccc; + } + .form-horizontal .control-label { + float: none; + width: auto; + padding-top: 0; + text-align: left; + } + .form-horizontal .controls { + margin-left: 0; + } + .form-horizontal .control-list { + padding-top: 0; + } + .form-horizontal .form-actions { + padding-right: 10px; + padding-left: 10px; + } + .media .pull-left, + .media .pull-right { + display: block; + float: none; + margin-bottom: 10px; + } + .media-object { + margin-right: 0; + margin-left: 0; + } + .modal { + top: 10px; + right: 10px; + left: 10px; + } + .modal-header .close { + padding: 10px; + margin: -10px; + } + .carousel-caption { + position: static; + } +} + +@media (max-width: 979px) { + body { + padding-top: 0; + } + .navbar-fixed-top, + .navbar-fixed-bottom { + position: static; + } + .navbar-fixed-top { + margin-bottom: 20px; + } + .navbar-fixed-bottom { + margin-top: 20px; + } + .navbar-fixed-top .navbar-inner, + .navbar-fixed-bottom .navbar-inner { + padding: 5px; + } + .navbar .container { + width: auto; + padding: 0; + } + .navbar .brand { + padding-right: 10px; + padding-left: 10px; + margin: 0 0 0 -5px; + } + .nav-collapse { + clear: both; + } + .nav-collapse .nav { + float: none; + margin: 0 0 10px; + } + .nav-collapse .nav > li { + float: none; + } + .nav-collapse .nav > li > a { + margin-bottom: 2px; + } + .nav-collapse .nav > .divider-vertical { + display: none; + } + .nav-collapse .nav .nav-header { + color: #777777; + text-shadow: none; + } + .nav-collapse .nav > li > a, + .nav-collapse .dropdown-menu a { + padding: 9px 15px; + font-weight: bold; + color: #777777; + -webkit-border-radius: 3px; + -moz-border-radius: 3px; + border-radius: 3px; + } + .nav-collapse .btn { + padding: 4px 10px 4px; + font-weight: normal; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; + } + .nav-collapse .dropdown-menu li + li a { + margin-bottom: 2px; + } + .nav-collapse .nav > li > a:hover, + .nav-collapse .nav > li > a:focus, + .nav-collapse .dropdown-menu a:hover, + .nav-collapse .dropdown-menu a:focus { + background-color: #f2f2f2; + } + .navbar-inverse .nav-collapse .nav > li > a, + .navbar-inverse .nav-collapse .dropdown-menu a { + color: #999999; + } + .navbar-inverse .nav-collapse .nav > li > a:hover, + .navbar-inverse .nav-collapse .nav > li > a:focus, + .navbar-inverse .nav-collapse .dropdown-menu a:hover, + .navbar-inverse .nav-collapse .dropdown-menu a:focus { + background-color: #111111; + } + .nav-collapse.in .btn-group { + padding: 0; + margin-top: 5px; + } + .nav-collapse .dropdown-menu { + position: static; + top: auto; + left: auto; + display: none; + float: none; + max-width: none; + padding: 0; + margin: 0 15px; + background-color: transparent; + border: none; + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; + -webkit-box-shadow: none; + -moz-box-shadow: none; + box-shadow: none; + } + .nav-collapse .open > .dropdown-menu { + display: block; + } + .nav-collapse .dropdown-menu:before, + .nav-collapse .dropdown-menu:after { + display: none; + } + .nav-collapse .dropdown-menu .divider { + display: none; + } + .nav-collapse .nav > li > .dropdown-menu:before, + .nav-collapse .nav > li > .dropdown-menu:after { + display: none; + } + .nav-collapse .navbar-form, + .nav-collapse .navbar-search { + float: none; + padding: 10px 15px; + margin: 10px 0; + border-top: 1px solid #f2f2f2; + border-bottom: 1px solid #f2f2f2; + -webkit-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.1); + -moz-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.1); + box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.1); + } + .navbar-inverse .nav-collapse .navbar-form, + .navbar-inverse .nav-collapse .navbar-search { + border-top-color: #111111; + border-bottom-color: #111111; + } + .navbar .nav-collapse .nav.pull-right { + float: none; + margin-left: 0; + } + .nav-collapse, + .nav-collapse.collapse { + height: 0; + overflow: hidden; + } + .navbar .btn-navbar { + display: block; + } + .navbar-static .navbar-inner { + padding-right: 10px; + padding-left: 10px; + } +} + +@media (min-width: 980px) { + .nav-collapse.collapse { + height: auto !important; + overflow: visible !important; + } +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/css/bootstrap-table.css Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,313 @@ +/** + * @author zhixin wen <wenzhixin2010@gmail.com> + * version: 1.11.1 + * https://github.com/wenzhixin/bootstrap-table/ + */ + +.bootstrap-table .table { + margin-bottom: 0 !important; + border-bottom: 1px solid #dddddd; + border-collapse: collapse !important; + border-radius: 1px; +} + +.bootstrap-table .table:not(.table-condensed), +.bootstrap-table .table:not(.table-condensed) > tbody > tr > th, +.bootstrap-table .table:not(.table-condensed) > tfoot > tr > th, +.bootstrap-table .table:not(.table-condensed) > thead > tr > td, +.bootstrap-table .table:not(.table-condensed) > tbody > tr > td, +.bootstrap-table .table:not(.table-condensed) > tfoot > tr > td { + padding: 8px; +} + +.bootstrap-table .table.table-no-bordered > thead > tr > th, +.bootstrap-table .table.table-no-bordered > tbody > tr > td { + border-right: 2px solid transparent; +} + +.bootstrap-table .table.table-no-bordered > tbody > tr > td:last-child { + border-right: none; +} + +.fixed-table-container { + position: relative; + clear: both; + border: 1px solid #dddddd; + border-radius: 4px; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; +} + +.fixed-table-container.table-no-bordered { + border: 1px solid transparent; +} + +.fixed-table-footer, +.fixed-table-header { + overflow: hidden; +} + +.fixed-table-footer { + border-top: 1px solid #dddddd; +} + +.fixed-table-body { + overflow-x: auto; + overflow-y: auto; + height: 100%; +} + +.fixed-table-container table { + width: 100%; +} + +.fixed-table-container thead th { + height: 0; + padding: 0; + margin: 0; + border-left: 1px solid #dddddd; +} + +.fixed-table-container thead th:focus { + outline: 0 solid transparent; +} + +.fixed-table-container thead th:first-child { + border-left: none; + border-top-left-radius: 4px; + -webkit-border-top-left-radius: 4px; + -moz-border-radius-topleft: 4px; +} + +.fixed-table-container thead th .th-inner, +.fixed-table-container tbody td .th-inner { + padding: 8px; + line-height: 24px; + vertical-align: top; + overflow: hidden; + text-overflow: ellipsis; + white-space: nowrap; +} + +.fixed-table-container thead th .sortable { + cursor: pointer; + background-position: right; + background-repeat: no-repeat; + padding-right: 30px; +} + +.fixed-table-container thead th .both { + background-image: url('data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABMAAAATCAQAAADYWf5HAAAAkElEQVQoz7X QMQ5AQBCF4dWQSJxC5wwax1Cq1e7BAdxD5SL+Tq/QCM1oNiJidwox0355mXnG/DrEtIQ6azioNZQxI0ykPhTQIwhCR+BmBYtlK7kLJYwWCcJA9M4qdrZrd8pPjZWPtOqdRQy320YSV17OatFC4euts6z39GYMKRPCTKY9UnPQ6P+GtMRfGtPnBCiqhAeJPmkqAAAAAElFTkSuQmCC'); +} + +.fixed-table-container thead th .asc { + background-image: url('data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABMAAAATCAYAAAByUDbMAAAAZ0lEQVQ4y2NgGLKgquEuFxBPAGI2ahhWCsS/gDibUoO0gPgxEP8H4ttArEyuQYxAPBdqEAxPBImTY5gjEL9DM+wTENuQahAvEO9DMwiGdwAxOymGJQLxTyD+jgWDxCMZRsEoGAVoAADeemwtPcZI2wAAAABJRU5ErkJggg=='); +} + +.fixed-table-container thead th .desc { + background-image: url('data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABMAAAATCAYAAAByUDbMAAAAZUlEQVQ4y2NgGAWjYBSggaqGu5FA/BOIv2PBIPFEUgxjB+IdQPwfC94HxLykus4GiD+hGfQOiB3J8SojEE9EM2wuSJzcsFMG4ttQgx4DsRalkZENxL+AuJQaMcsGxBOAmGvopk8AVz1sLZgg0bsAAAAASUVORK5CYII= '); +} + +.fixed-table-container th.detail { + width: 30px; +} + +.fixed-table-container tbody td { + border-left: 1px solid #dddddd; +} + +.fixed-table-container tbody tr:first-child td { + border-top: none; +} + +.fixed-table-container tbody td:first-child { + border-left: none; +} + +/* the same color with .active */ +.fixed-table-container tbody .selected td { + background-color: #f5f5f5; +} + +.fixed-table-container .bs-checkbox { + text-align: center; +} + +.fixed-table-container .bs-checkbox .th-inner { + padding: 8px 0; +} + +.fixed-table-container input[type="radio"], +.fixed-table-container input[type="checkbox"] { + margin: 0 auto !important; +} + +.fixed-table-container .no-records-found { + text-align: center; +} + +.fixed-table-pagination div.pagination, +.fixed-table-pagination .pagination-detail { + margin-top: 10px; + margin-bottom: 10px; +} + +.fixed-table-pagination div.pagination .pagination { + margin: 0; +} + +.fixed-table-pagination .pagination a { + padding: 6px 12px; + line-height: 1.428571429; +} + +.fixed-table-pagination .pagination-info { + line-height: 34px; + margin-right: 5px; +} + +.fixed-table-pagination .btn-group { + position: relative; + display: inline-block; + vertical-align: middle; +} + +.fixed-table-pagination .dropup .dropdown-menu { + margin-bottom: 0; +} + +.fixed-table-pagination .page-list { + display: inline-block; +} + +.fixed-table-toolbar .columns-left { + margin-right: 5px; +} + +.fixed-table-toolbar .columns-right { + margin-left: 5px; +} + +.fixed-table-toolbar .columns label { + display: block; + padding: 3px 20px; + clear: both; + font-weight: normal; + line-height: 1.428571429; +} + +.fixed-table-toolbar .bs-bars, +.fixed-table-toolbar .search, +.fixed-table-toolbar .columns { + position: relative; + margin-top: 10px; + margin-bottom: 10px; + line-height: 34px; +} + +.fixed-table-pagination li.disabled a { + pointer-events: none; + cursor: default; +} + +.fixed-table-loading { + display: none; + position: absolute; + top: 42px; + right: 0; + bottom: 0; + left: 0; + z-index: 99; + background-color: #fff; + text-align: center; +} + +.fixed-table-body .card-view .title { + font-weight: bold; + display: inline-block; + min-width: 30%; + text-align: left !important; +} + +/* support bootstrap 2 */ +.fixed-table-body thead th .th-inner { + box-sizing: border-box; +} + +.table th, .table td { + vertical-align: middle; + box-sizing: border-box; +} + +.fixed-table-toolbar .dropdown-menu { + text-align: left; + max-height: 300px; + overflow: auto; +} + +.fixed-table-toolbar .btn-group > .btn-group { + display: inline-block; + margin-left: -1px !important; +} + +.fixed-table-toolbar .btn-group > .btn-group > .btn { + border-radius: 0; +} + +.fixed-table-toolbar .btn-group > .btn-group:first-child > .btn { + border-top-left-radius: 4px; + border-bottom-left-radius: 4px; +} + +.fixed-table-toolbar .btn-group > .btn-group:last-child > .btn { + border-top-right-radius: 4px; + border-bottom-right-radius: 4px; +} + +.bootstrap-table .table > thead > tr > th { + vertical-align: bottom; + border-bottom: 1px solid #ddd; +} + +/* support bootstrap 3 */ +.bootstrap-table .table thead > tr > th { + padding: 0; + margin: 0; +} + +.bootstrap-table .fixed-table-footer tbody > tr > td { + padding: 0 !important; +} + +.bootstrap-table .fixed-table-footer .table { + border-bottom: none; + border-radius: 0; + padding: 0 !important; +} + +.bootstrap-table .pull-right .dropdown-menu { + right: 0; + left: auto; +} + +/* calculate scrollbar width */ +p.fixed-table-scroll-inner { + width: 100%; + height: 200px; +} + +div.fixed-table-scroll-outer { + top: 0; + left: 0; + visibility: hidden; + width: 200px; + height: 150px; + overflow: hidden; +} + +/* for get correct heights */ +.fixed-table-toolbar:after, .fixed-table-pagination:after { + content: ""; + display: block; + clear: both; +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/css/bootstrap.css Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,6167 @@ +/*! + * Bootstrap v2.3.2 + * + * Copyright 2012 Twitter, Inc + * Licensed under the Apache License v2.0 + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Designed and built with all the love in the world @twitter by @mdo and @fat. + */ + +.clearfix { + *zoom: 1; +} + +.clearfix:before, +.clearfix:after { + display: table; + line-height: 0; + content: ""; +} + +.clearfix:after { + clear: both; +} + +.hide-text { + font: 0/0 a; + color: transparent; + text-shadow: none; + background-color: transparent; + border: 0; +} + +.input-block-level { + display: block; + width: 100%; + min-height: 30px; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; +} + +article, +aside, +details, +figcaption, +figure, +footer, +header, +hgroup, +nav, +section { + display: block; +} + +audio, +canvas, +video { + display: inline-block; + *display: inline; + *zoom: 1; +} + +audio:not([controls]) { + display: none; +} + +html { + font-size: 100%; + -webkit-text-size-adjust: 100%; + -ms-text-size-adjust: 100%; +} + +a:focus { + outline: thin dotted #333; + outline: 5px auto -webkit-focus-ring-color; + outline-offset: -2px; +} + +a:hover, +a:active { + outline: 0; +} + +sub, +sup { + position: relative; + font-size: 75%; + line-height: 0; + vertical-align: baseline; +} + +sup { + top: -0.5em; +} + +sub { + bottom: -0.25em; +} + +img { + width: auto\9; + height: auto; + max-width: 100%; + vertical-align: middle; + border: 0; + -ms-interpolation-mode: bicubic; +} + +#map_canvas img, +.google-maps img { + max-width: none; +} + +button, +input, +select, +textarea { + margin: 0; + font-size: 100%; + vertical-align: middle; +} + +button, +input { + *overflow: visible; + line-height: normal; +} + +button::-moz-focus-inner, +input::-moz-focus-inner { + padding: 0; + border: 0; +} + +button, +html input[type="button"], +input[type="reset"], +input[type="submit"] { + cursor: pointer; + -webkit-appearance: button; +} + +label, +select, +button, +input[type="button"], +input[type="reset"], +input[type="submit"], +input[type="radio"], +input[type="checkbox"] { + cursor: pointer; +} + +input[type="search"] { + -webkit-box-sizing: content-box; + -moz-box-sizing: content-box; + box-sizing: content-box; + -webkit-appearance: textfield; +} + +input[type="search"]::-webkit-search-decoration, +input[type="search"]::-webkit-search-cancel-button { + -webkit-appearance: none; +} + +textarea { + overflow: auto; + vertical-align: top; +} + +@media print { + * { + color: #000 !important; + text-shadow: none !important; + background: transparent !important; + box-shadow: none !important; + } + a, + a:visited { + text-decoration: underline; + } + a[href]:after { + content: " (" attr(href) ")"; + } + abbr[title]:after { + content: " (" attr(title) ")"; + } + .ir a:after, + a[href^="javascript:"]:after, + a[href^="#"]:after { + content: ""; + } + pre, + blockquote { + border: 1px solid #999; + page-break-inside: avoid; + } + thead { + display: table-header-group; + } + tr, + img { + page-break-inside: avoid; + } + img { + max-width: 100% !important; + } + @page { + margin: 0.5cm; + } + p, + h2, + h3 { + orphans: 3; + widows: 3; + } + h2, + h3 { + page-break-after: avoid; + } +} + +body { + margin: 0; + font-family: "Helvetica Neue", Helvetica, Arial, sans-serif; + font-size: 14px; + line-height: 20px; + color: #333333; + background-color: #ffffff; +} + +a { + color: #0088cc; + text-decoration: none; +} + +a:hover, +a:focus { + color: #005580; + text-decoration: underline; +} + +.img-rounded { + -webkit-border-radius: 6px; + -moz-border-radius: 6px; + border-radius: 6px; +} + +.img-polaroid { + padding: 4px; + background-color: #fff; + border: 1px solid #ccc; + border: 1px solid rgba(0, 0, 0, 0.2); + -webkit-box-shadow: 0 1px 3px rgba(0, 0, 0, 0.1); + -moz-box-shadow: 0 1px 3px rgba(0, 0, 0, 0.1); + box-shadow: 0 1px 3px rgba(0, 0, 0, 0.1); +} + +.img-circle { + -webkit-border-radius: 500px; + -moz-border-radius: 500px; + border-radius: 500px; +} + +.row { + margin-left: -20px; + *zoom: 1; +} + +.row:before, +.row:after { + display: table; + line-height: 0; + content: ""; +} + +.row:after { + clear: both; +} + +[class*="span"] { + float: left; + min-height: 1px; + margin-left: 20px; +} + +.container, +.navbar-static-top .container, +.navbar-fixed-top .container, +.navbar-fixed-bottom .container { + width: 940px; +} + +.span12 { + width: 940px; +} + +.span11 { + width: 860px; +} + +.span10 { + width: 780px; +} + +.span9 { + width: 700px; +} + +.span8 { + width: 620px; +} + +.span7 { + width: 540px; +} + +.span6 { + width: 460px; +} + +.span5 { + width: 380px; +} + +.span4 { + width: 300px; +} + +.span3 { + width: 220px; +} + +.span2 { + width: 140px; +} + +.span1 { + width: 60px; +} + +.offset12 { + margin-left: 980px; +} + +.offset11 { + margin-left: 900px; +} + +.offset10 { + margin-left: 820px; +} + +.offset9 { + margin-left: 740px; +} + +.offset8 { + margin-left: 660px; +} + +.offset7 { + margin-left: 580px; +} + +.offset6 { + margin-left: 500px; +} + +.offset5 { + margin-left: 420px; +} + +.offset4 { + margin-left: 340px; +} + +.offset3 { + margin-left: 260px; +} + +.offset2 { + margin-left: 180px; +} + +.offset1 { + margin-left: 100px; +} + +.row-fluid { + width: 100%; + *zoom: 1; +} + +.row-fluid:before, +.row-fluid:after { + display: table; + line-height: 0; + content: ""; +} + +.row-fluid:after { + clear: both; +} + +.row-fluid [class*="span"] { + display: block; + float: left; + width: 100%; + min-height: 30px; + margin-left: 2.127659574468085%; + *margin-left: 2.074468085106383%; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; +} + +.row-fluid [class*="span"]:first-child { + margin-left: 0; +} + +.row-fluid .controls-row [class*="span"] + [class*="span"] { + margin-left: 2.127659574468085%; +} + +.row-fluid .span12 { + width: 100%; + *width: 99.94680851063829%; +} + +.row-fluid .span11 { + width: 91.48936170212765%; + *width: 91.43617021276594%; +} + +.row-fluid .span10 { + width: 82.97872340425532%; + *width: 82.92553191489361%; +} + +.row-fluid .span9 { + width: 74.46808510638297%; + *width: 74.41489361702126%; +} + +.row-fluid .span8 { + width: 65.95744680851064%; + *width: 65.90425531914893%; +} + +.row-fluid .span7 { + width: 57.44680851063829%; + *width: 57.39361702127659%; +} + +.row-fluid .span6 { + width: 48.93617021276595%; + *width: 48.88297872340425%; +} + +.row-fluid .span5 { + width: 40.42553191489362%; + *width: 40.37234042553192%; +} + +.row-fluid .span4 { + width: 31.914893617021278%; + *width: 31.861702127659576%; +} + +.row-fluid .span3 { + width: 23.404255319148934%; + *width: 23.351063829787233%; +} + +.row-fluid .span2 { + width: 14.893617021276595%; + *width: 14.840425531914894%; +} + +.row-fluid .span1 { + width: 6.382978723404255%; + *width: 6.329787234042553%; +} + +.row-fluid .offset12 { + margin-left: 104.25531914893617%; + *margin-left: 104.14893617021275%; +} + +.row-fluid .offset12:first-child { + margin-left: 102.12765957446808%; + *margin-left: 102.02127659574467%; +} + +.row-fluid .offset11 { + margin-left: 95.74468085106382%; + *margin-left: 95.6382978723404%; +} + +.row-fluid .offset11:first-child { + margin-left: 93.61702127659574%; + *margin-left: 93.51063829787232%; +} + +.row-fluid .offset10 { + margin-left: 87.23404255319149%; + *margin-left: 87.12765957446807%; +} + +.row-fluid .offset10:first-child { + margin-left: 85.1063829787234%; + *margin-left: 84.99999999999999%; +} + +.row-fluid .offset9 { + margin-left: 78.72340425531914%; + *margin-left: 78.61702127659572%; +} + +.row-fluid .offset9:first-child { + margin-left: 76.59574468085106%; + *margin-left: 76.48936170212764%; +} + +.row-fluid .offset8 { + margin-left: 70.2127659574468%; + *margin-left: 70.10638297872339%; +} + +.row-fluid .offset8:first-child { + margin-left: 68.08510638297872%; + *margin-left: 67.9787234042553%; +} + +.row-fluid .offset7 { + margin-left: 61.70212765957446%; + *margin-left: 61.59574468085106%; +} + +.row-fluid .offset7:first-child { + margin-left: 59.574468085106375%; + *margin-left: 59.46808510638297%; +} + +.row-fluid .offset6 { + margin-left: 53.191489361702125%; + *margin-left: 53.085106382978715%; +} + +.row-fluid .offset6:first-child { + margin-left: 51.063829787234035%; + *margin-left: 50.95744680851063%; +} + +.row-fluid .offset5 { + margin-left: 44.68085106382979%; + *margin-left: 44.57446808510638%; +} + +.row-fluid .offset5:first-child { + margin-left: 42.5531914893617%; + *margin-left: 42.4468085106383%; +} + +.row-fluid .offset4 { + margin-left: 36.170212765957444%; + *margin-left: 36.06382978723405%; +} + +.row-fluid .offset4:first-child { + margin-left: 34.04255319148936%; + *margin-left: 33.93617021276596%; +} + +.row-fluid .offset3 { + margin-left: 27.659574468085104%; + *margin-left: 27.5531914893617%; +} + +.row-fluid .offset3:first-child { + margin-left: 25.53191489361702%; + *margin-left: 25.425531914893618%; +} + +.row-fluid .offset2 { + margin-left: 19.148936170212764%; + *margin-left: 19.04255319148936%; +} + +.row-fluid .offset2:first-child { + margin-left: 17.02127659574468%; + *margin-left: 16.914893617021278%; +} + +.row-fluid .offset1 { + margin-left: 10.638297872340425%; + *margin-left: 10.53191489361702%; +} + +.row-fluid .offset1:first-child { + margin-left: 8.51063829787234%; + *margin-left: 8.404255319148938%; +} + +[class*="span"].hide, +.row-fluid [class*="span"].hide { + display: none; +} + +[class*="span"].pull-right, +.row-fluid [class*="span"].pull-right { + float: right; +} + +.container { + margin-right: auto; + margin-left: auto; + *zoom: 1; +} + +.container:before, +.container:after { + display: table; + line-height: 0; + content: ""; +} + +.container:after { + clear: both; +} + +.container-fluid { + padding-right: 20px; + padding-left: 20px; + *zoom: 1; +} + +.container-fluid:before, +.container-fluid:after { + display: table; + line-height: 0; + content: ""; +} + +.container-fluid:after { + clear: both; +} + +p { + margin: 0 0 10px; +} + +.lead { + margin-bottom: 20px; + font-size: 21px; + font-weight: 200; + line-height: 30px; +} + +small { + font-size: 85%; +} + +strong { + font-weight: bold; +} + +em { + font-style: italic; +} + +cite { + font-style: normal; +} + +.muted { + color: #999999; +} + +a.muted:hover, +a.muted:focus { + color: #808080; +} + +.text-warning { + color: #c09853; +} + +a.text-warning:hover, +a.text-warning:focus { + color: #a47e3c; +} + +.text-error { + color: #b94a48; +} + +a.text-error:hover, +a.text-error:focus { + color: #953b39; +} + +.text-info { + color: #3a87ad; +} + +a.text-info:hover, +a.text-info:focus { + color: #2d6987; +} + +.text-success { + color: #468847; +} + +a.text-success:hover, +a.text-success:focus { + color: #356635; +} + +.text-left { + text-align: left; +} + +.text-right { + text-align: right; +} + +.text-center { + text-align: center; +} + +h1, +h2, +h3, +h4, +h5, +h6 { + margin: 10px 0; + font-family: inherit; + font-weight: bold; + line-height: 20px; + color: inherit; + text-rendering: optimizelegibility; +} + +h1 small, +h2 small, +h3 small, +h4 small, +h5 small, +h6 small { + font-weight: normal; + line-height: 1; + color: #999999; +} + +h1, +h2, +h3 { + line-height: 40px; +} + +h1 { + font-size: 38.5px; +} + +h2 { + font-size: 31.5px; +} + +h3 { + font-size: 24.5px; +} + +h4 { + font-size: 17.5px; +} + +h5 { + font-size: 14px; +} + +h6 { + font-size: 11.9px; +} + +h1 small { + font-size: 24.5px; +} + +h2 small { + font-size: 17.5px; +} + +h3 small { + font-size: 14px; +} + +h4 small { + font-size: 14px; +} + +.page-header { + padding-bottom: 9px; + margin: 20px 0 30px; + border-bottom: 1px solid #eeeeee; +} + +ul, +ol { + padding: 0; + margin: 0 0 10px 25px; +} + +ul ul, +ul ol, +ol ol, +ol ul { + margin-bottom: 0; +} + +li { + line-height: 20px; +} + +ul.unstyled, +ol.unstyled { + margin-left: 0; + list-style: none; +} + +ul.inline, +ol.inline { + margin-left: 0; + list-style: none; +} + +ul.inline > li, +ol.inline > li { + display: inline-block; + *display: inline; + padding-right: 5px; + padding-left: 5px; + *zoom: 1; +} + +dl { + margin-bottom: 20px; +} + +dt, +dd { + line-height: 20px; +} + +dt { + font-weight: bold; +} + +dd { + margin-left: 10px; +} + +.dl-horizontal { + *zoom: 1; +} + +.dl-horizontal:before, +.dl-horizontal:after { + display: table; + line-height: 0; + content: ""; +} + +.dl-horizontal:after { + clear: both; +} + +.dl-horizontal dt { + float: left; + width: 160px; + overflow: hidden; + clear: left; + text-align: right; + text-overflow: ellipsis; + white-space: nowrap; +} + +.dl-horizontal dd { + margin-left: 180px; +} + +hr { + margin: 20px 0; + border: 0; + border-top: 1px solid #eeeeee; + border-bottom: 1px solid #ffffff; +} + +abbr[title], +abbr[data-original-title] { + cursor: help; + border-bottom: 1px dotted #999999; +} + +abbr.initialism { + font-size: 90%; + text-transform: uppercase; +} + +blockquote { + padding: 0 0 0 15px; + margin: 0 0 20px; + border-left: 5px solid #eeeeee; +} + +blockquote p { + margin-bottom: 0; + font-size: 17.5px; + font-weight: 300; + line-height: 1.25; +} + +blockquote small { + display: block; + line-height: 20px; + color: #999999; +} + +blockquote small:before { + content: '\2014 \00A0'; +} + +blockquote.pull-right { + float: right; + padding-right: 15px; + padding-left: 0; + border-right: 5px solid #eeeeee; + border-left: 0; +} + +blockquote.pull-right p, +blockquote.pull-right small { + text-align: right; +} + +blockquote.pull-right small:before { + content: ''; +} + +blockquote.pull-right small:after { + content: '\00A0 \2014'; +} + +q:before, +q:after, +blockquote:before, +blockquote:after { + content: ""; +} + +address { + display: block; + margin-bottom: 20px; + font-style: normal; + line-height: 20px; +} + +code, +pre { + padding: 0 3px 2px; + font-family: Monaco, Menlo, Consolas, "Courier New", monospace; + font-size: 12px; + color: #333333; + -webkit-border-radius: 3px; + -moz-border-radius: 3px; + border-radius: 3px; +} + +code { + padding: 2px 4px; + color: #d14; + white-space: nowrap; + background-color: #f7f7f9; + border: 1px solid #e1e1e8; +} + +pre { + display: block; + padding: 9.5px; + margin: 0 0 10px; + font-size: 13px; + line-height: 20px; + word-break: break-all; + word-wrap: break-word; + white-space: pre; + white-space: pre-wrap; + background-color: #f5f5f5; + border: 1px solid #ccc; + border: 1px solid rgba(0, 0, 0, 0.15); + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; +} + +pre.prettyprint { + margin-bottom: 20px; +} + +pre code { + padding: 0; + color: inherit; + white-space: pre; + white-space: pre-wrap; + background-color: transparent; + border: 0; +} + +.pre-scrollable { + max-height: 340px; + overflow-y: scroll; +} + +form { + margin: 0 0 20px; +} + +fieldset { + padding: 0; + margin: 0; + border: 0; +} + +legend { + display: block; + width: 100%; + padding: 0; + margin-bottom: 20px; + font-size: 21px; + line-height: 40px; + color: #333333; + border: 0; + border-bottom: 1px solid #e5e5e5; +} + +legend small { + font-size: 15px; + color: #999999; +} + +label, +input, +button, +select, +textarea { + font-size: 14px; + font-weight: normal; + line-height: 20px; +} + +input, +button, +select, +textarea { + font-family: "Helvetica Neue", Helvetica, Arial, sans-serif; +} + +label { + display: block; + margin-bottom: 5px; +} + +select, +textarea, +input[type="text"], +input[type="password"], +input[type="datetime"], +input[type="datetime-local"], +input[type="date"], +input[type="month"], +input[type="time"], +input[type="week"], +input[type="number"], +input[type="email"], +input[type="url"], +input[type="search"], +input[type="tel"], +input[type="color"], +.uneditable-input { + display: inline-block; + height: 20px; + padding: 4px 6px; + margin-bottom: 10px; + font-size: 14px; + line-height: 20px; + color: #555555; + vertical-align: middle; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; +} + +input, +textarea, +.uneditable-input { + width: 206px; +} + +textarea { + height: auto; +} + +textarea, +input[type="text"], +input[type="password"], +input[type="datetime"], +input[type="datetime-local"], +input[type="date"], +input[type="month"], +input[type="time"], +input[type="week"], +input[type="number"], +input[type="email"], +input[type="url"], +input[type="search"], +input[type="tel"], +input[type="color"], +.uneditable-input { + background-color: #ffffff; + border: 1px solid #cccccc; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + -webkit-transition: border linear 0.2s, box-shadow linear 0.2s; + -moz-transition: border linear 0.2s, box-shadow linear 0.2s; + -o-transition: border linear 0.2s, box-shadow linear 0.2s; + transition: border linear 0.2s, box-shadow linear 0.2s; +} + +textarea:focus, +input[type="text"]:focus, +input[type="password"]:focus, +input[type="datetime"]:focus, +input[type="datetime-local"]:focus, +input[type="date"]:focus, +input[type="month"]:focus, +input[type="time"]:focus, +input[type="week"]:focus, +input[type="number"]:focus, +input[type="email"]:focus, +input[type="url"]:focus, +input[type="search"]:focus, +input[type="tel"]:focus, +input[type="color"]:focus, +.uneditable-input:focus { + border-color: rgba(82, 168, 236, 0.8); + outline: 0; + outline: thin dotted \9; + /* IE6-9 */ + + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 8px rgba(82, 168, 236, 0.6); + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 8px rgba(82, 168, 236, 0.6); + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 8px rgba(82, 168, 236, 0.6); +} + +input[type="radio"], +input[type="checkbox"] { + margin: 4px 0 0; + margin-top: 1px \9; + *margin-top: 0; + line-height: normal; +} + +input[type="file"], +input[type="image"], +input[type="submit"], +input[type="reset"], +input[type="button"], +input[type="radio"], +input[type="checkbox"] { + width: auto; +} + +select, +input[type="file"] { + height: 30px; + /* In IE7, the height of the select element cannot be changed by height, only font-size */ + + *margin-top: 4px; + /* For IE7, add top margin to align select with labels */ + + line-height: 30px; +} + +select { + width: 220px; + background-color: #ffffff; + border: 1px solid #cccccc; +} + +select[multiple], +select[size] { + height: auto; +} + +select:focus, +input[type="file"]:focus, +input[type="radio"]:focus, +input[type="checkbox"]:focus { + outline: thin dotted #333; + outline: 5px auto -webkit-focus-ring-color; + outline-offset: -2px; +} + +.uneditable-input, +.uneditable-textarea { + color: #999999; + cursor: not-allowed; + background-color: #fcfcfc; + border-color: #cccccc; + -webkit-box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.025); + -moz-box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.025); + box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.025); +} + +.uneditable-input { + overflow: hidden; + white-space: nowrap; +} + +.uneditable-textarea { + width: auto; + height: auto; +} + +input:-moz-placeholder, +textarea:-moz-placeholder { + color: #999999; +} + +input:-ms-input-placeholder, +textarea:-ms-input-placeholder { + color: #999999; +} + +input::-webkit-input-placeholder, +textarea::-webkit-input-placeholder { + color: #999999; +} + +.radio, +.checkbox { + min-height: 20px; + padding-left: 20px; +} + +.radio input[type="radio"], +.checkbox input[type="checkbox"] { + float: left; + margin-left: -20px; +} + +.controls > .radio:first-child, +.controls > .checkbox:first-child { + padding-top: 5px; +} + +.radio.inline, +.checkbox.inline { + display: inline-block; + padding-top: 5px; + margin-bottom: 0; + vertical-align: middle; +} + +.radio.inline + .radio.inline, +.checkbox.inline + .checkbox.inline { + margin-left: 10px; +} + +.input-mini { + width: 60px; +} + +.input-small { + width: 90px; +} + +.input-medium { + width: 150px; +} + +.input-large { + width: 210px; +} + +.input-xlarge { + width: 270px; +} + +.input-xxlarge { + width: 530px; +} + +input[class*="span"], +select[class*="span"], +textarea[class*="span"], +.uneditable-input[class*="span"], +.row-fluid input[class*="span"], +.row-fluid select[class*="span"], +.row-fluid textarea[class*="span"], +.row-fluid .uneditable-input[class*="span"] { + float: none; + margin-left: 0; +} + +.input-append input[class*="span"], +.input-append .uneditable-input[class*="span"], +.input-prepend input[class*="span"], +.input-prepend .uneditable-input[class*="span"], +.row-fluid input[class*="span"], +.row-fluid select[class*="span"], +.row-fluid textarea[class*="span"], +.row-fluid .uneditable-input[class*="span"], +.row-fluid .input-prepend [class*="span"], +.row-fluid .input-append [class*="span"] { + display: inline-block; +} + +input, +textarea, +.uneditable-input { + margin-left: 0; +} + +.controls-row [class*="span"] + [class*="span"] { + margin-left: 20px; +} + +input.span12, +textarea.span12, +.uneditable-input.span12 { + width: 926px; +} + +input.span11, +textarea.span11, +.uneditable-input.span11 { + width: 846px; +} + +input.span10, +textarea.span10, +.uneditable-input.span10 { + width: 766px; +} + +input.span9, +textarea.span9, +.uneditable-input.span9 { + width: 686px; +} + +input.span8, +textarea.span8, +.uneditable-input.span8 { + width: 606px; +} + +input.span7, +textarea.span7, +.uneditable-input.span7 { + width: 526px; +} + +input.span6, +textarea.span6, +.uneditable-input.span6 { + width: 446px; +} + +input.span5, +textarea.span5, +.uneditable-input.span5 { + width: 366px; +} + +input.span4, +textarea.span4, +.uneditable-input.span4 { + width: 286px; +} + +input.span3, +textarea.span3, +.uneditable-input.span3 { + width: 206px; +} + +input.span2, +textarea.span2, +.uneditable-input.span2 { + width: 126px; +} + +input.span1, +textarea.span1, +.uneditable-input.span1 { + width: 46px; +} + +.controls-row { + *zoom: 1; +} + +.controls-row:before, +.controls-row:after { + display: table; + line-height: 0; + content: ""; +} + +.controls-row:after { + clear: both; +} + +.controls-row [class*="span"], +.row-fluid .controls-row [class*="span"] { + float: left; +} + +.controls-row .checkbox[class*="span"], +.controls-row .radio[class*="span"] { + padding-top: 5px; +} + +input[disabled], +select[disabled], +textarea[disabled], +input[readonly], +select[readonly], +textarea[readonly] { + cursor: not-allowed; + background-color: #eeeeee; +} + +input[type="radio"][disabled], +input[type="checkbox"][disabled], +input[type="radio"][readonly], +input[type="checkbox"][readonly] { + background-color: transparent; +} + +.control-group.warning .control-label, +.control-group.warning .help-block, +.control-group.warning .help-inline { + color: #c09853; +} + +.control-group.warning .checkbox, +.control-group.warning .radio, +.control-group.warning input, +.control-group.warning select, +.control-group.warning textarea { + color: #c09853; +} + +.control-group.warning input, +.control-group.warning select, +.control-group.warning textarea { + border-color: #c09853; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); +} + +.control-group.warning input:focus, +.control-group.warning select:focus, +.control-group.warning textarea:focus { + border-color: #a47e3c; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #dbc59e; + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #dbc59e; + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #dbc59e; +} + +.control-group.warning .input-prepend .add-on, +.control-group.warning .input-append .add-on { + color: #c09853; + background-color: #fcf8e3; + border-color: #c09853; +} + +.control-group.error .control-label, +.control-group.error .help-block, +.control-group.error .help-inline { + color: #b94a48; +} + +.control-group.error .checkbox, +.control-group.error .radio, +.control-group.error input, +.control-group.error select, +.control-group.error textarea { + color: #b94a48; +} + +.control-group.error input, +.control-group.error select, +.control-group.error textarea { + border-color: #b94a48; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); +} + +.control-group.error input:focus, +.control-group.error select:focus, +.control-group.error textarea:focus { + border-color: #953b39; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #d59392; + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #d59392; + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #d59392; +} + +.control-group.error .input-prepend .add-on, +.control-group.error .input-append .add-on { + color: #b94a48; + background-color: #f2dede; + border-color: #b94a48; +} + +.control-group.success .control-label, +.control-group.success .help-block, +.control-group.success .help-inline { + color: #468847; +} + +.control-group.success .checkbox, +.control-group.success .radio, +.control-group.success input, +.control-group.success select, +.control-group.success textarea { + color: #468847; +} + +.control-group.success input, +.control-group.success select, +.control-group.success textarea { + border-color: #468847; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); +} + +.control-group.success input:focus, +.control-group.success select:focus, +.control-group.success textarea:focus { + border-color: #356635; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #7aba7b; + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #7aba7b; + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #7aba7b; +} + +.control-group.success .input-prepend .add-on, +.control-group.success .input-append .add-on { + color: #468847; + background-color: #dff0d8; + border-color: #468847; +} + +.control-group.info .control-label, +.control-group.info .help-block, +.control-group.info .help-inline { + color: #3a87ad; +} + +.control-group.info .checkbox, +.control-group.info .radio, +.control-group.info input, +.control-group.info select, +.control-group.info textarea { + color: #3a87ad; +} + +.control-group.info input, +.control-group.info select, +.control-group.info textarea { + border-color: #3a87ad; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075); +} + +.control-group.info input:focus, +.control-group.info select:focus, +.control-group.info textarea:focus { + border-color: #2d6987; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #7ab5d3; + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #7ab5d3; + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075), 0 0 6px #7ab5d3; +} + +.control-group.info .input-prepend .add-on, +.control-group.info .input-append .add-on { + color: #3a87ad; + background-color: #d9edf7; + border-color: #3a87ad; +} + +input:focus:invalid, +textarea:focus:invalid, +select:focus:invalid { + color: #b94a48; + border-color: #ee5f5b; +} + +input:focus:invalid:focus, +textarea:focus:invalid:focus, +select:focus:invalid:focus { + border-color: #e9322d; + -webkit-box-shadow: 0 0 6px #f8b9b7; + -moz-box-shadow: 0 0 6px #f8b9b7; + box-shadow: 0 0 6px #f8b9b7; +} + +.form-actions { + padding: 19px 20px 20px; + margin-top: 20px; + margin-bottom: 20px; + background-color: #f5f5f5; + border-top: 1px solid #e5e5e5; + *zoom: 1; +} + +.form-actions:before, +.form-actions:after { + display: table; + line-height: 0; + content: ""; +} + +.form-actions:after { + clear: both; +} + +.help-block, +.help-inline { + color: #595959; +} + +.help-block { + display: block; + margin-bottom: 10px; +} + +.help-inline { + display: inline-block; + *display: inline; + padding-left: 5px; + vertical-align: middle; + *zoom: 1; +} + +.input-append, +.input-prepend { + display: inline-block; + margin-bottom: 10px; + font-size: 0; + white-space: nowrap; + vertical-align: middle; +} + +.input-append input, +.input-prepend input, +.input-append select, +.input-prepend select, +.input-append .uneditable-input, +.input-prepend .uneditable-input, +.input-append .dropdown-menu, +.input-prepend .dropdown-menu, +.input-append .popover, +.input-prepend .popover { + font-size: 14px; +} + +.input-append input, +.input-prepend input, +.input-append select, +.input-prepend select, +.input-append .uneditable-input, +.input-prepend .uneditable-input { + position: relative; + margin-bottom: 0; + *margin-left: 0; + vertical-align: top; + -webkit-border-radius: 0 4px 4px 0; + -moz-border-radius: 0 4px 4px 0; + border-radius: 0 4px 4px 0; +} + +.input-append input:focus, +.input-prepend input:focus, +.input-append select:focus, +.input-prepend select:focus, +.input-append .uneditable-input:focus, +.input-prepend .uneditable-input:focus { + z-index: 2; +} + +.input-append .add-on, +.input-prepend .add-on { + display: inline-block; + width: auto; + height: 20px; + min-width: 16px; + padding: 4px 5px; + font-size: 14px; + font-weight: normal; + line-height: 20px; + text-align: center; + text-shadow: 0 1px 0 #ffffff; + background-color: #eeeeee; + border: 1px solid #ccc; +} + +.input-append .add-on, +.input-prepend .add-on, +.input-append .btn, +.input-prepend .btn, +.input-append .btn-group > .dropdown-toggle, +.input-prepend .btn-group > .dropdown-toggle { + vertical-align: top; + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.input-append .active, +.input-prepend .active { + background-color: #a9dba9; + border-color: #46a546; +} + +.input-prepend .add-on, +.input-prepend .btn { + margin-right: -1px; +} + +.input-prepend .add-on:first-child, +.input-prepend .btn:first-child { + -webkit-border-radius: 4px 0 0 4px; + -moz-border-radius: 4px 0 0 4px; + border-radius: 4px 0 0 4px; +} + +.input-append input, +.input-append select, +.input-append .uneditable-input { + -webkit-border-radius: 4px 0 0 4px; + -moz-border-radius: 4px 0 0 4px; + border-radius: 4px 0 0 4px; +} + +.input-append input + .btn-group .btn:last-child, +.input-append select + .btn-group .btn:last-child, +.input-append .uneditable-input + .btn-group .btn:last-child { + -webkit-border-radius: 0 4px 4px 0; + -moz-border-radius: 0 4px 4px 0; + border-radius: 0 4px 4px 0; +} + +.input-append .add-on, +.input-append .btn, +.input-append .btn-group { + margin-left: -1px; +} + +.input-append .add-on:last-child, +.input-append .btn:last-child, +.input-append .btn-group:last-child > .dropdown-toggle { + -webkit-border-radius: 0 4px 4px 0; + -moz-border-radius: 0 4px 4px 0; + border-radius: 0 4px 4px 0; +} + +.input-prepend.input-append input, +.input-prepend.input-append select, +.input-prepend.input-append .uneditable-input { + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.input-prepend.input-append input + .btn-group .btn, +.input-prepend.input-append select + .btn-group .btn, +.input-prepend.input-append .uneditable-input + .btn-group .btn { + -webkit-border-radius: 0 4px 4px 0; + -moz-border-radius: 0 4px 4px 0; + border-radius: 0 4px 4px 0; +} + +.input-prepend.input-append .add-on:first-child, +.input-prepend.input-append .btn:first-child { + margin-right: -1px; + -webkit-border-radius: 4px 0 0 4px; + -moz-border-radius: 4px 0 0 4px; + border-radius: 4px 0 0 4px; +} + +.input-prepend.input-append .add-on:last-child, +.input-prepend.input-append .btn:last-child { + margin-left: -1px; + -webkit-border-radius: 0 4px 4px 0; + -moz-border-radius: 0 4px 4px 0; + border-radius: 0 4px 4px 0; +} + +.input-prepend.input-append .btn-group:first-child { + margin-left: 0; +} + +input.search-query { + padding-right: 14px; + padding-right: 4px \9; + padding-left: 14px; + padding-left: 4px \9; + /* IE7-8 doesn't have border-radius, so don't indent the padding */ + + margin-bottom: 0; + -webkit-border-radius: 15px; + -moz-border-radius: 15px; + border-radius: 15px; +} + +/* Allow for input prepend/append in search forms */ + +.form-search .input-append .search-query, +.form-search .input-prepend .search-query { + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.form-search .input-append .search-query { + -webkit-border-radius: 14px 0 0 14px; + -moz-border-radius: 14px 0 0 14px; + border-radius: 14px 0 0 14px; +} + +.form-search .input-append .btn { + -webkit-border-radius: 0 14px 14px 0; + -moz-border-radius: 0 14px 14px 0; + border-radius: 0 14px 14px 0; +} + +.form-search .input-prepend .search-query { + -webkit-border-radius: 0 14px 14px 0; + -moz-border-radius: 0 14px 14px 0; + border-radius: 0 14px 14px 0; +} + +.form-search .input-prepend .btn { + -webkit-border-radius: 14px 0 0 14px; + -moz-border-radius: 14px 0 0 14px; + border-radius: 14px 0 0 14px; +} + +.form-search input, +.form-inline input, +.form-horizontal input, +.form-search textarea, +.form-inline textarea, +.form-horizontal textarea, +.form-search select, +.form-inline select, +.form-horizontal select, +.form-search .help-inline, +.form-inline .help-inline, +.form-horizontal .help-inline, +.form-search .uneditable-input, +.form-inline .uneditable-input, +.form-horizontal .uneditable-input, +.form-search .input-prepend, +.form-inline .input-prepend, +.form-horizontal .input-prepend, +.form-search .input-append, +.form-inline .input-append, +.form-horizontal .input-append { + display: inline-block; + *display: inline; + margin-bottom: 0; + vertical-align: middle; + *zoom: 1; +} + +.form-search .hide, +.form-inline .hide, +.form-horizontal .hide { + display: none; +} + +.form-search label, +.form-inline label, +.form-search .btn-group, +.form-inline .btn-group { + display: inline-block; +} + +.form-search .input-append, +.form-inline .input-append, +.form-search .input-prepend, +.form-inline .input-prepend { + margin-bottom: 0; +} + +.form-search .radio, +.form-search .checkbox, +.form-inline .radio, +.form-inline .checkbox { + padding-left: 0; + margin-bottom: 0; + vertical-align: middle; +} + +.form-search .radio input[type="radio"], +.form-search .checkbox input[type="checkbox"], +.form-inline .radio input[type="radio"], +.form-inline .checkbox input[type="checkbox"] { + float: left; + margin-right: 3px; + margin-left: 0; +} + +.control-group { + margin-bottom: 10px; +} + +legend + .control-group { + margin-top: 20px; + -webkit-margin-top-collapse: separate; +} + +.form-horizontal .control-group { + margin-bottom: 20px; + *zoom: 1; +} + +.form-horizontal .control-group:before, +.form-horizontal .control-group:after { + display: table; + line-height: 0; + content: ""; +} + +.form-horizontal .control-group:after { + clear: both; +} + +.form-horizontal .control-label { + float: left; + width: 160px; + padding-top: 5px; + text-align: right; +} + +.form-horizontal .controls { + *display: inline-block; + *padding-left: 20px; + margin-left: 180px; + *margin-left: 0; +} + +.form-horizontal .controls:first-child { + *padding-left: 180px; +} + +.form-horizontal .help-block { + margin-bottom: 0; +} + +.form-horizontal input + .help-block, +.form-horizontal select + .help-block, +.form-horizontal textarea + .help-block, +.form-horizontal .uneditable-input + .help-block, +.form-horizontal .input-prepend + .help-block, +.form-horizontal .input-append + .help-block { + margin-top: 10px; +} + +.form-horizontal .form-actions { + padding-left: 180px; +} + +table { + max-width: 100%; + background-color: transparent; + border-collapse: collapse; + border-spacing: 0; +} + +.table { + width: 100%; + margin-bottom: 20px; +} + +.table th, +.table td { + padding: 8px; + line-height: 20px; + text-align: left; + vertical-align: top; + border-top: 1px solid #dddddd; +} + +.table th { + font-weight: bold; +} + +.table thead th { + vertical-align: bottom; +} + +.table caption + thead tr:first-child th, +.table caption + thead tr:first-child td, +.table colgroup + thead tr:first-child th, +.table colgroup + thead tr:first-child td, +.table thead:first-child tr:first-child th, +.table thead:first-child tr:first-child td { + border-top: 0; +} + +.table tbody + tbody { + border-top: 2px solid #dddddd; +} + +.table .table { + background-color: #ffffff; +} + +.table-condensed th, +.table-condensed td { + padding: 4px 5px; +} + +.table-bordered { + border: 1px solid #dddddd; + border-collapse: separate; + *border-collapse: collapse; + border-left: 0; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; +} + +.table-bordered th, +.table-bordered td { + border-left: 1px solid #dddddd; +} + +.table-bordered caption + thead tr:first-child th, +.table-bordered caption + tbody tr:first-child th, +.table-bordered caption + tbody tr:first-child td, +.table-bordered colgroup + thead tr:first-child th, +.table-bordered colgroup + tbody tr:first-child th, +.table-bordered colgroup + tbody tr:first-child td, +.table-bordered thead:first-child tr:first-child th, +.table-bordered tbody:first-child tr:first-child th, +.table-bordered tbody:first-child tr:first-child td { + border-top: 0; +} + +.table-bordered thead:first-child tr:first-child > th:first-child, +.table-bordered tbody:first-child tr:first-child > td:first-child, +.table-bordered tbody:first-child tr:first-child > th:first-child { + -webkit-border-top-left-radius: 4px; + border-top-left-radius: 4px; + -moz-border-radius-topleft: 4px; +} + +.table-bordered thead:first-child tr:first-child > th:last-child, +.table-bordered tbody:first-child tr:first-child > td:last-child, +.table-bordered tbody:first-child tr:first-child > th:last-child { + -webkit-border-top-right-radius: 4px; + border-top-right-radius: 4px; + -moz-border-radius-topright: 4px; +} + +.table-bordered thead:last-child tr:last-child > th:first-child, +.table-bordered tbody:last-child tr:last-child > td:first-child, +.table-bordered tbody:last-child tr:last-child > th:first-child, +.table-bordered tfoot:last-child tr:last-child > td:first-child, +.table-bordered tfoot:last-child tr:last-child > th:first-child { + -webkit-border-bottom-left-radius: 4px; + border-bottom-left-radius: 4px; + -moz-border-radius-bottomleft: 4px; +} + +.table-bordered thead:last-child tr:last-child > th:last-child, +.table-bordered tbody:last-child tr:last-child > td:last-child, +.table-bordered tbody:last-child tr:last-child > th:last-child, +.table-bordered tfoot:last-child tr:last-child > td:last-child, +.table-bordered tfoot:last-child tr:last-child > th:last-child { + -webkit-border-bottom-right-radius: 4px; + border-bottom-right-radius: 4px; + -moz-border-radius-bottomright: 4px; +} + +.table-bordered tfoot + tbody:last-child tr:last-child td:first-child { + -webkit-border-bottom-left-radius: 0; + border-bottom-left-radius: 0; + -moz-border-radius-bottomleft: 0; +} + +.table-bordered tfoot + tbody:last-child tr:last-child td:last-child { + -webkit-border-bottom-right-radius: 0; + border-bottom-right-radius: 0; + -moz-border-radius-bottomright: 0; +} + +.table-bordered caption + thead tr:first-child th:first-child, +.table-bordered caption + tbody tr:first-child td:first-child, +.table-bordered colgroup + thead tr:first-child th:first-child, +.table-bordered colgroup + tbody tr:first-child td:first-child { + -webkit-border-top-left-radius: 4px; + border-top-left-radius: 4px; + -moz-border-radius-topleft: 4px; +} + +.table-bordered caption + thead tr:first-child th:last-child, +.table-bordered caption + tbody tr:first-child td:last-child, +.table-bordered colgroup + thead tr:first-child th:last-child, +.table-bordered colgroup + tbody tr:first-child td:last-child { + -webkit-border-top-right-radius: 4px; + border-top-right-radius: 4px; + -moz-border-radius-topright: 4px; +} + +.table-striped tbody > tr:nth-child(odd) > td, +.table-striped tbody > tr:nth-child(odd) > th { + background-color: #f9f9f9; +} + +.table-hover tbody tr:hover > td, +.table-hover tbody tr:hover > th { + background-color: #f5f5f5; +} + +table td[class*="span"], +table th[class*="span"], +.row-fluid table td[class*="span"], +.row-fluid table th[class*="span"] { + display: table-cell; + float: none; + margin-left: 0; +} + +.table td.span1, +.table th.span1 { + float: none; + width: 44px; + margin-left: 0; +} + +.table td.span2, +.table th.span2 { + float: none; + width: 124px; + margin-left: 0; +} + +.table td.span3, +.table th.span3 { + float: none; + width: 204px; + margin-left: 0; +} + +.table td.span4, +.table th.span4 { + float: none; + width: 284px; + margin-left: 0; +} + +.table td.span5, +.table th.span5 { + float: none; + width: 364px; + margin-left: 0; +} + +.table td.span6, +.table th.span6 { + float: none; + width: 444px; + margin-left: 0; +} + +.table td.span7, +.table th.span7 { + float: none; + width: 524px; + margin-left: 0; +} + +.table td.span8, +.table th.span8 { + float: none; + width: 604px; + margin-left: 0; +} + +.table td.span9, +.table th.span9 { + float: none; + width: 684px; + margin-left: 0; +} + +.table td.span10, +.table th.span10 { + float: none; + width: 764px; + margin-left: 0; +} + +.table td.span11, +.table th.span11 { + float: none; + width: 844px; + margin-left: 0; +} + +.table td.span12, +.table th.span12 { + float: none; + width: 924px; + margin-left: 0; +} + +.table tbody tr.success > td { + background-color: #dff0d8; +} + +.table tbody tr.error > td { + background-color: #f2dede; +} + +.table tbody tr.warning > td { + background-color: #fcf8e3; +} + +.table tbody tr.info > td { + background-color: #d9edf7; +} + +.table-hover tbody tr.success:hover > td { + background-color: #d0e9c6; +} + +.table-hover tbody tr.error:hover > td { + background-color: #ebcccc; +} + +.table-hover tbody tr.warning:hover > td { + background-color: #faf2cc; +} + +.table-hover tbody tr.info:hover > td { + background-color: #c4e3f3; +} + +[class^="icon-"], +[class*=" icon-"] { + display: inline-block; + width: 14px; + height: 14px; + margin-top: 1px; + *margin-right: .3em; + line-height: 14px; + vertical-align: text-top; + background-image: url("../img/glyphicons-halflings.png"); + background-position: 14px 14px; + background-repeat: no-repeat; +} + +/* White icons with optional class, or on hover/focus/active states of certain elements */ + +.icon-white, +.nav-pills > .active > a > [class^="icon-"], +.nav-pills > .active > a > [class*=" icon-"], +.nav-list > .active > a > [class^="icon-"], +.nav-list > .active > a > [class*=" icon-"], +.navbar-inverse .nav > .active > a > [class^="icon-"], +.navbar-inverse .nav > .active > a > [class*=" icon-"], +.dropdown-menu > li > a:hover > [class^="icon-"], +.dropdown-menu > li > a:focus > [class^="icon-"], +.dropdown-menu > li > a:hover > [class*=" icon-"], +.dropdown-menu > li > a:focus > [class*=" icon-"], +.dropdown-menu > .active > a > [class^="icon-"], +.dropdown-menu > .active > a > [class*=" icon-"], +.dropdown-submenu:hover > a > [class^="icon-"], +.dropdown-submenu:focus > a > [class^="icon-"], +.dropdown-submenu:hover > a > [class*=" icon-"], +.dropdown-submenu:focus > a > [class*=" icon-"] { + background-image: url("../img/glyphicons-halflings-white.png"); +} + +.icon-glass { + background-position: 0 0; +} + +.icon-music { + background-position: -24px 0; +} + +.icon-search { + background-position: -48px 0; +} + +.icon-envelope { + background-position: -72px 0; +} + +.icon-heart { + background-position: -96px 0; +} + +.icon-star { + background-position: -120px 0; +} + +.icon-star-empty { + background-position: -144px 0; +} + +.icon-user { + background-position: -168px 0; +} + +.icon-film { + background-position: -192px 0; +} + +.icon-th-large { + background-position: -216px 0; +} + +.icon-th { + background-position: -240px 0; +} + +.icon-th-list { + background-position: -264px 0; +} + +.icon-ok { + background-position: -288px 0; +} + +.icon-remove { + background-position: -312px 0; +} + +.icon-zoom-in { + background-position: -336px 0; +} + +.icon-zoom-out { + background-position: -360px 0; +} + +.icon-off { + background-position: -384px 0; +} + +.icon-signal { + background-position: -408px 0; +} + +.icon-cog { + background-position: -432px 0; +} + +.icon-trash { + background-position: -456px 0; +} + +.icon-home { + background-position: 0 -24px; +} + +.icon-file { + background-position: -24px -24px; +} + +.icon-time { + background-position: -48px -24px; +} + +.icon-road { + background-position: -72px -24px; +} + +.icon-download-alt { + background-position: -96px -24px; +} + +.icon-download { + background-position: -120px -24px; +} + +.icon-upload { + background-position: -144px -24px; +} + +.icon-inbox { + background-position: -168px -24px; +} + +.icon-play-circle { + background-position: -192px -24px; +} + +.icon-repeat { + background-position: -216px -24px; +} + +.icon-refresh { + background-position: -240px -24px; +} + +.icon-list-alt { + background-position: -264px -24px; +} + +.icon-lock { + background-position: -287px -24px; +} + +.icon-flag { + background-position: -312px -24px; +} + +.icon-headphones { + background-position: -336px -24px; +} + +.icon-volume-off { + background-position: -360px -24px; +} + +.icon-volume-down { + background-position: -384px -24px; +} + +.icon-volume-up { + background-position: -408px -24px; +} + +.icon-qrcode { + background-position: -432px -24px; +} + +.icon-barcode { + background-position: -456px -24px; +} + +.icon-tag { + background-position: 0 -48px; +} + +.icon-tags { + background-position: -25px -48px; +} + +.icon-book { + background-position: -48px -48px; +} + +.icon-bookmark { + background-position: -72px -48px; +} + +.icon-print { + background-position: -96px -48px; +} + +.icon-camera { + background-position: -120px -48px; +} + +.icon-font { + background-position: -144px -48px; +} + +.icon-bold { + background-position: -167px -48px; +} + +.icon-italic { + background-position: -192px -48px; +} + +.icon-text-height { + background-position: -216px -48px; +} + +.icon-text-width { + background-position: -240px -48px; +} + +.icon-align-left { + background-position: -264px -48px; +} + +.icon-align-center { + background-position: -288px -48px; +} + +.icon-align-right { + background-position: -312px -48px; +} + +.icon-align-justify { + background-position: -336px -48px; +} + +.icon-list { + background-position: -360px -48px; +} + +.icon-indent-left { + background-position: -384px -48px; +} + +.icon-indent-right { + background-position: -408px -48px; +} + +.icon-facetime-video { + background-position: -432px -48px; +} + +.icon-picture { + background-position: -456px -48px; +} + +.icon-pencil { + background-position: 0 -72px; +} + +.icon-map-marker { + background-position: -24px -72px; +} + +.icon-adjust { + background-position: -48px -72px; +} + +.icon-tint { + background-position: -72px -72px; +} + +.icon-edit { + background-position: -96px -72px; +} + +.icon-share { + background-position: -120px -72px; +} + +.icon-check { + background-position: -144px -72px; +} + +.icon-move { + background-position: -168px -72px; +} + +.icon-step-backward { + background-position: -192px -72px; +} + +.icon-fast-backward { + background-position: -216px -72px; +} + +.icon-backward { + background-position: -240px -72px; +} + +.icon-play { + background-position: -264px -72px; +} + +.icon-pause { + background-position: -288px -72px; +} + +.icon-stop { + background-position: -312px -72px; +} + +.icon-forward { + background-position: -336px -72px; +} + +.icon-fast-forward { + background-position: -360px -72px; +} + +.icon-step-forward { + background-position: -384px -72px; +} + +.icon-eject { + background-position: -408px -72px; +} + +.icon-chevron-left { + background-position: -432px -72px; +} + +.icon-chevron-right { + background-position: -456px -72px; +} + +.icon-plus-sign { + background-position: 0 -96px; +} + +.icon-minus-sign { + background-position: -24px -96px; +} + +.icon-remove-sign { + background-position: -48px -96px; +} + +.icon-ok-sign { + background-position: -72px -96px; +} + +.icon-question-sign { + background-position: -96px -96px; +} + +.icon-info-sign { + background-position: -120px -96px; +} + +.icon-screenshot { + background-position: -144px -96px; +} + +.icon-remove-circle { + background-position: -168px -96px; +} + +.icon-ok-circle { + background-position: -192px -96px; +} + +.icon-ban-circle { + background-position: -216px -96px; +} + +.icon-arrow-left { + background-position: -240px -96px; +} + +.icon-arrow-right { + background-position: -264px -96px; +} + +.icon-arrow-up { + background-position: -289px -96px; +} + +.icon-arrow-down { + background-position: -312px -96px; +} + +.icon-share-alt { + background-position: -336px -96px; +} + +.icon-resize-full { + background-position: -360px -96px; +} + +.icon-resize-small { + background-position: -384px -96px; +} + +.icon-plus { + background-position: -408px -96px; +} + +.icon-minus { + background-position: -433px -96px; +} + +.icon-asterisk { + background-position: -456px -96px; +} + +.icon-exclamation-sign { + background-position: 0 -120px; +} + +.icon-gift { + background-position: -24px -120px; +} + +.icon-leaf { + background-position: -48px -120px; +} + +.icon-fire { + background-position: -72px -120px; +} + +.icon-eye-open { + background-position: -96px -120px; +} + +.icon-eye-close { + background-position: -120px -120px; +} + +.icon-warning-sign { + background-position: -144px -120px; +} + +.icon-plane { + background-position: -168px -120px; +} + +.icon-calendar { + background-position: -192px -120px; +} + +.icon-random { + width: 16px; + background-position: -216px -120px; +} + +.icon-comment { + background-position: -240px -120px; +} + +.icon-magnet { + background-position: -264px -120px; +} + +.icon-chevron-up { + background-position: -288px -120px; +} + +.icon-chevron-down { + background-position: -313px -119px; +} + +.icon-retweet { + background-position: -336px -120px; +} + +.icon-shopping-cart { + background-position: -360px -120px; +} + +.icon-folder-close { + width: 16px; + background-position: -384px -120px; +} + +.icon-folder-open { + width: 16px; + background-position: -408px -120px; +} + +.icon-resize-vertical { + background-position: -432px -119px; +} + +.icon-resize-horizontal { + background-position: -456px -118px; +} + +.icon-hdd { + background-position: 0 -144px; +} + +.icon-bullhorn { + background-position: -24px -144px; +} + +.icon-bell { + background-position: -48px -144px; +} + +.icon-certificate { + background-position: -72px -144px; +} + +.icon-thumbs-up { + background-position: -96px -144px; +} + +.icon-thumbs-down { + background-position: -120px -144px; +} + +.icon-hand-right { + background-position: -144px -144px; +} + +.icon-hand-left { + background-position: -168px -144px; +} + +.icon-hand-up { + background-position: -192px -144px; +} + +.icon-hand-down { + background-position: -216px -144px; +} + +.icon-circle-arrow-right { + background-position: -240px -144px; +} + +.icon-circle-arrow-left { + background-position: -264px -144px; +} + +.icon-circle-arrow-up { + background-position: -288px -144px; +} + +.icon-circle-arrow-down { + background-position: -312px -144px; +} + +.icon-globe { + background-position: -336px -144px; +} + +.icon-wrench { + background-position: -360px -144px; +} + +.icon-tasks { + background-position: -384px -144px; +} + +.icon-filter { + background-position: -408px -144px; +} + +.icon-briefcase { + background-position: -432px -144px; +} + +.icon-fullscreen { + background-position: -456px -144px; +} + +.dropup, +.dropdown { + position: relative; +} + +.dropdown-toggle { + *margin-bottom: -3px; +} + +.dropdown-toggle:active, +.open .dropdown-toggle { + outline: 0; +} + +.caret { + display: inline-block; + width: 0; + height: 0; + vertical-align: top; + border-top: 4px solid #000000; + border-right: 4px solid transparent; + border-left: 4px solid transparent; + content: ""; +} + +.dropdown .caret { + margin-top: 8px; + margin-left: 2px; +} + +.dropdown-menu { + position: absolute; + top: 100%; + left: 0; + z-index: 1000; + display: none; + float: left; + min-width: 160px; + padding: 5px 0; + margin: 2px 0 0; + list-style: none; + background-color: #ffffff; + border: 1px solid #ccc; + border: 1px solid rgba(0, 0, 0, 0.2); + *border-right-width: 2px; + *border-bottom-width: 2px; + -webkit-border-radius: 6px; + -moz-border-radius: 6px; + border-radius: 6px; + -webkit-box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); + -moz-box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); + box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); + -webkit-background-clip: padding-box; + -moz-background-clip: padding; + background-clip: padding-box; +} + +.dropdown-menu.pull-right { + right: 0; + left: auto; +} + +.dropdown-menu .divider { + *width: 100%; + height: 1px; + margin: 9px 1px; + *margin: -5px 0 5px; + overflow: hidden; + background-color: #e5e5e5; + border-bottom: 1px solid #ffffff; +} + +.dropdown-menu > li > a { + display: block; + padding: 3px 20px; + clear: both; + font-weight: normal; + line-height: 20px; + color: #333333; + white-space: nowrap; +} + +.dropdown-menu > li > a:hover, +.dropdown-menu > li > a:focus, +.dropdown-submenu:hover > a, +.dropdown-submenu:focus > a { + color: #ffffff; + text-decoration: none; + background-color: #0081c2; + background-image: -moz-linear-gradient(top, #0088cc, #0077b3); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#0088cc), to(#0077b3)); + background-image: -webkit-linear-gradient(top, #0088cc, #0077b3); + background-image: -o-linear-gradient(top, #0088cc, #0077b3); + background-image: linear-gradient(to bottom, #0088cc, #0077b3); + background-repeat: repeat-x; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff0088cc', endColorstr='#ff0077b3', GradientType=0); +} + +.dropdown-menu > .active > a, +.dropdown-menu > .active > a:hover, +.dropdown-menu > .active > a:focus { + color: #ffffff; + text-decoration: none; + background-color: #0081c2; + background-image: -moz-linear-gradient(top, #0088cc, #0077b3); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#0088cc), to(#0077b3)); + background-image: -webkit-linear-gradient(top, #0088cc, #0077b3); + background-image: -o-linear-gradient(top, #0088cc, #0077b3); + background-image: linear-gradient(to bottom, #0088cc, #0077b3); + background-repeat: repeat-x; + outline: 0; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff0088cc', endColorstr='#ff0077b3', GradientType=0); +} + +.dropdown-menu > .disabled > a, +.dropdown-menu > .disabled > a:hover, +.dropdown-menu > .disabled > a:focus { + color: #999999; +} + +.dropdown-menu > .disabled > a:hover, +.dropdown-menu > .disabled > a:focus { + text-decoration: none; + cursor: default; + background-color: transparent; + background-image: none; + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); +} + +.open { + *z-index: 1000; +} + +.open > .dropdown-menu { + display: block; +} + +.dropdown-backdrop { + position: fixed; + top: 0; + right: 0; + bottom: 0; + left: 0; + z-index: 990; +} + +.pull-right > .dropdown-menu { + right: 0; + left: auto; +} + +.dropup .caret, +.navbar-fixed-bottom .dropdown .caret { + border-top: 0; + border-bottom: 4px solid #000000; + content: ""; +} + +.dropup .dropdown-menu, +.navbar-fixed-bottom .dropdown .dropdown-menu { + top: auto; + bottom: 100%; + margin-bottom: 1px; +} + +.dropdown-submenu { + position: relative; +} + +.dropdown-submenu > .dropdown-menu { + top: 0; + left: 100%; + margin-top: -6px; + margin-left: -1px; + -webkit-border-radius: 0 6px 6px 6px; + -moz-border-radius: 0 6px 6px 6px; + border-radius: 0 6px 6px 6px; +} + +.dropdown-submenu:hover > .dropdown-menu { + display: block; +} + +.dropup .dropdown-submenu > .dropdown-menu { + top: auto; + bottom: 0; + margin-top: 0; + margin-bottom: -2px; + -webkit-border-radius: 5px 5px 5px 0; + -moz-border-radius: 5px 5px 5px 0; + border-radius: 5px 5px 5px 0; +} + +.dropdown-submenu > a:after { + display: block; + float: right; + width: 0; + height: 0; + margin-top: 5px; + margin-right: -10px; + border-color: transparent; + border-left-color: #cccccc; + border-style: solid; + border-width: 5px 0 5px 5px; + content: " "; +} + +.dropdown-submenu:hover > a:after { + border-left-color: #ffffff; +} + +.dropdown-submenu.pull-left { + float: none; +} + +.dropdown-submenu.pull-left > .dropdown-menu { + left: -100%; + margin-left: 10px; + -webkit-border-radius: 6px 0 6px 6px; + -moz-border-radius: 6px 0 6px 6px; + border-radius: 6px 0 6px 6px; +} + +.dropdown .dropdown-menu .nav-header { + padding-right: 20px; + padding-left: 20px; +} + +.typeahead { + z-index: 1051; + margin-top: 2px; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; +} + +.well { + min-height: 20px; + padding: 19px; + margin-bottom: 20px; + background-color: #f5f5f5; + border: 1px solid #e3e3e3; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; + -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.05); + -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.05); + box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.05); +} + +.well blockquote { + border-color: #ddd; + border-color: rgba(0, 0, 0, 0.15); +} + +.well-large { + padding: 24px; + -webkit-border-radius: 6px; + -moz-border-radius: 6px; + border-radius: 6px; +} + +.well-small { + padding: 9px; + -webkit-border-radius: 3px; + -moz-border-radius: 3px; + border-radius: 3px; +} + +.fade { + opacity: 0; + -webkit-transition: opacity 0.15s linear; + -moz-transition: opacity 0.15s linear; + -o-transition: opacity 0.15s linear; + transition: opacity 0.15s linear; +} + +.fade.in { + opacity: 1; +} + +.collapse { + position: relative; + height: 0; + overflow: hidden; + -webkit-transition: height 0.35s ease; + -moz-transition: height 0.35s ease; + -o-transition: height 0.35s ease; + transition: height 0.35s ease; +} + +.collapse.in { + height: auto; +} + +.close { + float: right; + font-size: 20px; + font-weight: bold; + line-height: 20px; + color: #000000; + text-shadow: 0 1px 0 #ffffff; + opacity: 0.2; + filter: alpha(opacity=20); +} + +.close:hover, +.close:focus { + color: #000000; + text-decoration: none; + cursor: pointer; + opacity: 0.4; + filter: alpha(opacity=40); +} + +button.close { + padding: 0; + cursor: pointer; + background: transparent; + border: 0; + -webkit-appearance: none; +} + +.btn { + display: inline-block; + *display: inline; + padding: 4px 12px; + margin-bottom: 0; + *margin-left: .3em; + font-size: 14px; + line-height: 20px; + color: #333333; + text-align: center; + text-shadow: 0 1px 1px rgba(255, 255, 255, 0.75); + vertical-align: middle; + cursor: pointer; + background-color: #f5f5f5; + *background-color: #e6e6e6; + background-image: -moz-linear-gradient(top, #ffffff, #e6e6e6); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#ffffff), to(#e6e6e6)); + background-image: -webkit-linear-gradient(top, #ffffff, #e6e6e6); + background-image: -o-linear-gradient(top, #ffffff, #e6e6e6); + background-image: linear-gradient(to bottom, #ffffff, #e6e6e6); + background-repeat: repeat-x; + border: 1px solid #cccccc; + *border: 0; + border-color: #e6e6e6 #e6e6e6 #bfbfbf; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + border-bottom-color: #b3b3b3; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ffffffff', endColorstr='#ffe6e6e6', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); + *zoom: 1; + -webkit-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); + -moz-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); + box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); +} + +.btn:hover, +.btn:focus, +.btn:active, +.btn.active, +.btn.disabled, +.btn[disabled] { + color: #333333; + background-color: #e6e6e6; + *background-color: #d9d9d9; +} + +.btn:active, +.btn.active { + background-color: #cccccc \9; +} + +.btn:first-child { + *margin-left: 0; +} + +.btn:hover, +.btn:focus { + color: #333333; + text-decoration: none; + background-position: 0 -15px; + -webkit-transition: background-position 0.1s linear; + -moz-transition: background-position 0.1s linear; + -o-transition: background-position 0.1s linear; + transition: background-position 0.1s linear; +} + +.btn:focus { + outline: thin dotted #333; + outline: 5px auto -webkit-focus-ring-color; + outline-offset: -2px; +} + +.btn.active, +.btn:active { + background-image: none; + outline: 0; + -webkit-box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); + -moz-box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); + box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); +} + +.btn.disabled, +.btn[disabled] { + cursor: default; + background-image: none; + opacity: 0.65; + filter: alpha(opacity=65); + -webkit-box-shadow: none; + -moz-box-shadow: none; + box-shadow: none; +} + +.btn-large { + padding: 11px 19px; + font-size: 17.5px; + -webkit-border-radius: 6px; + -moz-border-radius: 6px; + border-radius: 6px; +} + +.btn-large [class^="icon-"], +.btn-large [class*=" icon-"] { + margin-top: 4px; +} + +.btn-small { + padding: 2px 10px; + font-size: 11.9px; + -webkit-border-radius: 3px; + -moz-border-radius: 3px; + border-radius: 3px; +} + +.btn-small [class^="icon-"], +.btn-small [class*=" icon-"] { + margin-top: 0; +} + +.btn-mini [class^="icon-"], +.btn-mini [class*=" icon-"] { + margin-top: -1px; +} + +.btn-mini { + padding: 0 6px; + font-size: 10.5px; + -webkit-border-radius: 3px; + -moz-border-radius: 3px; + border-radius: 3px; +} + +.btn-block { + display: block; + width: 100%; + padding-right: 0; + padding-left: 0; + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; +} + +.btn-block + .btn-block { + margin-top: 5px; +} + +input[type="submit"].btn-block, +input[type="reset"].btn-block, +input[type="button"].btn-block { + width: 100%; +} + +.btn-primary.active, +.btn-warning.active, +.btn-danger.active, +.btn-success.active, +.btn-info.active, +.btn-inverse.active { + color: rgba(255, 255, 255, 0.75); +} + +.btn-primary { + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #006dcc; + *background-color: #0044cc; + background-image: -moz-linear-gradient(top, #0088cc, #0044cc); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#0088cc), to(#0044cc)); + background-image: -webkit-linear-gradient(top, #0088cc, #0044cc); + background-image: -o-linear-gradient(top, #0088cc, #0044cc); + background-image: linear-gradient(to bottom, #0088cc, #0044cc); + background-repeat: repeat-x; + border-color: #0044cc #0044cc #002a80; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff0088cc', endColorstr='#ff0044cc', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); +} + +.btn-primary:hover, +.btn-primary:focus, +.btn-primary:active, +.btn-primary.active, +.btn-primary.disabled, +.btn-primary[disabled] { + color: #ffffff; + background-color: #0044cc; + *background-color: #003bb3; +} + +.btn-primary:active, +.btn-primary.active { + background-color: #003399 \9; +} + +.btn-warning { + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #faa732; + *background-color: #f89406; + background-image: -moz-linear-gradient(top, #fbb450, #f89406); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#fbb450), to(#f89406)); + background-image: -webkit-linear-gradient(top, #fbb450, #f89406); + background-image: -o-linear-gradient(top, #fbb450, #f89406); + background-image: linear-gradient(to bottom, #fbb450, #f89406); + background-repeat: repeat-x; + border-color: #f89406 #f89406 #ad6704; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#fffbb450', endColorstr='#fff89406', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); +} + +.btn-warning:hover, +.btn-warning:focus, +.btn-warning:active, +.btn-warning.active, +.btn-warning.disabled, +.btn-warning[disabled] { + color: #ffffff; + background-color: #f89406; + *background-color: #df8505; +} + +.btn-warning:active, +.btn-warning.active { + background-color: #c67605 \9; +} + +.btn-danger { + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #da4f49; + *background-color: #bd362f; + background-image: -moz-linear-gradient(top, #ee5f5b, #bd362f); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#ee5f5b), to(#bd362f)); + background-image: -webkit-linear-gradient(top, #ee5f5b, #bd362f); + background-image: -o-linear-gradient(top, #ee5f5b, #bd362f); + background-image: linear-gradient(to bottom, #ee5f5b, #bd362f); + background-repeat: repeat-x; + border-color: #bd362f #bd362f #802420; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ffee5f5b', endColorstr='#ffbd362f', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); +} + +.btn-danger:hover, +.btn-danger:focus, +.btn-danger:active, +.btn-danger.active, +.btn-danger.disabled, +.btn-danger[disabled] { + color: #ffffff; + background-color: #bd362f; + *background-color: #a9302a; +} + +.btn-danger:active, +.btn-danger.active { + background-color: #942a25 \9; +} + +.btn-success { + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #5bb75b; + *background-color: #51a351; + background-image: -moz-linear-gradient(top, #62c462, #51a351); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#62c462), to(#51a351)); + background-image: -webkit-linear-gradient(top, #62c462, #51a351); + background-image: -o-linear-gradient(top, #62c462, #51a351); + background-image: linear-gradient(to bottom, #62c462, #51a351); + background-repeat: repeat-x; + border-color: #51a351 #51a351 #387038; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff62c462', endColorstr='#ff51a351', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); +} + +.btn-success:hover, +.btn-success:focus, +.btn-success:active, +.btn-success.active, +.btn-success.disabled, +.btn-success[disabled] { + color: #ffffff; + background-color: #51a351; + *background-color: #499249; +} + +.btn-success:active, +.btn-success.active { + background-color: #408140 \9; +} + +.btn-info { + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #49afcd; + *background-color: #2f96b4; + background-image: -moz-linear-gradient(top, #5bc0de, #2f96b4); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#5bc0de), to(#2f96b4)); + background-image: -webkit-linear-gradient(top, #5bc0de, #2f96b4); + background-image: -o-linear-gradient(top, #5bc0de, #2f96b4); + background-image: linear-gradient(to bottom, #5bc0de, #2f96b4); + background-repeat: repeat-x; + border-color: #2f96b4 #2f96b4 #1f6377; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff5bc0de', endColorstr='#ff2f96b4', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); +} + +.btn-info:hover, +.btn-info:focus, +.btn-info:active, +.btn-info.active, +.btn-info.disabled, +.btn-info[disabled] { + color: #ffffff; + background-color: #2f96b4; + *background-color: #2a85a0; +} + +.btn-info:active, +.btn-info.active { + background-color: #24748c \9; +} + +.btn-inverse { + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #363636; + *background-color: #222222; + background-image: -moz-linear-gradient(top, #444444, #222222); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#444444), to(#222222)); + background-image: -webkit-linear-gradient(top, #444444, #222222); + background-image: -o-linear-gradient(top, #444444, #222222); + background-image: linear-gradient(to bottom, #444444, #222222); + background-repeat: repeat-x; + border-color: #222222 #222222 #000000; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff444444', endColorstr='#ff222222', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); +} + +.btn-inverse:hover, +.btn-inverse:focus, +.btn-inverse:active, +.btn-inverse.active, +.btn-inverse.disabled, +.btn-inverse[disabled] { + color: #ffffff; + background-color: #222222; + *background-color: #151515; +} + +.btn-inverse:active, +.btn-inverse.active { + background-color: #080808 \9; +} + +button.btn, +input[type="submit"].btn { + *padding-top: 3px; + *padding-bottom: 3px; +} + +button.btn::-moz-focus-inner, +input[type="submit"].btn::-moz-focus-inner { + padding: 0; + border: 0; +} + +button.btn.btn-large, +input[type="submit"].btn.btn-large { + *padding-top: 7px; + *padding-bottom: 7px; +} + +button.btn.btn-small, +input[type="submit"].btn.btn-small { + *padding-top: 3px; + *padding-bottom: 3px; +} + +button.btn.btn-mini, +input[type="submit"].btn.btn-mini { + *padding-top: 1px; + *padding-bottom: 1px; +} + +.btn-link, +.btn-link:active, +.btn-link[disabled] { + background-color: transparent; + background-image: none; + -webkit-box-shadow: none; + -moz-box-shadow: none; + box-shadow: none; +} + +.btn-link { + color: #0088cc; + cursor: pointer; + border-color: transparent; + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.btn-link:hover, +.btn-link:focus { + color: #005580; + text-decoration: underline; + background-color: transparent; +} + +.btn-link[disabled]:hover, +.btn-link[disabled]:focus { + color: #333333; + text-decoration: none; +} + +.btn-group { + position: relative; + display: inline-block; + *display: inline; + *margin-left: .3em; + font-size: 0; + white-space: nowrap; + vertical-align: middle; + *zoom: 1; +} + +.btn-group:first-child { + *margin-left: 0; +} + +.btn-group + .btn-group { + margin-left: 5px; +} + +.btn-toolbar { + margin-top: 10px; + margin-bottom: 10px; + font-size: 0; +} + +.btn-toolbar > .btn + .btn, +.btn-toolbar > .btn-group + .btn, +.btn-toolbar > .btn + .btn-group { + margin-left: 5px; +} + +.btn-group > .btn { + position: relative; + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.btn-group > .btn + .btn { + margin-left: -1px; +} + +.btn-group > .btn, +.btn-group > .dropdown-menu, +.btn-group > .popover { + font-size: 14px; +} + +.btn-group > .btn-mini { + font-size: 10.5px; +} + +.btn-group > .btn-small { + font-size: 11.9px; +} + +.btn-group > .btn-large { + font-size: 17.5px; +} + +.btn-group > .btn:first-child { + margin-left: 0; + -webkit-border-bottom-left-radius: 4px; + border-bottom-left-radius: 4px; + -webkit-border-top-left-radius: 4px; + border-top-left-radius: 4px; + -moz-border-radius-bottomleft: 4px; + -moz-border-radius-topleft: 4px; +} + +.btn-group > .btn:last-child, +.btn-group > .dropdown-toggle { + -webkit-border-top-right-radius: 4px; + border-top-right-radius: 4px; + -webkit-border-bottom-right-radius: 4px; + border-bottom-right-radius: 4px; + -moz-border-radius-topright: 4px; + -moz-border-radius-bottomright: 4px; +} + +.btn-group > .btn.large:first-child { + margin-left: 0; + -webkit-border-bottom-left-radius: 6px; + border-bottom-left-radius: 6px; + -webkit-border-top-left-radius: 6px; + border-top-left-radius: 6px; + -moz-border-radius-bottomleft: 6px; + -moz-border-radius-topleft: 6px; +} + +.btn-group > .btn.large:last-child, +.btn-group > .large.dropdown-toggle { + -webkit-border-top-right-radius: 6px; + border-top-right-radius: 6px; + -webkit-border-bottom-right-radius: 6px; + border-bottom-right-radius: 6px; + -moz-border-radius-topright: 6px; + -moz-border-radius-bottomright: 6px; +} + +.btn-group > .btn:hover, +.btn-group > .btn:focus, +.btn-group > .btn:active, +.btn-group > .btn.active { + z-index: 2; +} + +.btn-group .dropdown-toggle:active, +.btn-group.open .dropdown-toggle { + outline: 0; +} + +.btn-group > .btn + .dropdown-toggle { + *padding-top: 5px; + padding-right: 8px; + *padding-bottom: 5px; + padding-left: 8px; + -webkit-box-shadow: inset 1px 0 0 rgba(255, 255, 255, 0.125), inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); + -moz-box-shadow: inset 1px 0 0 rgba(255, 255, 255, 0.125), inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); + box-shadow: inset 1px 0 0 rgba(255, 255, 255, 0.125), inset 0 1px 0 rgba(255, 255, 255, 0.2), 0 1px 2px rgba(0, 0, 0, 0.05); +} + +.btn-group > .btn-mini + .dropdown-toggle { + *padding-top: 2px; + padding-right: 5px; + *padding-bottom: 2px; + padding-left: 5px; +} + +.btn-group > .btn-small + .dropdown-toggle { + *padding-top: 5px; + *padding-bottom: 4px; +} + +.btn-group > .btn-large + .dropdown-toggle { + *padding-top: 7px; + padding-right: 12px; + *padding-bottom: 7px; + padding-left: 12px; +} + +.btn-group.open .dropdown-toggle { + background-image: none; + -webkit-box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); + -moz-box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); + box-shadow: inset 0 2px 4px rgba(0, 0, 0, 0.15), 0 1px 2px rgba(0, 0, 0, 0.05); +} + +.btn-group.open .btn.dropdown-toggle { + background-color: #e6e6e6; +} + +.btn-group.open .btn-primary.dropdown-toggle { + background-color: #0044cc; +} + +.btn-group.open .btn-warning.dropdown-toggle { + background-color: #f89406; +} + +.btn-group.open .btn-danger.dropdown-toggle { + background-color: #bd362f; +} + +.btn-group.open .btn-success.dropdown-toggle { + background-color: #51a351; +} + +.btn-group.open .btn-info.dropdown-toggle { + background-color: #2f96b4; +} + +.btn-group.open .btn-inverse.dropdown-toggle { + background-color: #222222; +} + +.btn .caret { + margin-top: 8px; + margin-left: 0; +} + +.btn-large .caret { + margin-top: 6px; +} + +.btn-large .caret { + border-top-width: 5px; + border-right-width: 5px; + border-left-width: 5px; +} + +.btn-mini .caret, +.btn-small .caret { + margin-top: 8px; +} + +.dropup .btn-large .caret { + border-bottom-width: 5px; +} + +.btn-primary .caret, +.btn-warning .caret, +.btn-danger .caret, +.btn-info .caret, +.btn-success .caret, +.btn-inverse .caret { + border-top-color: #ffffff; + border-bottom-color: #ffffff; +} + +.btn-group-vertical { + display: inline-block; + *display: inline; + /* IE7 inline-block hack */ + + *zoom: 1; +} + +.btn-group-vertical > .btn { + display: block; + float: none; + max-width: 100%; + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.btn-group-vertical > .btn + .btn { + margin-top: -1px; + margin-left: 0; +} + +.btn-group-vertical > .btn:first-child { + -webkit-border-radius: 4px 4px 0 0; + -moz-border-radius: 4px 4px 0 0; + border-radius: 4px 4px 0 0; +} + +.btn-group-vertical > .btn:last-child { + -webkit-border-radius: 0 0 4px 4px; + -moz-border-radius: 0 0 4px 4px; + border-radius: 0 0 4px 4px; +} + +.btn-group-vertical > .btn-large:first-child { + -webkit-border-radius: 6px 6px 0 0; + -moz-border-radius: 6px 6px 0 0; + border-radius: 6px 6px 0 0; +} + +.btn-group-vertical > .btn-large:last-child { + -webkit-border-radius: 0 0 6px 6px; + -moz-border-radius: 0 0 6px 6px; + border-radius: 0 0 6px 6px; +} + +.alert { + padding: 8px 35px 8px 14px; + margin-bottom: 20px; + text-shadow: 0 1px 0 rgba(255, 255, 255, 0.5); + background-color: #fcf8e3; + border: 1px solid #fbeed5; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; +} + +.alert, +.alert h4 { + color: #c09853; +} + +.alert h4 { + margin: 0; +} + +.alert .close { + position: relative; + top: -2px; + right: -21px; + line-height: 20px; +} + +.alert-success { + color: #468847; + background-color: #dff0d8; + border-color: #d6e9c6; +} + +.alert-success h4 { + color: #468847; +} + +.alert-danger, +.alert-error { + color: #b94a48; + background-color: #f2dede; + border-color: #eed3d7; +} + +.alert-danger h4, +.alert-error h4 { + color: #b94a48; +} + +.alert-info { + color: #3a87ad; + background-color: #d9edf7; + border-color: #bce8f1; +} + +.alert-info h4 { + color: #3a87ad; +} + +.alert-block { + padding-top: 14px; + padding-bottom: 14px; +} + +.alert-block > p, +.alert-block > ul { + margin-bottom: 0; +} + +.alert-block p + p { + margin-top: 5px; +} + +.nav { + margin-bottom: 20px; + margin-left: 0; + list-style: none; +} + +.nav > li > a { + display: block; +} + +.nav > li > a:hover, +.nav > li > a:focus { + text-decoration: none; + background-color: #eeeeee; +} + +.nav > li > a > img { + max-width: none; +} + +.nav > .pull-right { + float: right; +} + +.nav-header { + display: block; + padding: 3px 15px; + font-size: 11px; + font-weight: bold; + line-height: 20px; + color: #999999; + text-shadow: 0 1px 0 rgba(255, 255, 255, 0.5); + text-transform: uppercase; +} + +.nav li + .nav-header { + margin-top: 9px; +} + +.nav-list { + padding-right: 15px; + padding-left: 15px; + margin-bottom: 0; +} + +.nav-list > li > a, +.nav-list .nav-header { + margin-right: -15px; + margin-left: -15px; + text-shadow: 0 1px 0 rgba(255, 255, 255, 0.5); +} + +.nav-list > li > a { + padding: 3px 15px; +} + +.nav-list > .active > a, +.nav-list > .active > a:hover, +.nav-list > .active > a:focus { + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.2); + background-color: #0088cc; +} + +.nav-list [class^="icon-"], +.nav-list [class*=" icon-"] { + margin-right: 2px; +} + +.nav-list .divider { + *width: 100%; + height: 1px; + margin: 9px 1px; + *margin: -5px 0 5px; + overflow: hidden; + background-color: #e5e5e5; + border-bottom: 1px solid #ffffff; +} + +.nav-tabs, +.nav-pills { + *zoom: 1; +} + +.nav-tabs:before, +.nav-pills:before, +.nav-tabs:after, +.nav-pills:after { + display: table; + line-height: 0; + content: ""; +} + +.nav-tabs:after, +.nav-pills:after { + clear: both; +} + +.nav-tabs > li, +.nav-pills > li { + float: left; +} + +.nav-tabs > li > a, +.nav-pills > li > a { + padding-right: 12px; + padding-left: 12px; + margin-right: 2px; + line-height: 14px; +} + +.nav-tabs { + border-bottom: 1px solid #ddd; +} + +.nav-tabs > li { + margin-bottom: -1px; +} + +.nav-tabs > li > a { + padding-top: 8px; + padding-bottom: 8px; + line-height: 20px; + border: 1px solid transparent; + -webkit-border-radius: 4px 4px 0 0; + -moz-border-radius: 4px 4px 0 0; + border-radius: 4px 4px 0 0; +} + +.nav-tabs > li > a:hover, +.nav-tabs > li > a:focus { + border-color: #eeeeee #eeeeee #dddddd; +} + +.nav-tabs > .active > a, +.nav-tabs > .active > a:hover, +.nav-tabs > .active > a:focus { + color: #555555; + cursor: default; + background-color: #ffffff; + border: 1px solid #ddd; + border-bottom-color: transparent; +} + +.nav-pills > li > a { + padding-top: 8px; + padding-bottom: 8px; + margin-top: 2px; + margin-bottom: 2px; + -webkit-border-radius: 5px; + -moz-border-radius: 5px; + border-radius: 5px; +} + +.nav-pills > .active > a, +.nav-pills > .active > a:hover, +.nav-pills > .active > a:focus { + color: #ffffff; + background-color: #0088cc; +} + +.nav-stacked > li { + float: none; +} + +.nav-stacked > li > a { + margin-right: 0; +} + +.nav-tabs.nav-stacked { + border-bottom: 0; +} + +.nav-tabs.nav-stacked > li > a { + border: 1px solid #ddd; + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.nav-tabs.nav-stacked > li:first-child > a { + -webkit-border-top-right-radius: 4px; + border-top-right-radius: 4px; + -webkit-border-top-left-radius: 4px; + border-top-left-radius: 4px; + -moz-border-radius-topright: 4px; + -moz-border-radius-topleft: 4px; +} + +.nav-tabs.nav-stacked > li:last-child > a { + -webkit-border-bottom-right-radius: 4px; + border-bottom-right-radius: 4px; + -webkit-border-bottom-left-radius: 4px; + border-bottom-left-radius: 4px; + -moz-border-radius-bottomright: 4px; + -moz-border-radius-bottomleft: 4px; +} + +.nav-tabs.nav-stacked > li > a:hover, +.nav-tabs.nav-stacked > li > a:focus { + z-index: 2; + border-color: #ddd; +} + +.nav-pills.nav-stacked > li > a { + margin-bottom: 3px; +} + +.nav-pills.nav-stacked > li:last-child > a { + margin-bottom: 1px; +} + +.nav-tabs .dropdown-menu { + -webkit-border-radius: 0 0 6px 6px; + -moz-border-radius: 0 0 6px 6px; + border-radius: 0 0 6px 6px; +} + +.nav-pills .dropdown-menu { + -webkit-border-radius: 6px; + -moz-border-radius: 6px; + border-radius: 6px; +} + +.nav .dropdown-toggle .caret { + margin-top: 6px; + border-top-color: #0088cc; + border-bottom-color: #0088cc; +} + +.nav .dropdown-toggle:hover .caret, +.nav .dropdown-toggle:focus .caret { + border-top-color: #005580; + border-bottom-color: #005580; +} + +/* move down carets for tabs */ + +.nav-tabs .dropdown-toggle .caret { + margin-top: 8px; +} + +.nav .active .dropdown-toggle .caret { + border-top-color: #fff; + border-bottom-color: #fff; +} + +.nav-tabs .active .dropdown-toggle .caret { + border-top-color: #555555; + border-bottom-color: #555555; +} + +.nav > .dropdown.active > a:hover, +.nav > .dropdown.active > a:focus { + cursor: pointer; +} + +.nav-tabs .open .dropdown-toggle, +.nav-pills .open .dropdown-toggle, +.nav > li.dropdown.open.active > a:hover, +.nav > li.dropdown.open.active > a:focus { + color: #ffffff; + background-color: #999999; + border-color: #999999; +} + +.nav li.dropdown.open .caret, +.nav li.dropdown.open.active .caret, +.nav li.dropdown.open a:hover .caret, +.nav li.dropdown.open a:focus .caret { + border-top-color: #ffffff; + border-bottom-color: #ffffff; + opacity: 1; + filter: alpha(opacity=100); +} + +.tabs-stacked .open > a:hover, +.tabs-stacked .open > a:focus { + border-color: #999999; +} + +.tabbable { + *zoom: 1; +} + +.tabbable:before, +.tabbable:after { + display: table; + line-height: 0; + content: ""; +} + +.tabbable:after { + clear: both; +} + +.tab-content { + overflow: auto; +} + +.tabs-below > .nav-tabs, +.tabs-right > .nav-tabs, +.tabs-left > .nav-tabs { + border-bottom: 0; +} + +.tab-content > .tab-pane, +.pill-content > .pill-pane { + display: none; +} + +.tab-content > .active, +.pill-content > .active { + display: block; +} + +.tabs-below > .nav-tabs { + border-top: 1px solid #ddd; +} + +.tabs-below > .nav-tabs > li { + margin-top: -1px; + margin-bottom: 0; +} + +.tabs-below > .nav-tabs > li > a { + -webkit-border-radius: 0 0 4px 4px; + -moz-border-radius: 0 0 4px 4px; + border-radius: 0 0 4px 4px; +} + +.tabs-below > .nav-tabs > li > a:hover, +.tabs-below > .nav-tabs > li > a:focus { + border-top-color: #ddd; + border-bottom-color: transparent; +} + +.tabs-below > .nav-tabs > .active > a, +.tabs-below > .nav-tabs > .active > a:hover, +.tabs-below > .nav-tabs > .active > a:focus { + border-color: transparent #ddd #ddd #ddd; +} + +.tabs-left > .nav-tabs > li, +.tabs-right > .nav-tabs > li { + float: none; +} + +.tabs-left > .nav-tabs > li > a, +.tabs-right > .nav-tabs > li > a { + min-width: 74px; + margin-right: 0; + margin-bottom: 3px; +} + +.tabs-left > .nav-tabs { + float: left; + margin-right: 19px; + border-right: 1px solid #ddd; +} + +.tabs-left > .nav-tabs > li > a { + margin-right: -1px; + -webkit-border-radius: 4px 0 0 4px; + -moz-border-radius: 4px 0 0 4px; + border-radius: 4px 0 0 4px; +} + +.tabs-left > .nav-tabs > li > a:hover, +.tabs-left > .nav-tabs > li > a:focus { + border-color: #eeeeee #dddddd #eeeeee #eeeeee; +} + +.tabs-left > .nav-tabs .active > a, +.tabs-left > .nav-tabs .active > a:hover, +.tabs-left > .nav-tabs .active > a:focus { + border-color: #ddd transparent #ddd #ddd; + *border-right-color: #ffffff; +} + +.tabs-right > .nav-tabs { + float: right; + margin-left: 19px; + border-left: 1px solid #ddd; +} + +.tabs-right > .nav-tabs > li > a { + margin-left: -1px; + -webkit-border-radius: 0 4px 4px 0; + -moz-border-radius: 0 4px 4px 0; + border-radius: 0 4px 4px 0; +} + +.tabs-right > .nav-tabs > li > a:hover, +.tabs-right > .nav-tabs > li > a:focus { + border-color: #eeeeee #eeeeee #eeeeee #dddddd; +} + +.tabs-right > .nav-tabs .active > a, +.tabs-right > .nav-tabs .active > a:hover, +.tabs-right > .nav-tabs .active > a:focus { + border-color: #ddd #ddd #ddd transparent; + *border-left-color: #ffffff; +} + +.nav > .disabled > a { + color: #999999; +} + +.nav > .disabled > a:hover, +.nav > .disabled > a:focus { + text-decoration: none; + cursor: default; + background-color: transparent; +} + +.navbar { + *position: relative; + *z-index: 2; + margin-bottom: 20px; + overflow: visible; +} + +.navbar-inner { + min-height: 40px; + padding-right: 20px; + padding-left: 20px; + background-color: #fafafa; + background-image: -moz-linear-gradient(top, #ffffff, #f2f2f2); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#ffffff), to(#f2f2f2)); + background-image: -webkit-linear-gradient(top, #ffffff, #f2f2f2); + background-image: -o-linear-gradient(top, #ffffff, #f2f2f2); + background-image: linear-gradient(to bottom, #ffffff, #f2f2f2); + background-repeat: repeat-x; + border: 1px solid #d4d4d4; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ffffffff', endColorstr='#fff2f2f2', GradientType=0); + *zoom: 1; + -webkit-box-shadow: 0 1px 4px rgba(0, 0, 0, 0.065); + -moz-box-shadow: 0 1px 4px rgba(0, 0, 0, 0.065); + box-shadow: 0 1px 4px rgba(0, 0, 0, 0.065); +} + +.navbar-inner:before, +.navbar-inner:after { + display: table; + line-height: 0; + content: ""; +} + +.navbar-inner:after { + clear: both; +} + +.navbar .container { + width: auto; +} + +.nav-collapse.collapse { + height: auto; + overflow: visible; +} + +.navbar .brand { + display: block; + float: left; + padding: 10px 20px 10px; + margin-left: -20px; + font-size: 20px; + font-weight: 200; + color: #777777; + text-shadow: 0 1px 0 #ffffff; +} + +.navbar .brand:hover, +.navbar .brand:focus { + text-decoration: none; +} + +.navbar-text { + margin-bottom: 0; + line-height: 40px; + color: #777777; +} + +.navbar-link { + color: #777777; +} + +.navbar-link:hover, +.navbar-link:focus { + color: #333333; +} + +.navbar .divider-vertical { + height: 40px; + margin: 0 9px; + border-right: 1px solid #ffffff; + border-left: 1px solid #f2f2f2; +} + +.navbar .btn, +.navbar .btn-group { + margin-top: 5px; +} + +.navbar .btn-group .btn, +.navbar .input-prepend .btn, +.navbar .input-append .btn, +.navbar .input-prepend .btn-group, +.navbar .input-append .btn-group { + margin-top: 0; +} + +.navbar-form { + margin-bottom: 0; + *zoom: 1; +} + +.navbar-form:before, +.navbar-form:after { + display: table; + line-height: 0; + content: ""; +} + +.navbar-form:after { + clear: both; +} + +.navbar-form input, +.navbar-form select, +.navbar-form .radio, +.navbar-form .checkbox { + margin-top: 5px; +} + +.navbar-form input, +.navbar-form select, +.navbar-form .btn { + display: inline-block; + margin-bottom: 0; +} + +.navbar-form input[type="image"], +.navbar-form input[type="checkbox"], +.navbar-form input[type="radio"] { + margin-top: 3px; +} + +.navbar-form .input-append, +.navbar-form .input-prepend { + margin-top: 5px; + white-space: nowrap; +} + +.navbar-form .input-append input, +.navbar-form .input-prepend input { + margin-top: 0; +} + +.navbar-search { + position: relative; + float: left; + margin-top: 5px; + margin-bottom: 0; +} + +.navbar-search .search-query { + padding: 4px 14px; + margin-bottom: 0; + font-family: "Helvetica Neue", Helvetica, Arial, sans-serif; + font-size: 13px; + font-weight: normal; + line-height: 1; + -webkit-border-radius: 15px; + -moz-border-radius: 15px; + border-radius: 15px; +} + +.navbar-static-top { + position: static; + margin-bottom: 0; +} + +.navbar-static-top .navbar-inner { + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.navbar-fixed-top, +.navbar-fixed-bottom { + position: fixed; + right: 0; + left: 0; + z-index: 1030; + margin-bottom: 0; +} + +.navbar-fixed-top .navbar-inner, +.navbar-static-top .navbar-inner { + border-width: 0 0 1px; +} + +.navbar-fixed-bottom .navbar-inner { + border-width: 1px 0 0; +} + +.navbar-fixed-top .navbar-inner, +.navbar-fixed-bottom .navbar-inner { + padding-right: 0; + padding-left: 0; + -webkit-border-radius: 0; + -moz-border-radius: 0; + border-radius: 0; +} + +.navbar-static-top .container, +.navbar-fixed-top .container, +.navbar-fixed-bottom .container { + width: 940px; +} + +.navbar-fixed-top { + top: 0; +} + +.navbar-fixed-top .navbar-inner, +.navbar-static-top .navbar-inner { + -webkit-box-shadow: 0 1px 10px rgba(0, 0, 0, 0.1); + -moz-box-shadow: 0 1px 10px rgba(0, 0, 0, 0.1); + box-shadow: 0 1px 10px rgba(0, 0, 0, 0.1); +} + +.navbar-fixed-bottom { + bottom: 0; +} + +.navbar-fixed-bottom .navbar-inner { + -webkit-box-shadow: 0 -1px 10px rgba(0, 0, 0, 0.1); + -moz-box-shadow: 0 -1px 10px rgba(0, 0, 0, 0.1); + box-shadow: 0 -1px 10px rgba(0, 0, 0, 0.1); +} + +.navbar .nav { + position: relative; + left: 0; + display: block; + float: left; + margin: 0 10px 0 0; +} + +.navbar .nav.pull-right { + float: right; + margin-right: 0; +} + +.navbar .nav > li { + float: left; +} + +.navbar .nav > li > a { + float: none; + padding: 10px 15px 10px; + color: #777777; + text-decoration: none; + text-shadow: 0 1px 0 #ffffff; +} + +.navbar .nav .dropdown-toggle .caret { + margin-top: 8px; +} + +.navbar .nav > li > a:focus, +.navbar .nav > li > a:hover { + color: #333333; + text-decoration: none; + background-color: transparent; +} + +.navbar .nav > .active > a, +.navbar .nav > .active > a:hover, +.navbar .nav > .active > a:focus { + color: #555555; + text-decoration: none; + background-color: #e5e5e5; + -webkit-box-shadow: inset 0 3px 8px rgba(0, 0, 0, 0.125); + -moz-box-shadow: inset 0 3px 8px rgba(0, 0, 0, 0.125); + box-shadow: inset 0 3px 8px rgba(0, 0, 0, 0.125); +} + +.navbar .btn-navbar { + display: none; + float: right; + padding: 7px 10px; + margin-right: 5px; + margin-left: 5px; + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #ededed; + *background-color: #e5e5e5; + background-image: -moz-linear-gradient(top, #f2f2f2, #e5e5e5); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#f2f2f2), to(#e5e5e5)); + background-image: -webkit-linear-gradient(top, #f2f2f2, #e5e5e5); + background-image: -o-linear-gradient(top, #f2f2f2, #e5e5e5); + background-image: linear-gradient(to bottom, #f2f2f2, #e5e5e5); + background-repeat: repeat-x; + border-color: #e5e5e5 #e5e5e5 #bfbfbf; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#fff2f2f2', endColorstr='#ffe5e5e5', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); + -webkit-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.075); + -moz-box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.075); + box-shadow: inset 0 1px 0 rgba(255, 255, 255, 0.1), 0 1px 0 rgba(255, 255, 255, 0.075); +} + +.navbar .btn-navbar:hover, +.navbar .btn-navbar:focus, +.navbar .btn-navbar:active, +.navbar .btn-navbar.active, +.navbar .btn-navbar.disabled, +.navbar .btn-navbar[disabled] { + color: #ffffff; + background-color: #e5e5e5; + *background-color: #d9d9d9; +} + +.navbar .btn-navbar:active, +.navbar .btn-navbar.active { + background-color: #cccccc \9; +} + +.navbar .btn-navbar .icon-bar { + display: block; + width: 18px; + height: 2px; + background-color: #f5f5f5; + -webkit-border-radius: 1px; + -moz-border-radius: 1px; + border-radius: 1px; + -webkit-box-shadow: 0 1px 0 rgba(0, 0, 0, 0.25); + -moz-box-shadow: 0 1px 0 rgba(0, 0, 0, 0.25); + box-shadow: 0 1px 0 rgba(0, 0, 0, 0.25); +} + +.btn-navbar .icon-bar + .icon-bar { + margin-top: 3px; +} + +.navbar .nav > li > .dropdown-menu:before { + position: absolute; + top: -7px; + left: 9px; + display: inline-block; + border-right: 7px solid transparent; + border-bottom: 7px solid #ccc; + border-left: 7px solid transparent; + border-bottom-color: rgba(0, 0, 0, 0.2); + content: ''; +} + +.navbar .nav > li > .dropdown-menu:after { + position: absolute; + top: -6px; + left: 10px; + display: inline-block; + border-right: 6px solid transparent; + border-bottom: 6px solid #ffffff; + border-left: 6px solid transparent; + content: ''; +} + +.navbar-fixed-bottom .nav > li > .dropdown-menu:before { + top: auto; + bottom: -7px; + border-top: 7px solid #ccc; + border-bottom: 0; + border-top-color: rgba(0, 0, 0, 0.2); +} + +.navbar-fixed-bottom .nav > li > .dropdown-menu:after { + top: auto; + bottom: -6px; + border-top: 6px solid #ffffff; + border-bottom: 0; +} + +.navbar .nav li.dropdown > a:hover .caret, +.navbar .nav li.dropdown > a:focus .caret { + border-top-color: #333333; + border-bottom-color: #333333; +} + +.navbar .nav li.dropdown.open > .dropdown-toggle, +.navbar .nav li.dropdown.active > .dropdown-toggle, +.navbar .nav li.dropdown.open.active > .dropdown-toggle { + color: #555555; + background-color: #e5e5e5; +} + +.navbar .nav li.dropdown > .dropdown-toggle .caret { + border-top-color: #777777; + border-bottom-color: #777777; +} + +.navbar .nav li.dropdown.open > .dropdown-toggle .caret, +.navbar .nav li.dropdown.active > .dropdown-toggle .caret, +.navbar .nav li.dropdown.open.active > .dropdown-toggle .caret { + border-top-color: #555555; + border-bottom-color: #555555; +} + +.navbar .pull-right > li > .dropdown-menu, +.navbar .nav > li > .dropdown-menu.pull-right { + right: 0; + left: auto; +} + +.navbar .pull-right > li > .dropdown-menu:before, +.navbar .nav > li > .dropdown-menu.pull-right:before { + right: 12px; + left: auto; +} + +.navbar .pull-right > li > .dropdown-menu:after, +.navbar .nav > li > .dropdown-menu.pull-right:after { + right: 13px; + left: auto; +} + +.navbar .pull-right > li > .dropdown-menu .dropdown-menu, +.navbar .nav > li > .dropdown-menu.pull-right .dropdown-menu { + right: 100%; + left: auto; + margin-right: -1px; + margin-left: 0; + -webkit-border-radius: 6px 0 6px 6px; + -moz-border-radius: 6px 0 6px 6px; + border-radius: 6px 0 6px 6px; +} + +.navbar-inverse .navbar-inner { + background-color: #1b1b1b; + background-image: -moz-linear-gradient(top, #222222, #111111); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#222222), to(#111111)); + background-image: -webkit-linear-gradient(top, #222222, #111111); + background-image: -o-linear-gradient(top, #222222, #111111); + background-image: linear-gradient(to bottom, #222222, #111111); + background-repeat: repeat-x; + border-color: #252525; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff222222', endColorstr='#ff111111', GradientType=0); +} + +.navbar-inverse .brand, +.navbar-inverse .nav > li > a { + color: #999999; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); +} + +.navbar-inverse .brand:hover, +.navbar-inverse .nav > li > a:hover, +.navbar-inverse .brand:focus, +.navbar-inverse .nav > li > a:focus { + color: #ffffff; +} + +.navbar-inverse .brand { + color: #999999; +} + +.navbar-inverse .navbar-text { + color: #999999; +} + +.navbar-inverse .nav > li > a:focus, +.navbar-inverse .nav > li > a:hover { + color: #ffffff; + background-color: transparent; +} + +.navbar-inverse .nav .active > a, +.navbar-inverse .nav .active > a:hover, +.navbar-inverse .nav .active > a:focus { + color: #ffffff; + background-color: #111111; +} + +.navbar-inverse .navbar-link { + color: #999999; +} + +.navbar-inverse .navbar-link:hover, +.navbar-inverse .navbar-link:focus { + color: #ffffff; +} + +.navbar-inverse .divider-vertical { + border-right-color: #222222; + border-left-color: #111111; +} + +.navbar-inverse .nav li.dropdown.open > .dropdown-toggle, +.navbar-inverse .nav li.dropdown.active > .dropdown-toggle, +.navbar-inverse .nav li.dropdown.open.active > .dropdown-toggle { + color: #ffffff; + background-color: #111111; +} + +.navbar-inverse .nav li.dropdown > a:hover .caret, +.navbar-inverse .nav li.dropdown > a:focus .caret { + border-top-color: #ffffff; + border-bottom-color: #ffffff; +} + +.navbar-inverse .nav li.dropdown > .dropdown-toggle .caret { + border-top-color: #999999; + border-bottom-color: #999999; +} + +.navbar-inverse .nav li.dropdown.open > .dropdown-toggle .caret, +.navbar-inverse .nav li.dropdown.active > .dropdown-toggle .caret, +.navbar-inverse .nav li.dropdown.open.active > .dropdown-toggle .caret { + border-top-color: #ffffff; + border-bottom-color: #ffffff; +} + +.navbar-inverse .navbar-search .search-query { + color: #ffffff; + background-color: #515151; + border-color: #111111; + -webkit-box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.1), 0 1px 0 rgba(255, 255, 255, 0.15); + -moz-box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.1), 0 1px 0 rgba(255, 255, 255, 0.15); + box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.1), 0 1px 0 rgba(255, 255, 255, 0.15); + -webkit-transition: none; + -moz-transition: none; + -o-transition: none; + transition: none; +} + +.navbar-inverse .navbar-search .search-query:-moz-placeholder { + color: #cccccc; +} + +.navbar-inverse .navbar-search .search-query:-ms-input-placeholder { + color: #cccccc; +} + +.navbar-inverse .navbar-search .search-query::-webkit-input-placeholder { + color: #cccccc; +} + +.navbar-inverse .navbar-search .search-query:focus, +.navbar-inverse .navbar-search .search-query.focused { + padding: 5px 15px; + color: #333333; + text-shadow: 0 1px 0 #ffffff; + background-color: #ffffff; + border: 0; + outline: 0; + -webkit-box-shadow: 0 0 3px rgba(0, 0, 0, 0.15); + -moz-box-shadow: 0 0 3px rgba(0, 0, 0, 0.15); + box-shadow: 0 0 3px rgba(0, 0, 0, 0.15); +} + +.navbar-inverse .btn-navbar { + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #0e0e0e; + *background-color: #040404; + background-image: -moz-linear-gradient(top, #151515, #040404); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#151515), to(#040404)); + background-image: -webkit-linear-gradient(top, #151515, #040404); + background-image: -o-linear-gradient(top, #151515, #040404); + background-image: linear-gradient(to bottom, #151515, #040404); + background-repeat: repeat-x; + border-color: #040404 #040404 #000000; + border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff151515', endColorstr='#ff040404', GradientType=0); + filter: progid:DXImageTransform.Microsoft.gradient(enabled=false); +} + +.navbar-inverse .btn-navbar:hover, +.navbar-inverse .btn-navbar:focus, +.navbar-inverse .btn-navbar:active, +.navbar-inverse .btn-navbar.active, +.navbar-inverse .btn-navbar.disabled, +.navbar-inverse .btn-navbar[disabled] { + color: #ffffff; + background-color: #040404; + *background-color: #000000; +} + +.navbar-inverse .btn-navbar:active, +.navbar-inverse .btn-navbar.active { + background-color: #000000 \9; +} + +.breadcrumb { + padding: 8px 15px; + margin: 0 0 20px; + list-style: none; + background-color: #f5f5f5; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; +} + +.breadcrumb > li { + display: inline-block; + *display: inline; + text-shadow: 0 1px 0 #ffffff; + *zoom: 1; +} + +.breadcrumb > li > .divider { + padding: 0 5px; + color: #ccc; +} + +.breadcrumb > .active { + color: #999999; +} + +.pagination { + margin: 20px 0; +} + +.pagination ul { + display: inline-block; + *display: inline; + margin-bottom: 0; + margin-left: 0; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; + *zoom: 1; + -webkit-box-shadow: 0 1px 2px rgba(0, 0, 0, 0.05); + -moz-box-shadow: 0 1px 2px rgba(0, 0, 0, 0.05); + box-shadow: 0 1px 2px rgba(0, 0, 0, 0.05); +} + +.pagination ul > li { + display: inline; +} + +.pagination ul > li > a, +.pagination ul > li > span { + float: left; + padding: 4px 12px; + line-height: 20px; + text-decoration: none; + background-color: #ffffff; + border: 1px solid #dddddd; + border-left-width: 0; +} + +.pagination ul > li > a:hover, +.pagination ul > li > a:focus, +.pagination ul > .active > a, +.pagination ul > .active > span { + background-color: #f5f5f5; +} + +.pagination ul > .active > a, +.pagination ul > .active > span { + color: #999999; + cursor: default; +} + +.pagination ul > .disabled > span, +.pagination ul > .disabled > a, +.pagination ul > .disabled > a:hover, +.pagination ul > .disabled > a:focus { + color: #999999; + cursor: default; + background-color: transparent; +} + +.pagination ul > li:first-child > a, +.pagination ul > li:first-child > span { + border-left-width: 1px; + -webkit-border-bottom-left-radius: 4px; + border-bottom-left-radius: 4px; + -webkit-border-top-left-radius: 4px; + border-top-left-radius: 4px; + -moz-border-radius-bottomleft: 4px; + -moz-border-radius-topleft: 4px; +} + +.pagination ul > li:last-child > a, +.pagination ul > li:last-child > span { + -webkit-border-top-right-radius: 4px; + border-top-right-radius: 4px; + -webkit-border-bottom-right-radius: 4px; + border-bottom-right-radius: 4px; + -moz-border-radius-topright: 4px; + -moz-border-radius-bottomright: 4px; +} + +.pagination-centered { + text-align: center; +} + +.pagination-right { + text-align: right; +} + +.pagination-large ul > li > a, +.pagination-large ul > li > span { + padding: 11px 19px; + font-size: 17.5px; +} + +.pagination-large ul > li:first-child > a, +.pagination-large ul > li:first-child > span { + -webkit-border-bottom-left-radius: 6px; + border-bottom-left-radius: 6px; + -webkit-border-top-left-radius: 6px; + border-top-left-radius: 6px; + -moz-border-radius-bottomleft: 6px; + -moz-border-radius-topleft: 6px; +} + +.pagination-large ul > li:last-child > a, +.pagination-large ul > li:last-child > span { + -webkit-border-top-right-radius: 6px; + border-top-right-radius: 6px; + -webkit-border-bottom-right-radius: 6px; + border-bottom-right-radius: 6px; + -moz-border-radius-topright: 6px; + -moz-border-radius-bottomright: 6px; +} + +.pagination-mini ul > li:first-child > a, +.pagination-small ul > li:first-child > a, +.pagination-mini ul > li:first-child > span, +.pagination-small ul > li:first-child > span { + -webkit-border-bottom-left-radius: 3px; + border-bottom-left-radius: 3px; + -webkit-border-top-left-radius: 3px; + border-top-left-radius: 3px; + -moz-border-radius-bottomleft: 3px; + -moz-border-radius-topleft: 3px; +} + +.pagination-mini ul > li:last-child > a, +.pagination-small ul > li:last-child > a, +.pagination-mini ul > li:last-child > span, +.pagination-small ul > li:last-child > span { + -webkit-border-top-right-radius: 3px; + border-top-right-radius: 3px; + -webkit-border-bottom-right-radius: 3px; + border-bottom-right-radius: 3px; + -moz-border-radius-topright: 3px; + -moz-border-radius-bottomright: 3px; +} + +.pagination-small ul > li > a, +.pagination-small ul > li > span { + padding: 2px 10px; + font-size: 11.9px; +} + +.pagination-mini ul > li > a, +.pagination-mini ul > li > span { + padding: 0 6px; + font-size: 10.5px; +} + +.pager { + margin: 20px 0; + text-align: center; + list-style: none; + *zoom: 1; +} + +.pager:before, +.pager:after { + display: table; + line-height: 0; + content: ""; +} + +.pager:after { + clear: both; +} + +.pager li { + display: inline; +} + +.pager li > a, +.pager li > span { + display: inline-block; + padding: 5px 14px; + background-color: #fff; + border: 1px solid #ddd; + -webkit-border-radius: 15px; + -moz-border-radius: 15px; + border-radius: 15px; +} + +.pager li > a:hover, +.pager li > a:focus { + text-decoration: none; + background-color: #f5f5f5; +} + +.pager .next > a, +.pager .next > span { + float: right; +} + +.pager .previous > a, +.pager .previous > span { + float: left; +} + +.pager .disabled > a, +.pager .disabled > a:hover, +.pager .disabled > a:focus, +.pager .disabled > span { + color: #999999; + cursor: default; + background-color: #fff; +} + +.modal-backdrop { + position: fixed; + top: 0; + right: 0; + bottom: 0; + left: 0; + z-index: 1040; + background-color: #000000; +} + +.modal-backdrop.fade { + opacity: 0; +} + +.modal-backdrop, +.modal-backdrop.fade.in { + opacity: 0.8; + filter: alpha(opacity=80); +} + +.modal { + position: fixed; + top: 10%; + left: 50%; + z-index: 1050; + width: 560px; + margin-left: -280px; + background-color: #ffffff; + border: 1px solid #999; + border: 1px solid rgba(0, 0, 0, 0.3); + *border: 1px solid #999; + -webkit-border-radius: 6px; + -moz-border-radius: 6px; + border-radius: 6px; + outline: none; + -webkit-box-shadow: 0 3px 7px rgba(0, 0, 0, 0.3); + -moz-box-shadow: 0 3px 7px rgba(0, 0, 0, 0.3); + box-shadow: 0 3px 7px rgba(0, 0, 0, 0.3); + -webkit-background-clip: padding-box; + -moz-background-clip: padding-box; + background-clip: padding-box; +} + +.modal.fade { + top: -25%; + -webkit-transition: opacity 0.3s linear, top 0.3s ease-out; + -moz-transition: opacity 0.3s linear, top 0.3s ease-out; + -o-transition: opacity 0.3s linear, top 0.3s ease-out; + transition: opacity 0.3s linear, top 0.3s ease-out; +} + +.modal.fade.in { + top: 10%; +} + +.modal-header { + padding: 9px 15px; + border-bottom: 1px solid #eee; +} + +.modal-header .close { + margin-top: 2px; +} + +.modal-header h3 { + margin: 0; + line-height: 30px; +} + +.modal-body { + position: relative; + max-height: 400px; + padding: 15px; + overflow-y: auto; +} + +.modal-form { + margin-bottom: 0; +} + +.modal-footer { + padding: 14px 15px 15px; + margin-bottom: 0; + text-align: right; + background-color: #f5f5f5; + border-top: 1px solid #ddd; + -webkit-border-radius: 0 0 6px 6px; + -moz-border-radius: 0 0 6px 6px; + border-radius: 0 0 6px 6px; + *zoom: 1; + -webkit-box-shadow: inset 0 1px 0 #ffffff; + -moz-box-shadow: inset 0 1px 0 #ffffff; + box-shadow: inset 0 1px 0 #ffffff; +} + +.modal-footer:before, +.modal-footer:after { + display: table; + line-height: 0; + content: ""; +} + +.modal-footer:after { + clear: both; +} + +.modal-footer .btn + .btn { + margin-bottom: 0; + margin-left: 5px; +} + +.modal-footer .btn-group .btn + .btn { + margin-left: -1px; +} + +.modal-footer .btn-block + .btn-block { + margin-left: 0; +} + +.tooltip { + position: absolute; + z-index: 1030; + display: block; + font-size: 11px; + line-height: 1.4; + opacity: 0; + filter: alpha(opacity=0); + visibility: visible; +} + +.tooltip.in { + opacity: 0.8; + filter: alpha(opacity=80); +} + +.tooltip.top { + padding: 5px 0; + margin-top: -3px; +} + +.tooltip.right { + padding: 0 5px; + margin-left: 3px; +} + +.tooltip.bottom { + padding: 5px 0; + margin-top: 3px; +} + +.tooltip.left { + padding: 0 5px; + margin-left: -3px; +} + +.tooltip-inner { + max-width: 200px; + padding: 8px; + color: #ffffff; + text-align: center; + text-decoration: none; + background-color: #000000; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; +} + +.tooltip-arrow { + position: absolute; + width: 0; + height: 0; + border-color: transparent; + border-style: solid; +} + +.tooltip.top .tooltip-arrow { + bottom: 0; + left: 50%; + margin-left: -5px; + border-top-color: #000000; + border-width: 5px 5px 0; +} + +.tooltip.right .tooltip-arrow { + top: 50%; + left: 0; + margin-top: -5px; + border-right-color: #000000; + border-width: 5px 5px 5px 0; +} + +.tooltip.left .tooltip-arrow { + top: 50%; + right: 0; + margin-top: -5px; + border-left-color: #000000; + border-width: 5px 0 5px 5px; +} + +.tooltip.bottom .tooltip-arrow { + top: 0; + left: 50%; + margin-left: -5px; + border-bottom-color: #000000; + border-width: 0 5px 5px; +} + +.popover { + position: absolute; + top: 0; + left: 0; + z-index: 1010; + display: none; + max-width: 276px; + padding: 1px; + text-align: left; + white-space: normal; + background-color: #ffffff; + border: 1px solid #ccc; + border: 1px solid rgba(0, 0, 0, 0.2); + -webkit-border-radius: 6px; + -moz-border-radius: 6px; + border-radius: 6px; + -webkit-box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); + -moz-box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); + box-shadow: 0 5px 10px rgba(0, 0, 0, 0.2); + -webkit-background-clip: padding-box; + -moz-background-clip: padding; + background-clip: padding-box; +} + +.popover.top { + margin-top: -10px; +} + +.popover.right { + margin-left: 10px; +} + +.popover.bottom { + margin-top: 10px; +} + +.popover.left { + margin-left: -10px; +} + +.popover-title { + padding: 8px 14px; + margin: 0; + font-size: 14px; + font-weight: normal; + line-height: 18px; + background-color: #f7f7f7; + border-bottom: 1px solid #ebebeb; + -webkit-border-radius: 5px 5px 0 0; + -moz-border-radius: 5px 5px 0 0; + border-radius: 5px 5px 0 0; +} + +.popover-title:empty { + display: none; +} + +.popover-content { + padding: 9px 14px; +} + +.popover .arrow, +.popover .arrow:after { + position: absolute; + display: block; + width: 0; + height: 0; + border-color: transparent; + border-style: solid; +} + +.popover .arrow { + border-width: 11px; +} + +.popover .arrow:after { + border-width: 10px; + content: ""; +} + +.popover.top .arrow { + bottom: -11px; + left: 50%; + margin-left: -11px; + border-top-color: #999; + border-top-color: rgba(0, 0, 0, 0.25); + border-bottom-width: 0; +} + +.popover.top .arrow:after { + bottom: 1px; + margin-left: -10px; + border-top-color: #ffffff; + border-bottom-width: 0; +} + +.popover.right .arrow { + top: 50%; + left: -11px; + margin-top: -11px; + border-right-color: #999; + border-right-color: rgba(0, 0, 0, 0.25); + border-left-width: 0; +} + +.popover.right .arrow:after { + bottom: -10px; + left: 1px; + border-right-color: #ffffff; + border-left-width: 0; +} + +.popover.bottom .arrow { + top: -11px; + left: 50%; + margin-left: -11px; + border-bottom-color: #999; + border-bottom-color: rgba(0, 0, 0, 0.25); + border-top-width: 0; +} + +.popover.bottom .arrow:after { + top: 1px; + margin-left: -10px; + border-bottom-color: #ffffff; + border-top-width: 0; +} + +.popover.left .arrow { + top: 50%; + right: -11px; + margin-top: -11px; + border-left-color: #999; + border-left-color: rgba(0, 0, 0, 0.25); + border-right-width: 0; +} + +.popover.left .arrow:after { + right: 1px; + bottom: -10px; + border-left-color: #ffffff; + border-right-width: 0; +} + +.thumbnails { + margin-left: -20px; + list-style: none; + *zoom: 1; +} + +.thumbnails:before, +.thumbnails:after { + display: table; + line-height: 0; + content: ""; +} + +.thumbnails:after { + clear: both; +} + +.row-fluid .thumbnails { + margin-left: 0; +} + +.thumbnails > li { + float: left; + margin-bottom: 20px; + margin-left: 20px; +} + +.thumbnail { + display: block; + padding: 4px; + line-height: 20px; + border: 1px solid #ddd; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; + -webkit-box-shadow: 0 1px 3px rgba(0, 0, 0, 0.055); + -moz-box-shadow: 0 1px 3px rgba(0, 0, 0, 0.055); + box-shadow: 0 1px 3px rgba(0, 0, 0, 0.055); + -webkit-transition: all 0.2s ease-in-out; + -moz-transition: all 0.2s ease-in-out; + -o-transition: all 0.2s ease-in-out; + transition: all 0.2s ease-in-out; +} + +a.thumbnail:hover, +a.thumbnail:focus { + border-color: #0088cc; + -webkit-box-shadow: 0 1px 4px rgba(0, 105, 214, 0.25); + -moz-box-shadow: 0 1px 4px rgba(0, 105, 214, 0.25); + box-shadow: 0 1px 4px rgba(0, 105, 214, 0.25); +} + +.thumbnail > img { + display: block; + max-width: 100%; + margin-right: auto; + margin-left: auto; +} + +.thumbnail .caption { + padding: 9px; + color: #555555; +} + +.media, +.media-body { + overflow: hidden; + *overflow: visible; + zoom: 1; +} + +.media, +.media .media { + margin-top: 15px; +} + +.media:first-child { + margin-top: 0; +} + +.media-object { + display: block; +} + +.media-heading { + margin: 0 0 5px; +} + +.media > .pull-left { + margin-right: 10px; +} + +.media > .pull-right { + margin-left: 10px; +} + +.media-list { + margin-left: 0; + list-style: none; +} + +.label, +.badge { + display: inline-block; + padding: 2px 4px; + font-size: 11.844px; + font-weight: bold; + line-height: 14px; + color: #ffffff; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + white-space: nowrap; + vertical-align: baseline; + background-color: #999999; +} + +.label { + -webkit-border-radius: 3px; + -moz-border-radius: 3px; + border-radius: 3px; +} + +.badge { + padding-right: 9px; + padding-left: 9px; + -webkit-border-radius: 9px; + -moz-border-radius: 9px; + border-radius: 9px; +} + +.label:empty, +.badge:empty { + display: none; +} + +a.label:hover, +a.label:focus, +a.badge:hover, +a.badge:focus { + color: #ffffff; + text-decoration: none; + cursor: pointer; +} + +.label-important, +.badge-important { + background-color: #b94a48; +} + +.label-important[href], +.badge-important[href] { + background-color: #953b39; +} + +.label-warning, +.badge-warning { + background-color: #f89406; +} + +.label-warning[href], +.badge-warning[href] { + background-color: #c67605; +} + +.label-success, +.badge-success { + background-color: #468847; +} + +.label-success[href], +.badge-success[href] { + background-color: #356635; +} + +.label-info, +.badge-info { + background-color: #3a87ad; +} + +.label-info[href], +.badge-info[href] { + background-color: #2d6987; +} + +.label-inverse, +.badge-inverse { + background-color: #333333; +} + +.label-inverse[href], +.badge-inverse[href] { + background-color: #1a1a1a; +} + +.btn .label, +.btn .badge { + position: relative; + top: -1px; +} + +.btn-mini .label, +.btn-mini .badge { + top: 0; +} + +@-webkit-keyframes progress-bar-stripes { + from { + background-position: 40px 0; + } + to { + background-position: 0 0; + } +} + +@-moz-keyframes progress-bar-stripes { + from { + background-position: 40px 0; + } + to { + background-position: 0 0; + } +} + +@-ms-keyframes progress-bar-stripes { + from { + background-position: 40px 0; + } + to { + background-position: 0 0; + } +} + +@-o-keyframes progress-bar-stripes { + from { + background-position: 0 0; + } + to { + background-position: 40px 0; + } +} + +@keyframes progress-bar-stripes { + from { + background-position: 40px 0; + } + to { + background-position: 0 0; + } +} + +.progress { + height: 20px; + margin-bottom: 20px; + overflow: hidden; + background-color: #f7f7f7; + background-image: -moz-linear-gradient(top, #f5f5f5, #f9f9f9); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#f5f5f5), to(#f9f9f9)); + background-image: -webkit-linear-gradient(top, #f5f5f5, #f9f9f9); + background-image: -o-linear-gradient(top, #f5f5f5, #f9f9f9); + background-image: linear-gradient(to bottom, #f5f5f5, #f9f9f9); + background-repeat: repeat-x; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#fff5f5f5', endColorstr='#fff9f9f9', GradientType=0); + -webkit-box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.1); + -moz-box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.1); + box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.1); +} + +.progress .bar { + float: left; + width: 0; + height: 100%; + font-size: 12px; + color: #ffffff; + text-align: center; + text-shadow: 0 -1px 0 rgba(0, 0, 0, 0.25); + background-color: #0e90d2; + background-image: -moz-linear-gradient(top, #149bdf, #0480be); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#149bdf), to(#0480be)); + background-image: -webkit-linear-gradient(top, #149bdf, #0480be); + background-image: -o-linear-gradient(top, #149bdf, #0480be); + background-image: linear-gradient(to bottom, #149bdf, #0480be); + background-repeat: repeat-x; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff149bdf', endColorstr='#ff0480be', GradientType=0); + -webkit-box-shadow: inset 0 -1px 0 rgba(0, 0, 0, 0.15); + -moz-box-shadow: inset 0 -1px 0 rgba(0, 0, 0, 0.15); + box-shadow: inset 0 -1px 0 rgba(0, 0, 0, 0.15); + -webkit-box-sizing: border-box; + -moz-box-sizing: border-box; + box-sizing: border-box; + -webkit-transition: width 0.6s ease; + -moz-transition: width 0.6s ease; + -o-transition: width 0.6s ease; + transition: width 0.6s ease; +} + +.progress .bar + .bar { + -webkit-box-shadow: inset 1px 0 0 rgba(0, 0, 0, 0.15), inset 0 -1px 0 rgba(0, 0, 0, 0.15); + -moz-box-shadow: inset 1px 0 0 rgba(0, 0, 0, 0.15), inset 0 -1px 0 rgba(0, 0, 0, 0.15); + box-shadow: inset 1px 0 0 rgba(0, 0, 0, 0.15), inset 0 -1px 0 rgba(0, 0, 0, 0.15); +} + +.progress-striped .bar { + background-color: #149bdf; + background-image: -webkit-gradient(linear, 0 100%, 100% 0, color-stop(0.25, rgba(255, 255, 255, 0.15)), color-stop(0.25, transparent), color-stop(0.5, transparent), color-stop(0.5, rgba(255, 255, 255, 0.15)), color-stop(0.75, rgba(255, 255, 255, 0.15)), color-stop(0.75, transparent), to(transparent)); + background-image: -webkit-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -moz-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -o-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + -webkit-background-size: 40px 40px; + -moz-background-size: 40px 40px; + -o-background-size: 40px 40px; + background-size: 40px 40px; +} + +.progress.active .bar { + -webkit-animation: progress-bar-stripes 2s linear infinite; + -moz-animation: progress-bar-stripes 2s linear infinite; + -ms-animation: progress-bar-stripes 2s linear infinite; + -o-animation: progress-bar-stripes 2s linear infinite; + animation: progress-bar-stripes 2s linear infinite; +} + +.progress-danger .bar, +.progress .bar-danger { + background-color: #dd514c; + background-image: -moz-linear-gradient(top, #ee5f5b, #c43c35); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#ee5f5b), to(#c43c35)); + background-image: -webkit-linear-gradient(top, #ee5f5b, #c43c35); + background-image: -o-linear-gradient(top, #ee5f5b, #c43c35); + background-image: linear-gradient(to bottom, #ee5f5b, #c43c35); + background-repeat: repeat-x; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ffee5f5b', endColorstr='#ffc43c35', GradientType=0); +} + +.progress-danger.progress-striped .bar, +.progress-striped .bar-danger { + background-color: #ee5f5b; + background-image: -webkit-gradient(linear, 0 100%, 100% 0, color-stop(0.25, rgba(255, 255, 255, 0.15)), color-stop(0.25, transparent), color-stop(0.5, transparent), color-stop(0.5, rgba(255, 255, 255, 0.15)), color-stop(0.75, rgba(255, 255, 255, 0.15)), color-stop(0.75, transparent), to(transparent)); + background-image: -webkit-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -moz-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -o-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); +} + +.progress-success .bar, +.progress .bar-success { + background-color: #5eb95e; + background-image: -moz-linear-gradient(top, #62c462, #57a957); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#62c462), to(#57a957)); + background-image: -webkit-linear-gradient(top, #62c462, #57a957); + background-image: -o-linear-gradient(top, #62c462, #57a957); + background-image: linear-gradient(to bottom, #62c462, #57a957); + background-repeat: repeat-x; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff62c462', endColorstr='#ff57a957', GradientType=0); +} + +.progress-success.progress-striped .bar, +.progress-striped .bar-success { + background-color: #62c462; + background-image: -webkit-gradient(linear, 0 100%, 100% 0, color-stop(0.25, rgba(255, 255, 255, 0.15)), color-stop(0.25, transparent), color-stop(0.5, transparent), color-stop(0.5, rgba(255, 255, 255, 0.15)), color-stop(0.75, rgba(255, 255, 255, 0.15)), color-stop(0.75, transparent), to(transparent)); + background-image: -webkit-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -moz-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -o-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); +} + +.progress-info .bar, +.progress .bar-info { + background-color: #4bb1cf; + background-image: -moz-linear-gradient(top, #5bc0de, #339bb9); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#5bc0de), to(#339bb9)); + background-image: -webkit-linear-gradient(top, #5bc0de, #339bb9); + background-image: -o-linear-gradient(top, #5bc0de, #339bb9); + background-image: linear-gradient(to bottom, #5bc0de, #339bb9); + background-repeat: repeat-x; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#ff5bc0de', endColorstr='#ff339bb9', GradientType=0); +} + +.progress-info.progress-striped .bar, +.progress-striped .bar-info { + background-color: #5bc0de; + background-image: -webkit-gradient(linear, 0 100%, 100% 0, color-stop(0.25, rgba(255, 255, 255, 0.15)), color-stop(0.25, transparent), color-stop(0.5, transparent), color-stop(0.5, rgba(255, 255, 255, 0.15)), color-stop(0.75, rgba(255, 255, 255, 0.15)), color-stop(0.75, transparent), to(transparent)); + background-image: -webkit-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -moz-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -o-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); +} + +.progress-warning .bar, +.progress .bar-warning { + background-color: #faa732; + background-image: -moz-linear-gradient(top, #fbb450, #f89406); + background-image: -webkit-gradient(linear, 0 0, 0 100%, from(#fbb450), to(#f89406)); + background-image: -webkit-linear-gradient(top, #fbb450, #f89406); + background-image: -o-linear-gradient(top, #fbb450, #f89406); + background-image: linear-gradient(to bottom, #fbb450, #f89406); + background-repeat: repeat-x; + filter: progid:DXImageTransform.Microsoft.gradient(startColorstr='#fffbb450', endColorstr='#fff89406', GradientType=0); +} + +.progress-warning.progress-striped .bar, +.progress-striped .bar-warning { + background-color: #fbb450; + background-image: -webkit-gradient(linear, 0 100%, 100% 0, color-stop(0.25, rgba(255, 255, 255, 0.15)), color-stop(0.25, transparent), color-stop(0.5, transparent), color-stop(0.5, rgba(255, 255, 255, 0.15)), color-stop(0.75, rgba(255, 255, 255, 0.15)), color-stop(0.75, transparent), to(transparent)); + background-image: -webkit-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -moz-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: -o-linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); + background-image: linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent); +} + +.accordion { + margin-bottom: 20px; +} + +.accordion-group { + margin-bottom: 2px; + border: 1px solid #e5e5e5; + -webkit-border-radius: 4px; + -moz-border-radius: 4px; + border-radius: 4px; +} + +.accordion-heading { + border-bottom: 0; +} + +.accordion-heading .accordion-toggle { + display: block; + padding: 8px 15px; +} + +.accordion-toggle { + cursor: pointer; +} + +.accordion-inner { + padding: 9px 15px; + border-top: 1px solid #e5e5e5; +} + +.carousel { + position: relative; + margin-bottom: 20px; + line-height: 1; +} + +.carousel-inner { + position: relative; + width: 100%; + overflow: hidden; +} + +.carousel-inner > .item { + position: relative; + display: none; + -webkit-transition: 0.6s ease-in-out left; + -moz-transition: 0.6s ease-in-out left; + -o-transition: 0.6s ease-in-out left; + transition: 0.6s ease-in-out left; +} + +.carousel-inner > .item > img, +.carousel-inner > .item > a > img { + display: block; + line-height: 1; +} + +.carousel-inner > .active, +.carousel-inner > .next, +.carousel-inner > .prev { + display: block; +} + +.carousel-inner > .active { + left: 0; +} + +.carousel-inner > .next, +.carousel-inner > .prev { + position: absolute; + top: 0; + width: 100%; +} + +.carousel-inner > .next { + left: 100%; +} + +.carousel-inner > .prev { + left: -100%; +} + +.carousel-inner > .next.left, +.carousel-inner > .prev.right { + left: 0; +} + +.carousel-inner > .active.left { + left: -100%; +} + +.carousel-inner > .active.right { + left: 100%; +} + +.carousel-control { + position: absolute; + top: 40%; + left: 15px; + width: 40px; + height: 40px; + margin-top: -20px; + font-size: 60px; + font-weight: 100; + line-height: 30px; + color: #ffffff; + text-align: center; + background: #222222; + border: 3px solid #ffffff; + -webkit-border-radius: 23px; + -moz-border-radius: 23px; + border-radius: 23px; + opacity: 0.5; + filter: alpha(opacity=50); +} + +.carousel-control.right { + right: 15px; + left: auto; +} + +.carousel-control:hover, +.carousel-control:focus { + color: #ffffff; + text-decoration: none; + opacity: 0.9; + filter: alpha(opacity=90); +} + +.carousel-indicators { + position: absolute; + top: 15px; + right: 15px; + z-index: 5; + margin: 0; + list-style: none; +} + +.carousel-indicators li { + display: block; + float: left; + width: 10px; + height: 10px; + margin-left: 5px; + text-indent: -999px; + background-color: #ccc; + background-color: rgba(255, 255, 255, 0.25); + border-radius: 5px; +} + +.carousel-indicators .active { + background-color: #fff; +} + +.carousel-caption { + position: absolute; + right: 0; + bottom: 0; + left: 0; + padding: 15px; + background: #333333; + background: rgba(0, 0, 0, 0.75); +} + +.carousel-caption h4, +.carousel-caption p { + line-height: 20px; + color: #ffffff; +} + +.carousel-caption h4 { + margin: 0 0 5px; +} + +.carousel-caption p { + margin-bottom: 0; +} + +.hero-unit { + padding: 60px; + margin-bottom: 30px; + font-size: 18px; + font-weight: 200; + line-height: 30px; + color: inherit; + background-color: #eeeeee; + -webkit-border-radius: 6px; + -moz-border-radius: 6px; + border-radius: 6px; +} + +.hero-unit h1 { + margin-bottom: 0; + font-size: 60px; + line-height: 1; + letter-spacing: -1px; + color: inherit; +} + +.hero-unit li { + line-height: 30px; +} + +.pull-right { + float: right; +} + +.pull-left { + float: left; +} + +.hide { + display: none; +} + +.show { + display: block; +} + +.invisible { + visibility: hidden; +} + +.affix { + position: fixed; +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/html.pm Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,926 @@ +package sRNAPipe::html; + +use strict; +use warnings; +use File::Basename; +use File::Copy::Recursive qw( dircopy ); + +use Exporter; +our @ISA = qw( Exporter ); +our @EXPORT_OK = qw( &main_page &details_pages &menu_page &ppp_page ©_css ©_js ); + +sub main_page +{ + my ( $dir, $file, $list_mainTabP, $current, $ma, $ma_uni, $dir_root ) = @_; + my ( $futHashP, $uniqueTabP, $randTabP, $pngTabP ) = get_genome ( $dir, $dir_root ); + + open my $h, '>', $file || die "cannot create $file $!\n"; + header ( $h ); + navbar ( $h, $list_mainTabP, $current ); + print $h "<div class=\"container\"><p><a class=\"btn\" href=\"$current-sub.html\">View details »</a></p></div>\n"; + futurette( $h, $current, $pngTabP, $futHashP ); + print $h "<div class=\"container\"><h2>mappers #: $ma</h2><h2>unique mappers #: $ma_uni</h2> </div>\n"; + carousel2( $h, $uniqueTabP, $randTabP, $dir_root ); + footer($h); + close $h; +} + +sub menu_page +{ + my ( $dir, $file, $list_mainTabP, $current, $min, $max, $simin, $simax, $pimin, $pimax, $dir_root ) = @_; + my $html_ref = $1 if $dir =~ /$dir_root(.*)/; + open my $h, '>', $file || die "cannot create $file $!\n"; + header($h); + navbar ( $h, $list_mainTabP, $current ); + span( $h, $current, $min, $max, $simin, $simax, $pimin, $pimax ); + print $h " <div class=\"container\"> <div class=\"row text-center\"> <img src=\"$html_ref/pie_chart.png\"/><br />\n"; + print $h " <A HREF=\"$html_ref/repartition.txt\">text file</A><br/>\n </div></div>"; + footer($h); + close $h; +} + +sub details_pages +{ + my ( $dir_details, $prefix, $list_mainTabP, $current, $misTE, $dir_root, $ppp ) = @_; + my ($Hex, $HTE, $HG, $NonUniTE, $NonUniG, $UniG ) = get_subgroups( $dir_details, $current, $misTE, $dir_root ); + + my $html_ref = $1.'-PPP.html' if $prefix =~ /$dir_root(.*)/; + open my $h, '>', $prefix.'-TEs.html' || die "cannot create $prefix-TEs.html $!\n"; + header($h); + navbar ( $h, $list_mainTabP, $current ); + if ( $prefix =~ /piRNAs$/ && $ppp eq 'true' ) + { + print $h " <div class=\"container\">"; + print $h " <p><a class=\"btn\" href=\"$html_ref\">Ping Pong Partners</a></p>\n"; + print $h "</div>"; + } + fut($h,'Transposable elements',$HTE); + carousel($h,$NonUniTE,$dir_root); + footer($h); + close $h; + + open $h, '>', $prefix.'-genome.html' || die "cannot create $prefix-genome.html $!\n"; + header($h); + navbar ( $h, $list_mainTabP, $current ); + fut($h,'Genome',$HG); + carousel2($h,$UniG, $NonUniG,$dir_root); + footer($h); + close $h; + + open $h, '>', $prefix.'-transcripts.html' || die "cannot create $prefix-transcripts.html $!\n"; + header($h); + navbar ( $h, $list_mainTabP, $current ); + fut($h,'transcripts',$Hex); + footer($h); + close $h; +} + +sub ppp_page +{ + my ( $dir, $file, $list_mainTabP, $current, $ppp, $dir_root ) = @_; + + my $ppp_file = $ppp.'ppp.txt'; + open my $h, '>', $file || die "cannot create $file $!\n"; + header($h); + navbar ( $h, $list_mainTabP, $current ); + print $h '<div class="container"> <table class="wb-tables table table-striped table-hover">'."\n"; + print $h '<thead> + <tr> + <th data-sortable="true">ID</th> + <th data-sortable="true">overlap sum</th> + <th data-sortable="true">ten overlap sum</th> + <th data-sortable="true">mean</th> + <th data-sortable="true">standard deviation</th> + <th data-sortable="true">z-score</th> + <th data-sortable="true">p-value</th> + </tr> + </thead> + <tbody>'; + + open my $f, '<', $ppp_file || die "cannot open $ppp_file $!\n"; + while ( <$f> ) + { + chomp; + print $h '<tr>'; + my ( $id, $sum, $ten, $mean, $sd, $zscore, $prob) = split /\t/, $_; + if( -d "$ppp/$id" ) + { + my $sub_html = $ppp.$id.'.html'; + my $sub_html_ref = $1.$id if $ppp =~ /$dir_root(.*)/; + print $h "<td> <a href=\"$sub_html_ref.html\">$id</a> </td>"; + + open my $sub, '>', $sub_html || die "cannot create $sub_html\n"; + { + header($sub); + print $sub " + <div align=\"center\"> + <h2>$id</h2> + <p> <img class=\"featurette-image\" src=\"$id/histogram.png\"/></p> + <p><a href=\"$id/overlap_size.txt\">ping pong signature</a></p> + <p><a href=\"$id/sensPPP.txt\">sense reads with PPP</a></p> + <p><a href=\"$id/antisensPPP.txt\">reverse reads with PPP</a></p> + <p><a href=\"$id/sens.txt\">sense reads without PPP</a></p> + <p><a href=\"$id/antisens.txt\">reverse reads without PPP</a></p> + </div>"; + footer($sub); + } + close $sub; + } + else { print $h "<td> $id </td>\n"; } + print $h "<td> $sum </td><td> $ten </td><td> $mean </td><td> $sd </td><td> $zscore </td><td> $prob </td>\n"; + + print $h '</tr>'; + } + close $f; + print $h "</tbody></table></div>"; + footer($h); + close $h; +} + +sub get_genome +{ + my ( $dir, $dir_root ) = @_; + my ( %hash, @group, @Unique, @NonUnique, @png ); + + my $fut = "'$dir'".'/*'; + my @fut = glob $fut; + + + foreach my $fr ( @fut ) + { + my $f = $1 if $fr =~ /$dir_root(.*)/; + if ( $fr =~ /.*Gviz/ ) + { + my $nu = "'$fr'".'/rand/*'; + @NonUnique = glob $nu; + my $u = "'$fr'".'/unique/*'; + @Unique = glob $u; + } + elsif ( $f =~ /.*distribution\.txt$/ ) { $hash{'mappers size distribution (txt)'} = $f; } + elsif ( $f =~ /.*distribution\.png$/ ) { push @png, $f; } + elsif ( $f =~ /.*unique\.fastq$/ ) { $hash{'unique mappers (fastq.gz)'} = $f.'.gz'; `gzip '$fr'`; } + elsif ( $f =~ /.*rejected\.fastq$/ ) { $hash{'unmapped (fastq.gz)'} = $f.'.gz'; `gzip '$fr'`; } + elsif ( $f =~ /.*all\.fastq$/ ) { $hash{'mappers (fastq.gz)'} = $f.'.gz'; `gzip '$fr'`; } + elsif ( $f =~ /.*dup_unique\.txt$/ ) { $hash{'unique mappers (txt)'} = $f; } + elsif ( $f =~ /.*dup_mapnum\.txt$/ ) { $hash{'mappers (txt)'} = $f; } + elsif ( $f =~ /.*dup_nonmapp\.txt$/ ) { $hash{'unmapped (txt)'} = $f; } + elsif ( $f =~ /.*_unique_sorted\.bam$/ ) { $hash{'unique alignment (bam)'} = $f; } + elsif ( $f =~ /.*_sorted\.bam$/ ) { $hash{'alignment (bam)'} = $f; } + elsif ( $f =~ /.*unique_plus.bedgraph/) { $hash{'bedgraph unique plus strand'} = $f; } + elsif ( $f =~ /.*unique_minus.bedgraph/) { $hash{'bedgraph unique minus strand'} = $f; } + elsif ( $f =~ /.*plus.bedgraph/) { $hash{'bedgraph plus strand'} = $f; } + elsif ( $f =~ /.*minus.bedgraph/) { $hash{'bedgraph minus strand'} = $f; } + else { unlink $fr; } + } + return (\%hash, \@Unique, \@NonUnique, \@png); +} + +sub span +{ + my ( $file, $name, $min, $max, $simin, $simax, $pimin, $pimax ) = @_; + + print $file " +<div class=\"container text-center\"> + <div class=\"row-fluid\"> + <div class=\"span6\"> + <h2>Bonafide</h2> + reads of size between $min and $max<br>with no mi, sn, t and r RNAs + <p><a class=\"btn\" href=\"$name-bonafide_reads-genome.html\">Genome</a></p> + <p><a class=\"btn\" href=\"$name-bonafide_reads-TEs.html\">TE</a></p> + <p><a class=\"btn\" href=\"$name-bonafide_reads-transcripts.html\">Transcripts</a></p> + <div class=\"row-fluid\"> + <div class=\"span6\"> + <h2>siRNAs</h2> + bonafide reads of size between $simin and $simax + <p><a class=\"btn\" href=\"$name-siRNAs-genome.html\">Genome</a></p> + <p><a class=\"btn\" href=\"$name-siRNAs-TEs.html\">TE</a></p> + <p><a class=\"btn\" href=\"$name-siRNAs-transcripts.html\">Transcripts</a></p> + </div> + <div class=\"span6\"> + <h2>piRNAs</h2> + bonafide reads of size between $pimin and $pimax + <p><a class=\"btn\" href=\"$name-piRNAs-genome.html\">Genome</a></p> + <p><a class=\"btn\" href=\"$name-piRNAs-TEs.html\">TE</a></p> + <p><a class=\"btn\" href=\"$name-piRNAs-transcripts.html\">Transcripts</a></p> + </div> + </div> + </div> + <div class=\"span6\"> + <h2>miRNAs</h2> + <p><a class=\"btn\" href=\"$name-miRNAs-genome.html\">Genome</a></p> + <p><a class=\"btn\" href=\"$name-miRNAs-TEs.html\">TE</a></p> + <p><a class=\"btn\" href=\"$name-miRNAs-transcripts.html\">Transcripts</a></p> + </div> + </div> +</div> +"; +} + +sub get_subgroups +{ + my ( $dir, $name, $misTE, $dir_root ) = @_; + my (%Hex, %HTE, %HG, @group, @png, @pngTE, @NonUniTE, @UniG, @NonUniG ); + + my $fut = "'$dir'".'/*'; + my @fut = glob $fut; + my $f =''; + foreach my $fr ( @fut ) + { + $f = $1 if $fr =~ /$dir_root(.*)/; + + if ( $f =~ /genome_unique_sorted\.bam$/ ) { $HG{'genome unique mappers (sorted bam)'} = $f; } + elsif ( $f =~ /genome_sorted\.bam$/ ) { $HG{'genome mappers (sorted bam)'} = $f; } + elsif ( $f =~ /miRNAs_reads_counts\.txt$/ ) { $HG{'miRNAs per type (txt)'} = $f; } + elsif ( $f =~ /genome_unique_plus\.bedgraph$/) { $HG{'bedgraph unique plus strand'} = $f; } + elsif ( $f =~ /genome_unique_minus\.bedgraph$/) { $HG{'bedgraph unique minus strand'} = $f; } + elsif ( $f =~ /genome_plus\.bedgraph$/) { $HG{'bedgraph plus strand'} = $f; } + elsif ( $f =~ /genome_minus\.bedgraph$/) { $HG{'bedgraph minus strand'} = $f; } + elsif ( $f =~ /TEs_plus\.bedgraph$/) { $HTE{'bedgraph plus strand'} = $f; } + elsif ( $f =~ /TEs_minus\.bedgraph$/) { $HTE{'bedgraph minus strand'} = $f; } + elsif ( $f =~ /transcripts_sorted\.bam$/) { $Hex{'transcripts mappers (sorted bam)'} = $f;} + elsif ( $f =~ /transcripts_unique_sorted\.bam$/) { $Hex{'transcripts unique mappers (sorted bam)'} = $f;} + elsif ( $f =~ /transcripts_reads_counts\.txt$/) { $Hex{'read number per transcript (txt)'} = $f;} + elsif ( $f =~ /TEs_reads_counts\.txt$/) { $HTE{"read number per TE 0 to $misTE mismatches (txt)"} = $f; } + elsif ( $f =~ /TEs_reads_counts_mismatches\.txt$/) { $HTE{"read number per TE with 1 to $misTE mismatches (txt)"} = $f; } + elsif ( $f =~ /TEs_reads_counts_nomismatches\.txt$/) { $HTE{'read number per TE with no mismatch (txt)'} = $f; } + elsif ( $f =~ /TEs_unique_sorted\.bam$/) { $HTE{'TEs unique mappers (sorted bam)'} = $f; } + elsif ( $f =~ /TEs_sorted\.bam$/) { $HTE{'TEs mappers (sorted bam)'} = $f; } + elsif ( $fr =~ /.*Gviz_TEs/ ) + { + my $nu = "'$fr'".'/*'; + @NonUniTE = glob $nu; + } + elsif ( $fr =~ /.*Gviz_genome/ ) + { + my $nu = "'$fr'".'/rand/*'; + @NonUniG = glob $nu; + my $u = "'$fr'".'/unique/*'; + @UniG = glob $u; + } + else { unlink $fr; } + } + return (\%Hex, \%HTE, \%HG, \@NonUniTE, \@NonUniG, \@UniG); +} + +sub header +{ + my $file = shift; + print $file " + <!DOCTYPE html> + <html lang=\"en\"> + <head> + <meta charset=\"utf-8\"> + <title>pipeline</title> + <meta name=\"viewport\" content=\"width=device-width, initial-scale=1.0\"> + <meta name=\"description\" content=\"\"> + <meta name=\"author\" content=\"\"> + <!-- Le styles --> + <link href=\"css/bootstrap.css\" rel=\"stylesheet\"> + <link href=\"css/bootstrap-table.css\" rel=\"stylesheet\"> + <style type=\"text/css\"> + body { + padding-top: 60px; + padding-bottom: 40px; + } + div#page { + width: 940px; + background-color: #fff; + margin: 0 auto; + text-align: left; + border-color: #fff; + border-style: none solid solid; + border-width: medium 1px 1px; + } + + div.content { + display: none; + float: right; + width: 550px; + } + div.content a, div.navigation a { + text-decoration: none; + color: #777; + } + div.content a:focus, div.content a:hover, div.content a:active { + text-decoration: underline; + } + + div.controls { + margin-top: 5px; + height: 23px; + } + + div.controls a { + padding: 5px; + } + div.ss-controls { + float: left; + } + div.nav-controls { + float: right; + } + div.slideshow-container { + position: relative; + clear: both; + height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */ + } + div.loader { + position: absolute; + top: 0; + left: 0; + background-image: url('loader.gif'); + background-repeat: no-repeat; + background-position: center; + width: 550px; + height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */ + } + div.slideshow { + + } + + div.slideshow span.image-wrapper { + display: block; + position: absolute; + top: 0; + left: 0; + } + div.slideshow a.advance-link { + display: block; + width: 550px; + height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */ + line-height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */ + text-align: center; + } + div.slideshow a.advance-link:hover, div.slideshow a.advance-link:active, div.slideshow a.advance-link:visited { + text-decoration: none; + } + div.slideshow img { + vertical-align: middle; + border: 1px solid #ccc; + } + + div.image-title { + font-weight: bold; + font-size: 1.4em; + } + + div.image-desc { + line-height: 1.3em; + padding-top: 12px; + } + div.navigation { + + } + ul.thumbs { + clear: both; + margin: 0; + padding: 0; + } + ul.thumbs li { + float: none; + padding: 0; + margin: 0; + list-style: none; + } + a.thumb { + padding: 0; + display: inline; + border: none; + } + ul.thumbs li.selected a.thumb { + color: #000; + font-weight: bold; + } + a.thumb:focus { + outline: none; + } + ul.thumbs img { + border: none; + display: block; + } + div.pagination { + clear: both; + } + div.navigation div.top { + margin-bottom: 12px; + height: 11px; + } + div.navigation div.bottom { + margin-top: 12px; + } + div.pagination a, div.pagination span.current, div.pagination span.ellipsis { + display: block; + float: left; + margin-right: 2px; + padding: 4px 7px 2px 7px; + border: 1px solid #ccc; + } + div.pagination a:hover { + background-color: #eee; + text-decoration: none; + } + div.pagination span.current { + font-weight: bold; + background-color: #000; + border-color: #000; + color: #fff; + } + div.pagination span.ellipsis { + border: none; + padding: 5px 0 3px 2px; + } + + div.download { + float: right; + } + + div.caption-container { + position: relative; + clear: left; + height: 75px; + } + span.image-caption { + display: block; + position: absolute; + width: 550px; + top: 0; + left: 0; + } + div.caption { + padding: 12px; + } + + /* Featurettes + ------------------------- */ + + .featurette { + padding-top: 20px; /* Vertically center images part 1: add padding above and below text. */ + overflow: hidden; /* Vertically center images part 2: clear their floats. */ + text-align: center; + } + + .featurette-p + { + text-align: left; + } + + .featurette-image { + margin-top: 10px; /* Vertically center images part 3: negative margin up the image the same amount of the padding to center it. */ + width: 450px; + height: auto; + } + + </style> + <link href=\"css/bootstrap-responsive.css\" rel=\"stylesheet\"> + </head> + <body> + "; +} + +sub navbar +{ + my ( $file, $fastq, $actif ) = @_; + + print $file " + <div class=\"navbar navbar-inverse navbar-fixed-top\"> + <div class=\"navbar-inner\"> + <div class=\"container\"> + <button type=\"button\" class=\"btn btn-navbar\" data-toggle=\"collapse\" data-target=\".nav-collapse\"> + <span class=\"icon-bar\"></span> + <span class=\"icon-bar\"></span> + <span class=\"icon-bar\"></span> + </button> + <a class=\"brand\" href=\"report.txt\">Report</a> + <div class=\"nav-collapse collapse\"> + <ul class=\"nav\"> + "; + for (my $i = 0 ; $i <= $#{$fastq}; $i++) + { + # my $fa = basename($fastq->[$i],'.dat'); + my $fa = $fastq->[$i]; + if ($actif eq $fa){ print $file "<li class=\"active\"><a href=\"$fastq->[$i].html\">$fa</a></li>";} + else {print $file "<li><a href=\"$fastq->[$i].html\">$fa</a></li>" ;} + } + print $file " + </ul> + </div><!--/.nav-collapse --> + </div> + </div> + </div>"; +} + +sub footer +{ + my $file = shift; + print $file " + <!-- FOOTER --> + <div class=\"container\"> + <footer> + + </footer> + </div> + <!-- Le javascript + ================================================== --> + <!-- Placed at the end of the document so the pages load faster --> + <script type=\"text/javascript\" src=\"js/filter.js\"></script> + <script type=\"text/javascript\" src=\"js/jquery.js\"></script> + <script type=\"text/javascript\" src=\"js/jquery-1.3.2.js\"></script> + <script type=\"text/javascript\" src=\"js/jquery.galleriffic.js\"></script> + <script type=\"text/javascript\" src=\"js/jquery.opacityrollover.js\"></script> + <script type=\"text/javascript\" src=\"js/bootstrap-table.js\"></script> + <script type=\"text/javascript\" src=\"js/bootstrap.min.js\"></script> + <script type=\"text/javascript\"> + jQuery(document).ready(function(\$) { + // We only want these styles applied when javascript is enabled + \$('div.navigation').css({'width' : '300px', 'float' : 'left'}); + \$('div.content').css('display', 'block'); + + \$(\".each-gallery\").each(function(i){ + // Initially set opacity on thumbs and add + // additional styling for hover effect on thumbs + var onMouseOutOpacity = 0.67; + \$('#thumbs + i + ul.thumbs li').opacityrollover({ + mouseOutOpacity: onMouseOutOpacity, + mouseOverOpacity: 1.0, + fadeSpeed: 'fast', + exemptionSelector: '.selected' + }); + + // Initialize Advanced Galleriffic Gallery + var gallery = \$('#thumbs'+i).galleriffic({ + delay: 2500, + numThumbs: 22, + preloadAhead: 10, + enableTopPager: true, + enableBottomPager: true, + maxPagesToShow: 7, + imageContainerSel: '#slideshow'+ i, + controlsContainerSel: '#controls' + i, + captionContainerSel: '#caption' + i, + loadingContainerSel: '#loading' + i, + renderSSControls: true, + renderNavControls: true, + playLinkText: 'Play', + pauseLinkText: 'Pause', + prevLinkText: '‹ Previous', + nextLinkText: 'Next ›', + nextPageLinkText: 'Next ›', + prevPageLinkText: '‹ Prev', + enableHistory: false, + autoStart: false, + syncTransitions: true, + defaultTransitionDuration: 900, + onSlideChange: function(prevIndex, nextIndex) { + // 'this' refers to the gallery, which is an extension of \$('#thumbs') + this.find('ul.thumbs').children() + .eq(prevIndex).fadeTo('fast', onMouseOutOpacity).end() + .eq(nextIndex).fadeTo('fast', 1.0); + }, + onPageTransitionOut: function(callback) { + this.fadeTo('fast', 0.0, callback); + }, + onPageTransitionIn: function() { + this.fadeTo('fast', 1.0); + } + }); + }); + }); + </script> + </body> + </html> + "; +} + +sub carousel +{ + my ($file, $non_unique, $dir_root) = @_; + my $ac = 0; + print $file " + <div id=\"page\"> + <div id=\"container\"> + <div class=\"each-gallery\"> + <div id=\"gallery\" class=\"content\"> + <div id=\"controls0\" class=\"controls\"></div> + <div class=\"slideshow-container\"> + <div id=\"loading0\" class=\"loader\"></div> + <div id=\"slideshow0\" class=\"slideshow\"></div> + </div> + <div id=\"caption0\" class=\"caption-container\">Reads randomly assigned</div> + </div> + <div id=\"thumbs0\" class=\"navigation\"> + <input type=\"text\" id=\"myInput0\" onkeyup=\"search(this)\" placeholder=\"Search for names...\"> + <ul class=\"thumbs noscript\"> + "; + foreach my $u (@{$non_unique}) + { + my $name = basename($u,'.png'); + $u = $1 if $u =~ /$dir_root(.*)/; + print $file " + <li> + <a class=\"thumb\" href=\"$u\" title=\"$name\">$name</a> + </li> + "; + } + print $file " + </ul> + </div> + <div style=\"clear: both;\"></div></div> + </div> + </div> + "; +} + +sub carousel2 +{ + my ($file, $unique, $non_unique, $dir_root) = @_; + print $file " + <div id=\"page\"> + <div id=\"container\"> + <div class=\"each-gallery\"> + <div id=\"gallery\" class=\"content\"> + <div id=\"controls0\" class=\"controls\"></div> + <div class=\"slideshow-container\"> + <div id=\"loading0\" class=\"loader\"></div> + <div id=\"slideshow0\" class=\"slideshow\"></div> + </div> + <div id=\"caption0\" class=\"caption-container\">Uniquely mapped reads</div> + </div> + <div id=\"thumbs0\" class=\"navigation\"> + <input type=\"text\" id=\"myInput0\" onkeyup=\"search(this)\" placeholder=\"Search for names...\"> + <ul class=\"thumbs noscript\"> + "; + + foreach my $u (@{$unique}) + { + my $name = basename($u,'.png'); + $u = $1 if $u =~ /$dir_root(.*)/; + print $file " + <li> + <a class=\"thumb\" href=\"$u\" title=\"$name\">$name</a> + </li> + "; + } + print $file " + </ul> + </div> + </div> + <div id=\"page\"> + <div id=\"container\"> + <div class=\"each-gallery\"> + <div id=\"gallery\" class=\"content\"> + <div id=\"controls1\" class=\"controls\"></div> + <div class=\"slideshow-container\"> + <div id=\"loading1\" class=\"loader\"></div> + <div id=\"slideshow1\" class=\"slideshow\"></div> + </div> + <div id=\"caption1\" class=\"caption-container\">Reads randomly assigned</div> + </div> + <div id=\"thumbs1\" class=\"navigation\"> + <input type=\"text\" id=\"myInput1\" onkeyup=\"search(this)\" placeholder=\"Search for names...\"> + <ul class=\"thumbs noscript\"> + "; + + foreach my $nu (@{$non_unique}) + { + my $name = basename($nu,'.png'); + $nu = $1 if $nu =~ /$dir_root(.*)/; + print $file " + <li> + <a class=\"thumb\" href=\"$nu\" title=\"$name\">$name</a> + </li> + "; + } + print $file " + </ul> + </div> + <div style=\"clear: both;\"></div></div> + </div> + </div> + "; +} + +sub futurette +{ + my ($file, $name, $png, $hash) = @_; + print $file " + <div class=\"container\"> + <div class=\"featurette\"> + <h1>$name</h1> + <p class=\"featurette-p\"> + "; + foreach my $k (sort keys %{$hash}) + { + print $file "<A HREF=\"".${$hash}{$k}."\">$k</A><br/> \n" ; + } + + print $file " + </p>"; + + foreach my $pn (@{$png}){print $file "<img class=\"featurette-image\" src=\"$pn\"/><br />";} + + print $file " + </div> + </div> + "; +} + +sub fut +{ + my ($file, $name, $hash) = @_; + print $file " + <div class=\"container\"> + <div class=\"featurette\"> + <h1>$name</h1> + <p class=\"featurette-p\"> + "; + + foreach my $k (sort { ${$hash}{$a} cmp ${$hash}{$b} } keys %{$hash}) + { + print $file "<A HREF=\"".${$hash}{$k}."\">$k</A><br/> \n" ; + } + + print $file " + </p> + </div> + </div> + "; +} + +sub get_distri_exon +{ + my ($dir, $name) = @_; + my (@out,@group); + my $group = "'$dir'".'/'."'$name'".'-subgroups-bonafide_reads-transcripts-*distribution-*.png'; + @group = glob $group; + foreach (my $g =0; $g <= $#group; $g++) + { + if ($group[$g] =~ /.*($name-subgroups-bonafide_reads-transcripts-.*distribution-.*\.png)/ ) + { + my $tmp = $1; + push @out, $1; + } + } + return (\@out); +} + +sub get_distri_TE +{ + my ($dir, $name) = @_; + my (@out,@group); + my $group = "'$dir'".'/'."'$name'".'-subgroups-bonafide_reads-TE-*distribution-*.png'; + @group = glob $group; + foreach (my $g =0; $g <= $#group; $g++) + { + if ($group[$g] =~ /.*($name-subgroups-bonafide_reads-TE-.*distribution-.*\.png)/ ) + { + my $tmp = $1; + push @out, $1; + } + } + return (\@out); +} + +sub get_PPP +{ + my ($dir,$name) = @_; + my (%distri,@group); + my $group = "'$dir'".'/'."'$name'".'-subgroups-bonafide_reads-TE-PPPartners-*'; + @group = glob $group; + + foreach (my $g =0; $g <= $#group; $g++) + { + if ($group[$g] =~ /.*($name-subgroups-bonafide_reads-TE-PPPartners-.*)/ ) + { + my $tmp = $1; + if ($tmp =~ /PPPartners-(.*?)-sens\.txt$/) + { + $distri{$1} = ['','','','','',''] unless exists $distri{$1}; + $distri{$1}->[0] = $tmp; + } + elsif ($tmp =~ /PPPartners-(.*?)-antisens\.txt$/) + { + $distri{$1} = ['','','','','',''] unless exists $distri{$1}; + $distri{$1}->[1] = $tmp; + } + elsif ($tmp =~ /PPPartners-(.*?)-sensPPP\.txt$/) + { + $distri{$1} = ['','','','','',''] unless exists $distri{$1}; + $distri{$1}->[2] = $tmp; + } + elsif ($tmp =~ /PPPartners-(.*?)-antisensPPP\.txt$/) + { + $distri{$1} = ['','','','','',''] unless exists $distri{$1}; + $distri{$1}->[3] = $tmp; + } + elsif ($tmp =~ /PPPartners-(.*?)-overlap_size\.txt$/) + { + $distri{$1} = ['','','','','',''] unless exists $distri{$1}; + $distri{$1}->[4] = $tmp; + } + elsif ($tmp =~ /PPPartners-(.*?)-histogram\.png$/) + { + $distri{$1} = ['','','','','',''] unless exists $distri{$1}; + $distri{$1}->[5] = $tmp; + } + } + } + return \%distri; +} + +sub PPPrint +{ + my ($h, $hash) = @_; + my $cmp = 0; + + print $h "<div class=\"container\">\n"; + print $h "<div class=\"row text-center\">"; + while ( my ($k,$v) = each %{$hash} ) + { + print $h "</div><div class=\"row text-center\">" if $cmp != 0 && $cmp % 2 == 0; + print $h " + + <div class=\"span6\"> + <h2>$k</h2> + <p class=\"featurette-p\"> <img src=\"$v->[5]\"/></p> + <p class=\"featurette-p\"><a href=\"$v->[4]\">ping pong signature</a></p> + <p class=\"featurette-p\"><a href=\"$v->[2]\">sense reads with PPP</a></p> + <p class=\"featurette-p\"><a href=\"$v->[3]\">reverse reads with PPP</a></p> + <p class=\"featurette-p\"><a href=\"$v->[0]\">sense reads without PPP</a></p> + <p class=\"featurette-p\"><a href=\"$v->[1]\">reverse reads without PPP</a></p> + </div> + "; + $cmp++; + } + + print $h "</div></div>"; +} + +sub printDistri +{ + my ($h, $tab) = @_; + my ($txt, $name); + my $cmp = 0; + print $h "<div class=\"container\">\n"; + print $h "<div class=\"row text-center\">"; + foreach my $k (@{$tab}) + { + if ($k =~ /(.*)-(.*)\.png$/) + { + $txt = $1.'-'.$2.'.txt'; + $name = $2; + } + print $h "</div><div class=\"row text-center\">" if $cmp != 0 && $cmp % 2 == 0; + print $h " + + <div class=\"span6\"> + <h2>$name</h2> + <p> <img src=\"$k\"/></p> + <p class=\"featurette-p\"><a href=\"$txt\">text file</a></p> + </div> + "; + $cmp++; + } + + print $h "</div></div>"; +} + +sub mapnum +{ + my $dupmapnum = shift; + my $dupnum_genome = shift; + open (my $dupTE, $dupmapnum) || die "cannot open ".$dupmapnum."\n"; + my %dupnum_TE = (); + my $header = <$dupTE>; + while (<$dupTE>) + { + chomp $_; + my @dupline = split /\t/, $_; + $dupnum_TE{$dupline[0]} = $dupline[2]; + } + close $dupTE; + open (my $du_TE, '>'.$dupmapnum) || die "cannot open to write ".$dupmapnum."\n"; + print $du_TE "sequence\tduplicate\tgenome map num\tmap num\n"; + while (my ($k, $v) = each %dupnum_TE ) + { + my $hashRef = ${$dupnum_genome}{$k}; + print $du_TE "$k\t$hashRef->[0]\t$hashRef->[1]\t$v\n"; + } + close $du_TE; +} + +sub copy_css +{ + my $dir = shift; + my $path = dirname(__FILE__); + dircopy( $path.'/css', $dir.'/css' ); +} + + +sub copy_js +{ + my $dir = shift; + my $path = dirname(__FILE__); + dircopy( $path.'/js', $dir.'/js' ); +} + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/js/bootstrap-table.js Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,3094 @@ +/** + * @author zhixin wen <wenzhixin2010@gmail.com> + * version: 1.11.1 + * https://github.com/wenzhixin/bootstrap-table/ + */ + +(function ($) { + 'use strict'; + + // TOOLS DEFINITION + // ====================== + + var cachedWidth = null; + + // it only does '%s', and return '' when arguments are undefined + var sprintf = function (str) { + var args = arguments, + flag = true, + i = 1; + + str = str.replace(/%s/g, function () { + var arg = args[i++]; + + if (typeof arg === 'undefined') { + flag = false; + return ''; + } + return arg; + }); + return flag ? str : ''; + }; + + var getPropertyFromOther = function (list, from, to, value) { + var result = ''; + $.each(list, function (i, item) { + if (item[from] === value) { + result = item[to]; + return false; + } + return true; + }); + return result; + }; + + var getFieldIndex = function (columns, field) { + var index = -1; + + $.each(columns, function (i, column) { + if (column.field === field) { + index = i; + return false; + } + return true; + }); + return index; + }; + + // http://jsfiddle.net/wenyi/47nz7ez9/3/ + var setFieldIndex = function (columns) { + var i, j, k, + totalCol = 0, + flag = []; + + for (i = 0; i < columns[0].length; i++) { + totalCol += columns[0][i].colspan || 1; + } + + for (i = 0; i < columns.length; i++) { + flag[i] = []; + for (j = 0; j < totalCol; j++) { + flag[i][j] = false; + } + } + + for (i = 0; i < columns.length; i++) { + for (j = 0; j < columns[i].length; j++) { + var r = columns[i][j], + rowspan = r.rowspan || 1, + colspan = r.colspan || 1, + index = $.inArray(false, flag[i]); + + if (colspan === 1) { + r.fieldIndex = index; + // when field is undefined, use index instead + if (typeof r.field === 'undefined') { + r.field = index; + } + } + + for (k = 0; k < rowspan; k++) { + flag[i + k][index] = true; + } + for (k = 0; k < colspan; k++) { + flag[i][index + k] = true; + } + } + } + }; + + var getScrollBarWidth = function () { + if (cachedWidth === null) { + var inner = $('<p/>').addClass('fixed-table-scroll-inner'), + outer = $('<div/>').addClass('fixed-table-scroll-outer'), + w1, w2; + + outer.append(inner); + $('body').append(outer); + + w1 = inner[0].offsetWidth; + outer.css('overflow', 'scroll'); + w2 = inner[0].offsetWidth; + + if (w1 === w2) { + w2 = outer[0].clientWidth; + } + + outer.remove(); + cachedWidth = w1 - w2; + } + return cachedWidth; + }; + + var calculateObjectValue = function (self, name, args, defaultValue) { + var func = name; + + if (typeof name === 'string') { + // support obj.func1.func2 + var names = name.split('.'); + + if (names.length > 1) { + func = window; + $.each(names, function (i, f) { + func = func[f]; + }); + } else { + func = window[name]; + } + } + if (typeof func === 'object') { + return func; + } + if (typeof func === 'function') { + return func.apply(self, args || []); + } + if (!func && typeof name === 'string' && sprintf.apply(this, [name].concat(args))) { + return sprintf.apply(this, [name].concat(args)); + } + return defaultValue; + }; + + var compareObjects = function (objectA, objectB, compareLength) { + // Create arrays of property names + var objectAProperties = Object.getOwnPropertyNames(objectA), + objectBProperties = Object.getOwnPropertyNames(objectB), + propName = ''; + + if (compareLength) { + // If number of properties is different, objects are not equivalent + if (objectAProperties.length !== objectBProperties.length) { + return false; + } + } + + for (var i = 0; i < objectAProperties.length; i++) { + propName = objectAProperties[i]; + + // If the property is not in the object B properties, continue with the next property + if ($.inArray(propName, objectBProperties) > -1) { + // If values of same property are not equal, objects are not equivalent + if (objectA[propName] !== objectB[propName]) { + return false; + } + } + } + + // If we made it this far, objects are considered equivalent + return true; + }; + + var escapeHTML = function (text) { + if (typeof text === 'string') { + return text + .replace(/&/g, '&') + .replace(/</g, '<') + .replace(/>/g, '>') + .replace(/"/g, '"') + .replace(/'/g, ''') + .replace(/`/g, '`'); + } + return text; + }; + + var getRealDataAttr = function (dataAttr) { + for (var attr in dataAttr) { + var auxAttr = attr.split(/(?=[A-Z])/).join('-').toLowerCase(); + if (auxAttr !== attr) { + dataAttr[auxAttr] = dataAttr[attr]; + delete dataAttr[attr]; + } + } + + return dataAttr; + }; + + var getItemField = function (item, field, escape) { + var value = item; + + if (typeof field !== 'string' || item.hasOwnProperty(field)) { + return escape ? escapeHTML(item[field]) : item[field]; + } + var props = field.split('.'); + for (var p in props) { + if (props.hasOwnProperty(p)) { + value = value && value[props[p]]; + } + } + return escape ? escapeHTML(value) : value; + }; + + var isIEBrowser = function () { + return !!(navigator.userAgent.indexOf("MSIE ") > 0 || !!navigator.userAgent.match(/Trident.*rv\:11\./)); + }; + + var objectKeys = function () { + // From https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/Object/keys + if (!Object.keys) { + Object.keys = (function() { + var hasOwnProperty = Object.prototype.hasOwnProperty, + hasDontEnumBug = !({ toString: null }).propertyIsEnumerable('toString'), + dontEnums = [ + 'toString', + 'toLocaleString', + 'valueOf', + 'hasOwnProperty', + 'isPrototypeOf', + 'propertyIsEnumerable', + 'constructor' + ], + dontEnumsLength = dontEnums.length; + + return function(obj) { + if (typeof obj !== 'object' && (typeof obj !== 'function' || obj === null)) { + throw new TypeError('Object.keys called on non-object'); + } + + var result = [], prop, i; + + for (prop in obj) { + if (hasOwnProperty.call(obj, prop)) { + result.push(prop); + } + } + + if (hasDontEnumBug) { + for (i = 0; i < dontEnumsLength; i++) { + if (hasOwnProperty.call(obj, dontEnums[i])) { + result.push(dontEnums[i]); + } + } + } + return result; + }; + }()); + } + }; + + // BOOTSTRAP TABLE CLASS DEFINITION + // ====================== + + var BootstrapTable = function (el, options) { + this.options = options; + this.$el = $(el); + this.$el_ = this.$el.clone(); + this.timeoutId_ = 0; + this.timeoutFooter_ = 0; + + this.init(); + }; + + BootstrapTable.DEFAULTS = { + classes: 'table table-hover', + sortClass: undefined, + locale: undefined, + height: undefined, + undefinedText: '-', + sortName: undefined, + sortOrder: 'asc', + sortStable: false, + striped: false, + columns: [[]], + data: [], + totalField: 'total', + dataField: 'rows', + method: 'get', + url: undefined, + ajax: undefined, + cache: true, + contentType: 'application/json', + dataType: 'json', + ajaxOptions: {}, + queryParams: function (params) { + return params; + }, + queryParamsType: 'limit', // undefined + responseHandler: function (res) { + return res; + }, + pagination: false, + onlyInfoPagination: false, + paginationLoop: true, + sidePagination: 'client', // client or server + totalRows: 0, // server side need to set + pageNumber: 1, + pageSize: 10, + pageList: [10, 25, 50, 100], + paginationHAlign: 'right', //right, left + paginationVAlign: 'bottom', //bottom, top, both + paginationDetailHAlign: 'left', //right, left + paginationPreText: '‹', + paginationNextText: '›', + search: false, + searchOnEnterKey: false, + strictSearch: false, + searchAlign: 'right', + selectItemName: 'btSelectItem', + showHeader: true, + showFooter: false, + showColumns: false, + showPaginationSwitch: false, + showRefresh: false, + showToggle: false, + buttonsAlign: 'right', + smartDisplay: true, + escape: false, + minimumCountColumns: 1, + idField: undefined, + uniqueId: undefined, + cardView: false, + detailView: false, + detailFormatter: function (index, row) { + return ''; + }, + trimOnSearch: true, + clickToSelect: false, + singleSelect: false, + toolbar: undefined, + toolbarAlign: 'left', + checkboxHeader: true, + sortable: true, + silentSort: true, + maintainSelected: false, + searchTimeOut: 500, + searchText: '', + iconSize: undefined, + buttonsClass: 'default', + iconsPrefix: 'glyphicon', // glyphicon of fa (font awesome) + icons: { + paginationSwitchDown: 'glyphicon-collapse-down icon-chevron-down', + paginationSwitchUp: 'glyphicon-collapse-up icon-chevron-up', + refresh: 'glyphicon-refresh icon-refresh', + toggle: 'glyphicon-list-alt icon-list-alt', + columns: 'glyphicon-th icon-th', + detailOpen: 'glyphicon-plus icon-plus', + detailClose: 'glyphicon-minus icon-minus' + }, + + customSearch: $.noop, + + customSort: $.noop, + + rowStyle: function (row, index) { + return {}; + }, + + rowAttributes: function (row, index) { + return {}; + }, + + footerStyle: function (row, index) { + return {}; + }, + + onAll: function (name, args) { + return false; + }, + onClickCell: function (field, value, row, $element) { + return false; + }, + onDblClickCell: function (field, value, row, $element) { + return false; + }, + onClickRow: function (item, $element) { + return false; + }, + onDblClickRow: function (item, $element) { + return false; + }, + onSort: function (name, order) { + return false; + }, + onCheck: function (row) { + return false; + }, + onUncheck: function (row) { + return false; + }, + onCheckAll: function (rows) { + return false; + }, + onUncheckAll: function (rows) { + return false; + }, + onCheckSome: function (rows) { + return false; + }, + onUncheckSome: function (rows) { + return false; + }, + onLoadSuccess: function (data) { + return false; + }, + onLoadError: function (status) { + return false; + }, + onColumnSwitch: function (field, checked) { + return false; + }, + onPageChange: function (number, size) { + return false; + }, + onSearch: function (text) { + return false; + }, + onToggle: function (cardView) { + return false; + }, + onPreBody: function (data) { + return false; + }, + onPostBody: function () { + return false; + }, + onPostHeader: function () { + return false; + }, + onExpandRow: function (index, row, $detail) { + return false; + }, + onCollapseRow: function (index, row) { + return false; + }, + onRefreshOptions: function (options) { + return false; + }, + onRefresh: function (params) { + return false; + }, + onResetView: function () { + return false; + } + }; + + BootstrapTable.LOCALES = {}; + + BootstrapTable.LOCALES['en-US'] = BootstrapTable.LOCALES.en = { + formatLoadingMessage: function () { + return 'Loading, please wait...'; + }, + formatRecordsPerPage: function (pageNumber) { + return sprintf('%s rows per page', pageNumber); + }, + formatShowingRows: function (pageFrom, pageTo, totalRows) { + return sprintf('Showing %s to %s of %s rows', pageFrom, pageTo, totalRows); + }, + formatDetailPagination: function (totalRows) { + return sprintf('Showing %s rows', totalRows); + }, + formatSearch: function () { + return 'Search'; + }, + formatNoMatches: function () { + return 'No matching records found'; + }, + formatPaginationSwitch: function () { + return 'Hide/Show pagination'; + }, + formatRefresh: function () { + return 'Refresh'; + }, + formatToggle: function () { + return 'Toggle'; + }, + formatColumns: function () { + return 'Columns'; + }, + formatAllRows: function () { + return 'All'; + } + }; + + $.extend(BootstrapTable.DEFAULTS, BootstrapTable.LOCALES['en-US']); + + BootstrapTable.COLUMN_DEFAULTS = { + radio: false, + checkbox: false, + checkboxEnabled: true, + field: undefined, + title: undefined, + titleTooltip: undefined, + 'class': undefined, + align: undefined, // left, right, center + halign: undefined, // left, right, center + falign: undefined, // left, right, center + valign: undefined, // top, middle, bottom + width: undefined, + sortable: false, + order: 'asc', // asc, desc + visible: true, + switchable: true, + clickToSelect: true, + formatter: undefined, + footerFormatter: undefined, + events: undefined, + sorter: undefined, + sortName: undefined, + cellStyle: undefined, + searchable: true, + searchFormatter: true, + cardVisible: true, + escape : false + }; + + BootstrapTable.EVENTS = { + 'all.bs.table': 'onAll', + 'click-cell.bs.table': 'onClickCell', + 'dbl-click-cell.bs.table': 'onDblClickCell', + 'click-row.bs.table': 'onClickRow', + 'dbl-click-row.bs.table': 'onDblClickRow', + 'sort.bs.table': 'onSort', + 'check.bs.table': 'onCheck', + 'uncheck.bs.table': 'onUncheck', + 'check-all.bs.table': 'onCheckAll', + 'uncheck-all.bs.table': 'onUncheckAll', + 'check-some.bs.table': 'onCheckSome', + 'uncheck-some.bs.table': 'onUncheckSome', + 'load-success.bs.table': 'onLoadSuccess', + 'load-error.bs.table': 'onLoadError', + 'column-switch.bs.table': 'onColumnSwitch', + 'page-change.bs.table': 'onPageChange', + 'search.bs.table': 'onSearch', + 'toggle.bs.table': 'onToggle', + 'pre-body.bs.table': 'onPreBody', + 'post-body.bs.table': 'onPostBody', + 'post-header.bs.table': 'onPostHeader', + 'expand-row.bs.table': 'onExpandRow', + 'collapse-row.bs.table': 'onCollapseRow', + 'refresh-options.bs.table': 'onRefreshOptions', + 'reset-view.bs.table': 'onResetView', + 'refresh.bs.table': 'onRefresh' + }; + + BootstrapTable.prototype.init = function () { + this.initLocale(); + this.initContainer(); + this.initTable(); + this.initHeader(); + this.initData(); + this.initHiddenRows(); + this.initFooter(); + this.initToolbar(); + this.initPagination(); + this.initBody(); + this.initSearchText(); + this.initServer(); + }; + + BootstrapTable.prototype.initLocale = function () { + if (this.options.locale) { + var parts = this.options.locale.split(/-|_/); + parts[0].toLowerCase(); + if (parts[1]) parts[1].toUpperCase(); + if ($.fn.bootstrapTable.locales[this.options.locale]) { + // locale as requested + $.extend(this.options, $.fn.bootstrapTable.locales[this.options.locale]); + } else if ($.fn.bootstrapTable.locales[parts.join('-')]) { + // locale with sep set to - (in case original was specified with _) + $.extend(this.options, $.fn.bootstrapTable.locales[parts.join('-')]); + } else if ($.fn.bootstrapTable.locales[parts[0]]) { + // short locale language code (i.e. 'en') + $.extend(this.options, $.fn.bootstrapTable.locales[parts[0]]); + } + } + }; + + BootstrapTable.prototype.initContainer = function () { + this.$container = $([ + '<div class="bootstrap-table">', + '<div class="fixed-table-toolbar"></div>', + this.options.paginationVAlign === 'top' || this.options.paginationVAlign === 'both' ? + '<div class="fixed-table-pagination" style="clear: both;"></div>' : + '', + '<div class="fixed-table-container">', + '<div class="fixed-table-header"><table></table></div>', + '<div class="fixed-table-body">', + '<div class="fixed-table-loading">', + this.options.formatLoadingMessage(), + '</div>', + '</div>', + '<div class="fixed-table-footer"><table><tr></tr></table></div>', + this.options.paginationVAlign === 'bottom' || this.options.paginationVAlign === 'both' ? + '<div class="fixed-table-pagination"></div>' : + '', + '</div>', + '</div>' + ].join('')); + + this.$container.insertAfter(this.$el); + this.$tableContainer = this.$container.find('.fixed-table-container'); + this.$tableHeader = this.$container.find('.fixed-table-header'); + this.$tableBody = this.$container.find('.fixed-table-body'); + this.$tableLoading = this.$container.find('.fixed-table-loading'); + this.$tableFooter = this.$container.find('.fixed-table-footer'); + this.$toolbar = this.$container.find('.fixed-table-toolbar'); + this.$pagination = this.$container.find('.fixed-table-pagination'); + + this.$tableBody.append(this.$el); + this.$container.after('<div class="clearfix"></div>'); + + this.$el.addClass(this.options.classes); + if (this.options.striped) { + this.$el.addClass('table-striped'); + } + if ($.inArray('table-no-bordered', this.options.classes.split(' ')) !== -1) { + this.$tableContainer.addClass('table-no-bordered'); + } + }; + + BootstrapTable.prototype.initTable = function () { + var that = this, + columns = [], + data = []; + + this.$header = this.$el.find('>thead'); + if (!this.$header.length) { + this.$header = $('<thead></thead>').appendTo(this.$el); + } + this.$header.find('tr').each(function () { + var column = []; + + $(this).find('th').each(function () { + // Fix #2014 - getFieldIndex and elsewhere assume this is string, causes issues if not + if (typeof $(this).data('field') !== 'undefined') { + $(this).data('field', $(this).data('field') + ''); + } + column.push($.extend({}, { + title: $(this).html(), + 'class': $(this).attr('class'), + titleTooltip: $(this).attr('title'), + rowspan: $(this).attr('rowspan') ? +$(this).attr('rowspan') : undefined, + colspan: $(this).attr('colspan') ? +$(this).attr('colspan') : undefined + }, $(this).data())); + }); + columns.push(column); + }); + if (!$.isArray(this.options.columns[0])) { + this.options.columns = [this.options.columns]; + } + this.options.columns = $.extend(true, [], columns, this.options.columns); + this.columns = []; + + setFieldIndex(this.options.columns); + $.each(this.options.columns, function (i, columns) { + $.each(columns, function (j, column) { + column = $.extend({}, BootstrapTable.COLUMN_DEFAULTS, column); + + if (typeof column.fieldIndex !== 'undefined') { + that.columns[column.fieldIndex] = column; + } + + that.options.columns[i][j] = column; + }); + }); + + // if options.data is setting, do not process tbody data + if (this.options.data.length) { + return; + } + + var m = []; + this.$el.find('>tbody>tr').each(function (y) { + var row = {}; + + // save tr's id, class and data-* attributes + row._id = $(this).attr('id'); + row._class = $(this).attr('class'); + row._data = getRealDataAttr($(this).data()); + + $(this).find('>td').each(function (x) { + var $this = $(this), + cspan = +$this.attr('colspan') || 1, + rspan = +$this.attr('rowspan') || 1, + tx, ty; + + for (; m[y] && m[y][x]; x++); //skip already occupied cells in current row + + for (tx = x; tx < x + cspan; tx++) { //mark matrix elements occupied by current cell with true + for (ty = y; ty < y + rspan; ty++) { + if (!m[ty]) { //fill missing rows + m[ty] = []; + } + m[ty][tx] = true; + } + } + + var field = that.columns[x].field; + + row[field] = $(this).html(); + // save td's id, class and data-* attributes + row['_' + field + '_id'] = $(this).attr('id'); + row['_' + field + '_class'] = $(this).attr('class'); + row['_' + field + '_rowspan'] = $(this).attr('rowspan'); + row['_' + field + '_colspan'] = $(this).attr('colspan'); + row['_' + field + '_title'] = $(this).attr('title'); + row['_' + field + '_data'] = getRealDataAttr($(this).data()); + }); + data.push(row); + }); + this.options.data = data; + if (data.length) this.fromHtml = true; + }; + + BootstrapTable.prototype.initHeader = function () { + var that = this, + visibleColumns = {}, + html = []; + + this.header = { + fields: [], + styles: [], + classes: [], + formatters: [], + events: [], + sorters: [], + sortNames: [], + cellStyles: [], + searchables: [] + }; + + $.each(this.options.columns, function (i, columns) { + html.push('<tr>'); + + if (i === 0 && !that.options.cardView && that.options.detailView) { + html.push(sprintf('<th class="detail" rowspan="%s"><div class="fht-cell"></div></th>', + that.options.columns.length)); + } + + $.each(columns, function (j, column) { + var text = '', + halign = '', // header align style + align = '', // body align style + style = '', + class_ = sprintf(' class="%s"', column['class']), + order = that.options.sortOrder || column.order, + unitWidth = 'px', + width = column.width; + + if (column.width !== undefined && (!that.options.cardView)) { + if (typeof column.width === 'string') { + if (column.width.indexOf('%') !== -1) { + unitWidth = '%'; + } + } + } + if (column.width && typeof column.width === 'string') { + width = column.width.replace('%', '').replace('px', ''); + } + + halign = sprintf('text-align: %s; ', column.halign ? column.halign : column.align); + align = sprintf('text-align: %s; ', column.align); + style = sprintf('vertical-align: %s; ', column.valign); + style += sprintf('width: %s; ', (column.checkbox || column.radio) && !width ? + '36px' : (width ? width + unitWidth : undefined)); + + if (typeof column.fieldIndex !== 'undefined') { + that.header.fields[column.fieldIndex] = column.field; + that.header.styles[column.fieldIndex] = align + style; + that.header.classes[column.fieldIndex] = class_; + that.header.formatters[column.fieldIndex] = column.formatter; + that.header.events[column.fieldIndex] = column.events; + that.header.sorters[column.fieldIndex] = column.sorter; + that.header.sortNames[column.fieldIndex] = column.sortName; + that.header.cellStyles[column.fieldIndex] = column.cellStyle; + that.header.searchables[column.fieldIndex] = column.searchable; + + if (!column.visible) { + return; + } + + if (that.options.cardView && (!column.cardVisible)) { + return; + } + + visibleColumns[column.field] = column; + } + + html.push('<th' + sprintf(' title="%s"', column.titleTooltip), + column.checkbox || column.radio ? + sprintf(' class="bs-checkbox %s"', column['class'] || '') : + class_, + sprintf(' style="%s"', halign + style), + sprintf(' rowspan="%s"', column.rowspan), + sprintf(' colspan="%s"', column.colspan), + sprintf(' data-field="%s"', column.field), + '>'); + + html.push(sprintf('<div class="th-inner %s">', that.options.sortable && column.sortable ? + 'sortable both' : '')); + + text = that.options.escape ? escapeHTML(column.title) : column.title; + + if (column.checkbox) { + if (!that.options.singleSelect && that.options.checkboxHeader) { + text = '<input name="btSelectAll" type="checkbox" />'; + } + that.header.stateField = column.field; + } + if (column.radio) { + text = ''; + that.header.stateField = column.field; + that.options.singleSelect = true; + } + + html.push(text); + html.push('</div>'); + html.push('<div class="fht-cell"></div>'); + html.push('</div>'); + html.push('</th>'); + }); + html.push('</tr>'); + }); + + this.$header.html(html.join('')); + this.$header.find('th[data-field]').each(function (i) { + $(this).data(visibleColumns[$(this).data('field')]); + }); + this.$container.off('click', '.th-inner').on('click', '.th-inner', function (event) { + var target = $(this); + + if (that.options.detailView) { + if (target.closest('.bootstrap-table')[0] !== that.$container[0]) + return false; + } + + if (that.options.sortable && target.parent().data().sortable) { + that.onSort(event); + } + }); + + this.$header.children().children().off('keypress').on('keypress', function (event) { + if (that.options.sortable && $(this).data().sortable) { + var code = event.keyCode || event.which; + if (code == 13) { //Enter keycode + that.onSort(event); + } + } + }); + + $(window).off('resize.bootstrap-table'); + if (!this.options.showHeader || this.options.cardView) { + this.$header.hide(); + this.$tableHeader.hide(); + this.$tableLoading.css('top', 0); + } else { + this.$header.show(); + this.$tableHeader.show(); + this.$tableLoading.css('top', this.$header.outerHeight() + 1); + // Assign the correct sortable arrow + this.getCaret(); + $(window).on('resize.bootstrap-table', $.proxy(this.resetWidth, this)); + } + + this.$selectAll = this.$header.find('[name="btSelectAll"]'); + this.$selectAll.off('click').on('click', function () { + var checked = $(this).prop('checked'); + that[checked ? 'checkAll' : 'uncheckAll'](); + that.updateSelected(); + }); + }; + + BootstrapTable.prototype.initFooter = function () { + if (!this.options.showFooter || this.options.cardView) { + this.$tableFooter.hide(); + } else { + this.$tableFooter.show(); + } + }; + + /** + * @param data + * @param type: append / prepend + */ + BootstrapTable.prototype.initData = function (data, type) { + if (type === 'append') { + this.data = this.data.concat(data); + } else if (type === 'prepend') { + this.data = [].concat(data).concat(this.data); + } else { + this.data = data || this.options.data; + } + + // Fix #839 Records deleted when adding new row on filtered table + if (type === 'append') { + this.options.data = this.options.data.concat(data); + } else if (type === 'prepend') { + this.options.data = [].concat(data).concat(this.options.data); + } else { + this.options.data = this.data; + } + + if (this.options.sidePagination === 'server') { + return; + } + this.initSort(); + }; + + BootstrapTable.prototype.initSort = function () { + var that = this, + name = this.options.sortName, + order = this.options.sortOrder === 'desc' ? -1 : 1, + index = $.inArray(this.options.sortName, this.header.fields), + timeoutId = 0; + + if (this.options.customSort !== $.noop) { + this.options.customSort.apply(this, [this.options.sortName, this.options.sortOrder]); + return; + } + + if (index !== -1) { + if (this.options.sortStable) { + $.each(this.data, function (i, row) { + if (!row.hasOwnProperty('_position')) row._position = i; + }); + } + + this.data.sort(function (a, b) { + if (that.header.sortNames[index]) { + name = that.header.sortNames[index]; + } + var aa = getItemField(a, name, that.options.escape), + bb = getItemField(b, name, that.options.escape), + value = calculateObjectValue(that.header, that.header.sorters[index], [aa, bb]); + + if (value !== undefined) { + return order * value; + } + + // Fix #161: undefined or null string sort bug. + if (aa === undefined || aa === null) { + aa = ''; + } + if (bb === undefined || bb === null) { + bb = ''; + } + + if (that.options.sortStable && aa === bb) { + aa = a._position; + bb = b._position; + } + + // IF both values are numeric, do a numeric comparison + if ($.isNumeric(aa) && $.isNumeric(bb)) { + // Convert numerical values form string to float. + aa = parseFloat(aa); + bb = parseFloat(bb); + if (aa < bb) { + return order * -1; + } + return order; + } + + if (aa === bb) { + return 0; + } + + // If value is not a string, convert to string + if (typeof aa !== 'string') { + aa = aa.toString(); + } + + if (aa.localeCompare(bb) === -1) { + return order * -1; + } + + return order; + }); + + if (this.options.sortClass !== undefined) { + clearTimeout(timeoutId); + timeoutId = setTimeout(function () { + that.$el.removeClass(that.options.sortClass); + var index = that.$header.find(sprintf('[data-field="%s"]', + that.options.sortName).index() + 1); + that.$el.find(sprintf('tr td:nth-child(%s)', index)) + .addClass(that.options.sortClass); + }, 250); + } + } + }; + + BootstrapTable.prototype.onSort = function (event) { + var $this = event.type === "keypress" ? $(event.currentTarget) : $(event.currentTarget).parent(), + $this_ = this.$header.find('th').eq($this.index()); + + this.$header.add(this.$header_).find('span.order').remove(); + + if (this.options.sortName === $this.data('field')) { + this.options.sortOrder = this.options.sortOrder === 'asc' ? 'desc' : 'asc'; + } else { + this.options.sortName = $this.data('field'); + this.options.sortOrder = $this.data('order') === 'asc' ? 'desc' : 'asc'; + } + this.trigger('sort', this.options.sortName, this.options.sortOrder); + + $this.add($this_).data('order', this.options.sortOrder); + + // Assign the correct sortable arrow + this.getCaret(); + + if (this.options.sidePagination === 'server') { + this.initServer(this.options.silentSort); + return; + } + + this.initSort(); + this.initBody(); + }; + + BootstrapTable.prototype.initToolbar = function () { + var that = this, + html = [], + timeoutId = 0, + $keepOpen, + $search, + switchableCount = 0; + + if (this.$toolbar.find('.bs-bars').children().length) { + $('body').append($(this.options.toolbar)); + } + this.$toolbar.html(''); + + if (typeof this.options.toolbar === 'string' || typeof this.options.toolbar === 'object') { + $(sprintf('<div class="bs-bars pull-%s"></div>', this.options.toolbarAlign)) + .appendTo(this.$toolbar) + .append($(this.options.toolbar)); + } + + // showColumns, showToggle, showRefresh + html = [sprintf('<div class="columns columns-%s btn-group pull-%s">', + this.options.buttonsAlign, this.options.buttonsAlign)]; + + if (typeof this.options.icons === 'string') { + this.options.icons = calculateObjectValue(null, this.options.icons); + } + + if (this.options.showPaginationSwitch) { + html.push(sprintf('<button class="btn' + + sprintf(' btn-%s', this.options.buttonsClass) + + sprintf(' btn-%s', this.options.iconSize) + + '" type="button" name="paginationSwitch" aria-label="pagination Switch" title="%s">', + this.options.formatPaginationSwitch()), + sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.paginationSwitchDown), + '</button>'); + } + + if (this.options.showRefresh) { + html.push(sprintf('<button class="btn' + + sprintf(' btn-%s', this.options.buttonsClass) + + sprintf(' btn-%s', this.options.iconSize) + + '" type="button" name="refresh" aria-label="refresh" title="%s">', + this.options.formatRefresh()), + sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.refresh), + '</button>'); + } + + if (this.options.showToggle) { + html.push(sprintf('<button class="btn' + + sprintf(' btn-%s', this.options.buttonsClass) + + sprintf(' btn-%s', this.options.iconSize) + + '" type="button" name="toggle" aria-label="toggle" title="%s">', + this.options.formatToggle()), + sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.toggle), + '</button>'); + } + + if (this.options.showColumns) { + html.push(sprintf('<div class="keep-open btn-group" title="%s">', + this.options.formatColumns()), + '<button type="button" aria-label="columns" class="btn' + + sprintf(' btn-%s', this.options.buttonsClass) + + sprintf(' btn-%s', this.options.iconSize) + + ' dropdown-toggle" data-toggle="dropdown">', + sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.columns), + ' <span class="caret"></span>', + '</button>', + '<ul class="dropdown-menu" role="menu">'); + + $.each(this.columns, function (i, column) { + if (column.radio || column.checkbox) { + return; + } + + if (that.options.cardView && !column.cardVisible) { + return; + } + + var checked = column.visible ? ' checked="checked"' : ''; + + if (column.switchable) { + html.push(sprintf('<li role="menuitem">' + + '<label><input type="checkbox" data-field="%s" value="%s"%s> %s</label>' + + '</li>', column.field, i, checked, column.title)); + switchableCount++; + } + }); + html.push('</ul>', + '</div>'); + } + + html.push('</div>'); + + // Fix #188: this.showToolbar is for extensions + if (this.showToolbar || html.length > 2) { + this.$toolbar.append(html.join('')); + } + + if (this.options.showPaginationSwitch) { + this.$toolbar.find('button[name="paginationSwitch"]') + .off('click').on('click', $.proxy(this.togglePagination, this)); + } + + if (this.options.showRefresh) { + this.$toolbar.find('button[name="refresh"]') + .off('click').on('click', $.proxy(this.refresh, this)); + } + + if (this.options.showToggle) { + this.$toolbar.find('button[name="toggle"]') + .off('click').on('click', function () { + that.toggleView(); + }); + } + + if (this.options.showColumns) { + $keepOpen = this.$toolbar.find('.keep-open'); + + if (switchableCount <= this.options.minimumCountColumns) { + $keepOpen.find('input').prop('disabled', true); + } + + $keepOpen.find('li').off('click').on('click', function (event) { + event.stopImmediatePropagation(); + }); + $keepOpen.find('input').off('click').on('click', function () { + var $this = $(this); + + that.toggleColumn($(this).val(), $this.prop('checked'), false); + that.trigger('column-switch', $(this).data('field'), $this.prop('checked')); + }); + } + + if (this.options.search) { + html = []; + html.push( + '<div class="pull-' + this.options.searchAlign + ' search">', + sprintf('<input class="form-control' + + sprintf(' input-%s', this.options.iconSize) + + '" type="text" placeholder="%s">', + this.options.formatSearch()), + '</div>'); + + this.$toolbar.append(html.join('')); + $search = this.$toolbar.find('.search input'); + $search.off('keyup drop blur').on('keyup drop blur', function (event) { + if (that.options.searchOnEnterKey && event.keyCode !== 13) { + return; + } + + if ($.inArray(event.keyCode, [37, 38, 39, 40]) > -1) { + return; + } + + clearTimeout(timeoutId); // doesn't matter if it's 0 + timeoutId = setTimeout(function () { + that.onSearch(event); + }, that.options.searchTimeOut); + }); + + if (isIEBrowser()) { + $search.off('mouseup').on('mouseup', function (event) { + clearTimeout(timeoutId); // doesn't matter if it's 0 + timeoutId = setTimeout(function () { + that.onSearch(event); + }, that.options.searchTimeOut); + }); + } + } + }; + + BootstrapTable.prototype.onSearch = function (event) { + var text = $.trim($(event.currentTarget).val()); + + // trim search input + if (this.options.trimOnSearch && $(event.currentTarget).val() !== text) { + $(event.currentTarget).val(text); + } + + if (text === this.searchText) { + return; + } + this.searchText = text; + this.options.searchText = text; + + this.options.pageNumber = 1; + this.initSearch(); + this.updatePagination(); + this.trigger('search', text); + }; + + BootstrapTable.prototype.initSearch = function () { + var that = this; + + if (this.options.sidePagination !== 'server') { + if (this.options.customSearch !== $.noop) { + this.options.customSearch.apply(this, [this.searchText]); + return; + } + + var s = this.searchText && (this.options.escape ? + escapeHTML(this.searchText) : this.searchText).toLowerCase(); + var f = $.isEmptyObject(this.filterColumns) ? null : this.filterColumns; + + // Check filter + this.data = f ? $.grep(this.options.data, function (item, i) { + for (var key in f) { + if ($.isArray(f[key]) && $.inArray(item[key], f[key]) === -1 || + !$.isArray(f[key]) && item[key] !== f[key]) { + return false; + } + } + return true; + }) : this.options.data; + + this.data = s ? $.grep(this.data, function (item, i) { + for (var j = 0; j < that.header.fields.length; j++) { + + if (!that.header.searchables[j]) { + continue; + } + + var key = $.isNumeric(that.header.fields[j]) ? parseInt(that.header.fields[j], 10) : that.header.fields[j]; + var column = that.columns[getFieldIndex(that.columns, key)]; + var value; + + if (typeof key === 'string') { + value = item; + var props = key.split('.'); + for (var prop_index = 0; prop_index < props.length; prop_index++) { + value = value[props[prop_index]]; + } + + // Fix #142: respect searchForamtter boolean + if (column && column.searchFormatter) { + value = calculateObjectValue(column, + that.header.formatters[j], [value, item, i], value); + } + } else { + value = item[key]; + } + + if (typeof value === 'string' || typeof value === 'number') { + if (that.options.strictSearch) { + if ((value + '').toLowerCase() === s) { + return true; + } + } else { + if ((value + '').toLowerCase().indexOf(s) !== -1) { + return true; + } + } + } + } + return false; + }) : this.data; + } + }; + + BootstrapTable.prototype.initPagination = function () { + if (!this.options.pagination) { + this.$pagination.hide(); + return; + } else { + this.$pagination.show(); + } + + var that = this, + html = [], + $allSelected = false, + i, from, to, + $pageList, + $first, $pre, + $next, $last, + $number, + data = this.getData(), + pageList = this.options.pageList; + + if (this.options.sidePagination !== 'server') { + this.options.totalRows = data.length; + } + + this.totalPages = 0; + if (this.options.totalRows) { + if (this.options.pageSize === this.options.formatAllRows()) { + this.options.pageSize = this.options.totalRows; + $allSelected = true; + } else if (this.options.pageSize === this.options.totalRows) { + // Fix #667 Table with pagination, + // multiple pages and a search that matches to one page throws exception + var pageLst = typeof this.options.pageList === 'string' ? + this.options.pageList.replace('[', '').replace(']', '') + .replace(/ /g, '').toLowerCase().split(',') : this.options.pageList; + if ($.inArray(this.options.formatAllRows().toLowerCase(), pageLst) > -1) { + $allSelected = true; + } + } + + this.totalPages = ~~((this.options.totalRows - 1) / this.options.pageSize) + 1; + + this.options.totalPages = this.totalPages; + } + if (this.totalPages > 0 && this.options.pageNumber > this.totalPages) { + this.options.pageNumber = this.totalPages; + } + + this.pageFrom = (this.options.pageNumber - 1) * this.options.pageSize + 1; + this.pageTo = this.options.pageNumber * this.options.pageSize; + if (this.pageTo > this.options.totalRows) { + this.pageTo = this.options.totalRows; + } + + html.push( + '<div class="pull-' + this.options.paginationDetailHAlign + ' pagination-detail">', + '<span class="pagination-info">', + this.options.onlyInfoPagination ? this.options.formatDetailPagination(this.options.totalRows) : + this.options.formatShowingRows(this.pageFrom, this.pageTo, this.options.totalRows), + '</span>'); + + if (!this.options.onlyInfoPagination) { + html.push('<span class="page-list">'); + + var pageNumber = [ + sprintf('<span class="btn-group %s">', + this.options.paginationVAlign === 'top' || this.options.paginationVAlign === 'both' ? + 'dropdown' : 'dropup'), + '<button type="button" class="btn' + + sprintf(' btn-%s', this.options.buttonsClass) + + sprintf(' btn-%s', this.options.iconSize) + + ' dropdown-toggle" data-toggle="dropdown">', + '<span class="page-size">', + $allSelected ? this.options.formatAllRows() : this.options.pageSize, + '</span>', + ' <span class="caret"></span>', + '</button>', + '<ul class="dropdown-menu" role="menu">' + ]; + + if (typeof this.options.pageList === 'string') { + var list = this.options.pageList.replace('[', '').replace(']', '') + .replace(/ /g, '').split(','); + + pageList = []; + $.each(list, function (i, value) { + pageList.push(value.toUpperCase() === that.options.formatAllRows().toUpperCase() ? + that.options.formatAllRows() : +value); + }); + } + + $.each(pageList, function (i, page) { + if (!that.options.smartDisplay || i === 0 || pageList[i - 1] < that.options.totalRows) { + var active; + if ($allSelected) { + active = page === that.options.formatAllRows() ? ' class="active"' : ''; + } else { + active = page === that.options.pageSize ? ' class="active"' : ''; + } + pageNumber.push(sprintf('<li role="menuitem"%s><a href="#">%s</a></li>', active, page)); + } + }); + pageNumber.push('</ul></span>'); + + html.push(this.options.formatRecordsPerPage(pageNumber.join(''))); + html.push('</span>'); + + html.push('</div>', + '<div class="pull-' + this.options.paginationHAlign + ' pagination">', + '<ul class="pagination' + sprintf(' pagination-%s', this.options.iconSize) + '">', + '<li class="page-pre"><a href="#">' + this.options.paginationPreText + '</a></li>'); + + if (this.totalPages < 5) { + from = 1; + to = this.totalPages; + } else { + from = this.options.pageNumber - 2; + to = from + 4; + if (from < 1) { + from = 1; + to = 5; + } + if (to > this.totalPages) { + to = this.totalPages; + from = to - 4; + } + } + + if (this.totalPages >= 6) { + if (this.options.pageNumber >= 3) { + html.push('<li class="page-first' + (1 === this.options.pageNumber ? ' active' : '') + '">', + '<a href="#">', 1, '</a>', + '</li>'); + + from++; + } + + if (this.options.pageNumber >= 4) { + if (this.options.pageNumber == 4 || this.totalPages == 6 || this.totalPages == 7) { + from--; + } else { + html.push('<li class="page-first-separator disabled">', + '<a href="#">...</a>', + '</li>'); + } + + to--; + } + } + + if (this.totalPages >= 7) { + if (this.options.pageNumber >= (this.totalPages - 2)) { + from--; + } + } + + if (this.totalPages == 6) { + if (this.options.pageNumber >= (this.totalPages - 2)) { + to++; + } + } else if (this.totalPages >= 7) { + if (this.totalPages == 7 || this.options.pageNumber >= (this.totalPages - 3)) { + to++; + } + } + + for (i = from; i <= to; i++) { + html.push('<li class="page-number' + (i === this.options.pageNumber ? ' active' : '') + '">', + '<a href="#">', i, '</a>', + '</li>'); + } + + if (this.totalPages >= 8) { + if (this.options.pageNumber <= (this.totalPages - 4)) { + html.push('<li class="page-last-separator disabled">', + '<a href="#">...</a>', + '</li>'); + } + } + + if (this.totalPages >= 6) { + if (this.options.pageNumber <= (this.totalPages - 3)) { + html.push('<li class="page-last' + (this.totalPages === this.options.pageNumber ? ' active' : '') + '">', + '<a href="#">', this.totalPages, '</a>', + '</li>'); + } + } + + html.push( + '<li class="page-next"><a href="#">' + this.options.paginationNextText + '</a></li>', + '</ul>', + '</div>'); + } + this.$pagination.html(html.join('')); + + if (!this.options.onlyInfoPagination) { + $pageList = this.$pagination.find('.page-list a'); + $first = this.$pagination.find('.page-first'); + $pre = this.$pagination.find('.page-pre'); + $next = this.$pagination.find('.page-next'); + $last = this.$pagination.find('.page-last'); + $number = this.$pagination.find('.page-number'); + + if (this.options.smartDisplay) { + if (this.totalPages <= 1) { + this.$pagination.find('div.pagination').hide(); + } + if (pageList.length < 2 || this.options.totalRows <= pageList[0]) { + this.$pagination.find('span.page-list').hide(); + } + + // when data is empty, hide the pagination + this.$pagination[this.getData().length ? 'show' : 'hide'](); + } + + if (!this.options.paginationLoop) { + if (this.options.pageNumber === 1) { + $pre.addClass('disabled'); + } + if (this.options.pageNumber === this.totalPages) { + $next.addClass('disabled'); + } + } + + if ($allSelected) { + this.options.pageSize = this.options.formatAllRows(); + } + $pageList.off('click').on('click', $.proxy(this.onPageListChange, this)); + $first.off('click').on('click', $.proxy(this.onPageFirst, this)); + $pre.off('click').on('click', $.proxy(this.onPagePre, this)); + $next.off('click').on('click', $.proxy(this.onPageNext, this)); + $last.off('click').on('click', $.proxy(this.onPageLast, this)); + $number.off('click').on('click', $.proxy(this.onPageNumber, this)); + } + }; + + BootstrapTable.prototype.updatePagination = function (event) { + // Fix #171: IE disabled button can be clicked bug. + if (event && $(event.currentTarget).hasClass('disabled')) { + return; + } + + if (!this.options.maintainSelected) { + this.resetRows(); + } + + this.initPagination(); + if (this.options.sidePagination === 'server') { + this.initServer(); + } else { + this.initBody(); + } + + this.trigger('page-change', this.options.pageNumber, this.options.pageSize); + }; + + BootstrapTable.prototype.onPageListChange = function (event) { + var $this = $(event.currentTarget); + + $this.parent().addClass('active').siblings().removeClass('active'); + this.options.pageSize = $this.text().toUpperCase() === this.options.formatAllRows().toUpperCase() ? + this.options.formatAllRows() : +$this.text(); + this.$toolbar.find('.page-size').text(this.options.pageSize); + + this.updatePagination(event); + return false; + }; + + BootstrapTable.prototype.onPageFirst = function (event) { + this.options.pageNumber = 1; + this.updatePagination(event); + return false; + }; + + BootstrapTable.prototype.onPagePre = function (event) { + if ((this.options.pageNumber - 1) === 0) { + this.options.pageNumber = this.options.totalPages; + } else { + this.options.pageNumber--; + } + this.updatePagination(event); + return false; + }; + + BootstrapTable.prototype.onPageNext = function (event) { + if ((this.options.pageNumber + 1) > this.options.totalPages) { + this.options.pageNumber = 1; + } else { + this.options.pageNumber++; + } + this.updatePagination(event); + return false; + }; + + BootstrapTable.prototype.onPageLast = function (event) { + this.options.pageNumber = this.totalPages; + this.updatePagination(event); + return false; + }; + + BootstrapTable.prototype.onPageNumber = function (event) { + if (this.options.pageNumber === +$(event.currentTarget).text()) { + return; + } + this.options.pageNumber = +$(event.currentTarget).text(); + this.updatePagination(event); + return false; + }; + + BootstrapTable.prototype.initRow = function(item, i, data, parentDom) { + var that=this, + key, + html = [], + style = {}, + csses = [], + data_ = '', + attributes = {}, + htmlAttributes = []; + + if ($.inArray(item, this.hiddenRows) > -1) { + return; + } + + style = calculateObjectValue(this.options, this.options.rowStyle, [item, i], style); + + if (style && style.css) { + for (key in style.css) { + csses.push(key + ': ' + style.css[key]); + } + } + + attributes = calculateObjectValue(this.options, + this.options.rowAttributes, [item, i], attributes); + + if (attributes) { + for (key in attributes) { + htmlAttributes.push(sprintf('%s="%s"', key, escapeHTML(attributes[key]))); + } + } + + if (item._data && !$.isEmptyObject(item._data)) { + $.each(item._data, function(k, v) { + // ignore data-index + if (k === 'index') { + return; + } + data_ += sprintf(' data-%s="%s"', k, v); + }); + } + + html.push('<tr', + sprintf(' %s', htmlAttributes.join(' ')), + sprintf(' id="%s"', $.isArray(item) ? undefined : item._id), + sprintf(' class="%s"', style.classes || ($.isArray(item) ? undefined : item._class)), + sprintf(' data-index="%s"', i), + sprintf(' data-uniqueid="%s"', item[this.options.uniqueId]), + sprintf('%s', data_), + '>' + ); + + if (this.options.cardView) { + html.push(sprintf('<td colspan="%s"><div class="card-views">', this.header.fields.length)); + } + + if (!this.options.cardView && this.options.detailView) { + html.push('<td>', + '<a class="detail-icon" href="#">', + sprintf('<i class="%s %s"></i>', this.options.iconsPrefix, this.options.icons.detailOpen), + '</a>', + '</td>'); + } + + $.each(this.header.fields, function(j, field) { + var text = '', + value_ = getItemField(item, field, that.options.escape), + value = '', + type = '', + cellStyle = {}, + id_ = '', + class_ = that.header.classes[j], + data_ = '', + rowspan_ = '', + colspan_ = '', + title_ = '', + column = that.columns[j]; + + if (that.fromHtml && typeof value_ === 'undefined') { + return; + } + + if (!column.visible) { + return; + } + + if (that.options.cardView && (!column.cardVisible)) { + return; + } + + if (column.escape) { + value_ = escapeHTML(value_); + } + + style = sprintf('style="%s"', csses.concat(that.header.styles[j]).join('; ')); + + // handle td's id and class + if (item['_' + field + '_id']) { + id_ = sprintf(' id="%s"', item['_' + field + '_id']); + } + if (item['_' + field + '_class']) { + class_ = sprintf(' class="%s"', item['_' + field + '_class']); + } + if (item['_' + field + '_rowspan']) { + rowspan_ = sprintf(' rowspan="%s"', item['_' + field + '_rowspan']); + } + if (item['_' + field + '_colspan']) { + colspan_ = sprintf(' colspan="%s"', item['_' + field + '_colspan']); + } + if (item['_' + field + '_title']) { + title_ = sprintf(' title="%s"', item['_' + field + '_title']); + } + cellStyle = calculateObjectValue(that.header, + that.header.cellStyles[j], [value_, item, i, field], cellStyle); + if (cellStyle.classes) { + class_ = sprintf(' class="%s"', cellStyle.classes); + } + if (cellStyle.css) { + var csses_ = []; + for (var key in cellStyle.css) { + csses_.push(key + ': ' + cellStyle.css[key]); + } + style = sprintf('style="%s"', csses_.concat(that.header.styles[j]).join('; ')); + } + + value = calculateObjectValue(column, + that.header.formatters[j], [value_, item, i], value_); + + if (item['_' + field + '_data'] && !$.isEmptyObject(item['_' + field + '_data'])) { + $.each(item['_' + field + '_data'], function(k, v) { + // ignore data-index + if (k === 'index') { + return; + } + data_ += sprintf(' data-%s="%s"', k, v); + }); + } + + if (column.checkbox || column.radio) { + type = column.checkbox ? 'checkbox' : type; + type = column.radio ? 'radio' : type; + + text = [sprintf(that.options.cardView ? + '<div class="card-view %s">' : '<td class="bs-checkbox %s">', column['class'] || ''), + '<input' + + sprintf(' data-index="%s"', i) + + sprintf(' name="%s"', that.options.selectItemName) + + sprintf(' type="%s"', type) + + sprintf(' value="%s"', item[that.options.idField]) + + sprintf(' checked="%s"', value === true || + (value_ || value && value.checked) ? 'checked' : undefined) + + sprintf(' disabled="%s"', !column.checkboxEnabled || + (value && value.disabled) ? 'disabled' : undefined) + + ' />', + that.header.formatters[j] && typeof value === 'string' ? value : '', + that.options.cardView ? '</div>' : '</td>' + ].join(''); + + item[that.header.stateField] = value === true || (value && value.checked); + } else { + value = typeof value === 'undefined' || value === null ? + that.options.undefinedText : value; + + text = that.options.cardView ? ['<div class="card-view">', + that.options.showHeader ? sprintf('<span class="title" %s>%s</span>', style, + getPropertyFromOther(that.columns, 'field', 'title', field)) : '', + sprintf('<span class="value">%s</span>', value), + '</div>' + ].join('') : [sprintf('<td%s %s %s %s %s %s %s>', + id_, class_, style, data_, rowspan_, colspan_, title_), + value, + '</td>' + ].join(''); + + // Hide empty data on Card view when smartDisplay is set to true. + if (that.options.cardView && that.options.smartDisplay && value === '') { + // Should set a placeholder for event binding correct fieldIndex + text = '<div class="card-view"></div>'; + } + } + + html.push(text); + }); + + if (this.options.cardView) { + html.push('</div></td>'); + } + html.push('</tr>'); + + return html.join(' '); + }; + + BootstrapTable.prototype.initBody = function (fixedScroll) { + var that = this, + html = [], + data = this.getData(); + + this.trigger('pre-body', data); + + this.$body = this.$el.find('>tbody'); + if (!this.$body.length) { + this.$body = $('<tbody></tbody>').appendTo(this.$el); + } + + //Fix #389 Bootstrap-table-flatJSON is not working + + if (!this.options.pagination || this.options.sidePagination === 'server') { + this.pageFrom = 1; + this.pageTo = data.length; + } + + var trFragments = $(document.createDocumentFragment()); + var hasTr; + + for (var i = this.pageFrom - 1; i < this.pageTo; i++) { + var item = data[i]; + var tr = this.initRow(item, i, data, trFragments); + hasTr = hasTr || !!tr; + if (tr&&tr!==true) { + trFragments.append(tr); + } + } + + // show no records + if (!hasTr) { + trFragments.append('<tr class="no-records-found">' + + sprintf('<td colspan="%s">%s</td>', + this.$header.find('th').length, + this.options.formatNoMatches()) + + '</tr>'); + } + + this.$body.html(trFragments); + + if (!fixedScroll) { + this.scrollTo(0); + } + + // click to select by column + this.$body.find('> tr[data-index] > td').off('click dblclick').on('click dblclick', function (e) { + var $td = $(this), + $tr = $td.parent(), + item = that.data[$tr.data('index')], + index = $td[0].cellIndex, + fields = that.getVisibleFields(), + field = fields[that.options.detailView && !that.options.cardView ? index - 1 : index], + column = that.columns[getFieldIndex(that.columns, field)], + value = getItemField(item, field, that.options.escape); + + if ($td.find('.detail-icon').length) { + return; + } + + that.trigger(e.type === 'click' ? 'click-cell' : 'dbl-click-cell', field, value, item, $td); + that.trigger(e.type === 'click' ? 'click-row' : 'dbl-click-row', item, $tr, field); + + // if click to select - then trigger the checkbox/radio click + if (e.type === 'click' && that.options.clickToSelect && column.clickToSelect) { + var $selectItem = $tr.find(sprintf('[name="%s"]', that.options.selectItemName)); + if ($selectItem.length) { + $selectItem[0].click(); // #144: .trigger('click') bug + } + } + }); + + this.$body.find('> tr[data-index] > td > .detail-icon').off('click').on('click', function () { + var $this = $(this), + $tr = $this.parent().parent(), + index = $tr.data('index'), + row = data[index]; // Fix #980 Detail view, when searching, returns wrong row + + // remove and update + if ($tr.next().is('tr.detail-view')) { + $this.find('i').attr('class', sprintf('%s %s', that.options.iconsPrefix, that.options.icons.detailOpen)); + that.trigger('collapse-row', index, row); + $tr.next().remove(); + } else { + $this.find('i').attr('class', sprintf('%s %s', that.options.iconsPrefix, that.options.icons.detailClose)); + $tr.after(sprintf('<tr class="detail-view"><td colspan="%s"></td></tr>', $tr.find('td').length)); + var $element = $tr.next().find('td'); + var content = calculateObjectValue(that.options, that.options.detailFormatter, [index, row, $element], ''); + if($element.length === 1) { + $element.append(content); + } + that.trigger('expand-row', index, row, $element); + } + that.resetView(); + return false; + }); + + this.$selectItem = this.$body.find(sprintf('[name="%s"]', this.options.selectItemName)); + this.$selectItem.off('click').on('click', function (event) { + event.stopImmediatePropagation(); + + var $this = $(this), + checked = $this.prop('checked'), + row = that.data[$this.data('index')]; + + if (that.options.maintainSelected && $(this).is(':radio')) { + $.each(that.options.data, function (i, row) { + row[that.header.stateField] = false; + }); + } + + row[that.header.stateField] = checked; + + if (that.options.singleSelect) { + that.$selectItem.not(this).each(function () { + that.data[$(this).data('index')][that.header.stateField] = false; + }); + that.$selectItem.filter(':checked').not(this).prop('checked', false); + } + + that.updateSelected(); + that.trigger(checked ? 'check' : 'uncheck', row, $this); + }); + + $.each(this.header.events, function (i, events) { + if (!events) { + return; + } + // fix bug, if events is defined with namespace + if (typeof events === 'string') { + events = calculateObjectValue(null, events); + } + + var field = that.header.fields[i], + fieldIndex = $.inArray(field, that.getVisibleFields()); + + if (that.options.detailView && !that.options.cardView) { + fieldIndex += 1; + } + + for (var key in events) { + that.$body.find('>tr:not(.no-records-found)').each(function () { + var $tr = $(this), + $td = $tr.find(that.options.cardView ? '.card-view' : 'td').eq(fieldIndex), + index = key.indexOf(' '), + name = key.substring(0, index), + el = key.substring(index + 1), + func = events[key]; + + $td.find(el).off(name).on(name, function (e) { + var index = $tr.data('index'), + row = that.data[index], + value = row[field]; + + func.apply(this, [e, value, row, index]); + }); + }); + } + }); + + this.updateSelected(); + this.resetView(); + + this.trigger('post-body', data); + }; + + BootstrapTable.prototype.initServer = function (silent, query, url) { + var that = this, + data = {}, + params = { + searchText: this.searchText, + sortName: this.options.sortName, + sortOrder: this.options.sortOrder + }, + request; + + if (this.options.pagination) { + params.pageSize = this.options.pageSize === this.options.formatAllRows() ? + this.options.totalRows : this.options.pageSize; + params.pageNumber = this.options.pageNumber; + } + + if (!(url || this.options.url) && !this.options.ajax) { + return; + } + + if (this.options.queryParamsType === 'limit') { + params = { + search: params.searchText, + sort: params.sortName, + order: params.sortOrder + }; + + if (this.options.pagination) { + params.offset = this.options.pageSize === this.options.formatAllRows() ? + 0 : this.options.pageSize * (this.options.pageNumber - 1); + params.limit = this.options.pageSize === this.options.formatAllRows() ? + this.options.totalRows : this.options.pageSize; + } + } + + if (!($.isEmptyObject(this.filterColumnsPartial))) { + params.filter = JSON.stringify(this.filterColumnsPartial, null); + } + + data = calculateObjectValue(this.options, this.options.queryParams, [params], data); + + $.extend(data, query || {}); + + // false to stop request + if (data === false) { + return; + } + + if (!silent) { + this.$tableLoading.show(); + } + request = $.extend({}, calculateObjectValue(null, this.options.ajaxOptions), { + type: this.options.method, + url: url || this.options.url, + data: this.options.contentType === 'application/json' && this.options.method === 'post' ? + JSON.stringify(data) : data, + cache: this.options.cache, + contentType: this.options.contentType, + dataType: this.options.dataType, + success: function (res) { + res = calculateObjectValue(that.options, that.options.responseHandler, [res], res); + + that.load(res); + that.trigger('load-success', res); + if (!silent) that.$tableLoading.hide(); + }, + error: function (res) { + that.trigger('load-error', res.status, res); + if (!silent) that.$tableLoading.hide(); + } + }); + + if (this.options.ajax) { + calculateObjectValue(this, this.options.ajax, [request], null); + } else { + if (this._xhr && this._xhr.readyState !== 4) { + this._xhr.abort(); + } + this._xhr = $.ajax(request); + } + }; + + BootstrapTable.prototype.initSearchText = function () { + if (this.options.search) { + if (this.options.searchText !== '') { + var $search = this.$toolbar.find('.search input'); + $search.val(this.options.searchText); + this.onSearch({currentTarget: $search}); + } + } + }; + + BootstrapTable.prototype.getCaret = function () { + var that = this; + + $.each(this.$header.find('th'), function (i, th) { + $(th).find('.sortable').removeClass('desc asc').addClass($(th).data('field') === that.options.sortName ? that.options.sortOrder : 'both'); + }); + }; + + BootstrapTable.prototype.updateSelected = function () { + var checkAll = this.$selectItem.filter(':enabled').length && + this.$selectItem.filter(':enabled').length === + this.$selectItem.filter(':enabled').filter(':checked').length; + + this.$selectAll.add(this.$selectAll_).prop('checked', checkAll); + + this.$selectItem.each(function () { + $(this).closest('tr')[$(this).prop('checked') ? 'addClass' : 'removeClass']('selected'); + }); + }; + + BootstrapTable.prototype.updateRows = function () { + var that = this; + + this.$selectItem.each(function () { + that.data[$(this).data('index')][that.header.stateField] = $(this).prop('checked'); + }); + }; + + BootstrapTable.prototype.resetRows = function () { + var that = this; + + $.each(this.data, function (i, row) { + that.$selectAll.prop('checked', false); + that.$selectItem.prop('checked', false); + if (that.header.stateField) { + row[that.header.stateField] = false; + } + }); + this.initHiddenRows(); + }; + + BootstrapTable.prototype.trigger = function (name) { + var args = Array.prototype.slice.call(arguments, 1); + + name += '.bs.table'; + this.options[BootstrapTable.EVENTS[name]].apply(this.options, args); + this.$el.trigger($.Event(name), args); + + this.options.onAll(name, args); + this.$el.trigger($.Event('all.bs.table'), [name, args]); + }; + + BootstrapTable.prototype.resetHeader = function () { + // fix #61: the hidden table reset header bug. + // fix bug: get $el.css('width') error sometime (height = 500) + clearTimeout(this.timeoutId_); + this.timeoutId_ = setTimeout($.proxy(this.fitHeader, this), this.$el.is(':hidden') ? 100 : 0); + }; + + BootstrapTable.prototype.fitHeader = function () { + var that = this, + fixedBody, + scrollWidth, + focused, + focusedTemp; + + if (that.$el.is(':hidden')) { + that.timeoutId_ = setTimeout($.proxy(that.fitHeader, that), 100); + return; + } + fixedBody = this.$tableBody.get(0); + + scrollWidth = fixedBody.scrollWidth > fixedBody.clientWidth && + fixedBody.scrollHeight > fixedBody.clientHeight + this.$header.outerHeight() ? + getScrollBarWidth() : 0; + + this.$el.css('margin-top', -this.$header.outerHeight()); + + focused = $(':focus'); + if (focused.length > 0) { + var $th = focused.parents('th'); + if ($th.length > 0) { + var dataField = $th.attr('data-field'); + if (dataField !== undefined) { + var $headerTh = this.$header.find("[data-field='" + dataField + "']"); + if ($headerTh.length > 0) { + $headerTh.find(":input").addClass("focus-temp"); + } + } + } + } + + this.$header_ = this.$header.clone(true, true); + this.$selectAll_ = this.$header_.find('[name="btSelectAll"]'); + this.$tableHeader.css({ + 'margin-right': scrollWidth + }).find('table').css('width', this.$el.outerWidth()) + .html('').attr('class', this.$el.attr('class')) + .append(this.$header_); + + + focusedTemp = $('.focus-temp:visible:eq(0)'); + if (focusedTemp.length > 0) { + focusedTemp.focus(); + this.$header.find('.focus-temp').removeClass('focus-temp'); + } + + // fix bug: $.data() is not working as expected after $.append() + this.$header.find('th[data-field]').each(function (i) { + that.$header_.find(sprintf('th[data-field="%s"]', $(this).data('field'))).data($(this).data()); + }); + + var visibleFields = this.getVisibleFields(), + $ths = this.$header_.find('th'); + + this.$body.find('>tr:first-child:not(.no-records-found) > *').each(function (i) { + var $this = $(this), + index = i; + + if (that.options.detailView && !that.options.cardView) { + if (i === 0) { + that.$header_.find('th.detail').find('.fht-cell').width($this.innerWidth()); + } + index = i - 1; + } + + var $th = that.$header_.find(sprintf('th[data-field="%s"]', visibleFields[index])); + if ($th.length > 1) { + $th = $($ths[$this[0].cellIndex]); + } + + $th.find('.fht-cell').width($this.innerWidth()); + }); + // horizontal scroll event + // TODO: it's probably better improving the layout than binding to scroll event + this.$tableBody.off('scroll').on('scroll', function () { + that.$tableHeader.scrollLeft($(this).scrollLeft()); + + if (that.options.showFooter && !that.options.cardView) { + that.$tableFooter.scrollLeft($(this).scrollLeft()); + } + }); + that.trigger('post-header'); + }; + + BootstrapTable.prototype.resetFooter = function () { + var that = this, + data = that.getData(), + html = []; + + if (!this.options.showFooter || this.options.cardView) { //do nothing + return; + } + + if (!this.options.cardView && this.options.detailView) { + html.push('<td><div class="th-inner"> </div><div class="fht-cell"></div></td>'); + } + + $.each(this.columns, function (i, column) { + var key, + falign = '', // footer align style + valign = '', + csses = [], + style = {}, + class_ = sprintf(' class="%s"', column['class']); + + if (!column.visible) { + return; + } + + if (that.options.cardView && (!column.cardVisible)) { + return; + } + + falign = sprintf('text-align: %s; ', column.falign ? column.falign : column.align); + valign = sprintf('vertical-align: %s; ', column.valign); + + style = calculateObjectValue(null, that.options.footerStyle); + + if (style && style.css) { + for (key in style.css) { + csses.push(key + ': ' + style.css[key]); + } + } + + html.push('<td', class_, sprintf(' style="%s"', falign + valign + csses.concat().join('; ')), '>'); + html.push('<div class="th-inner">'); + + html.push(calculateObjectValue(column, column.footerFormatter, [data], ' ') || ' '); + + html.push('</div>'); + html.push('<div class="fht-cell"></div>'); + html.push('</div>'); + html.push('</td>'); + }); + + this.$tableFooter.find('tr').html(html.join('')); + this.$tableFooter.show(); + clearTimeout(this.timeoutFooter_); + this.timeoutFooter_ = setTimeout($.proxy(this.fitFooter, this), + this.$el.is(':hidden') ? 100 : 0); + }; + + BootstrapTable.prototype.fitFooter = function () { + var that = this, + $footerTd, + elWidth, + scrollWidth; + + clearTimeout(this.timeoutFooter_); + if (this.$el.is(':hidden')) { + this.timeoutFooter_ = setTimeout($.proxy(this.fitFooter, this), 100); + return; + } + + elWidth = this.$el.css('width'); + scrollWidth = elWidth > this.$tableBody.width() ? getScrollBarWidth() : 0; + + this.$tableFooter.css({ + 'margin-right': scrollWidth + }).find('table').css('width', elWidth) + .attr('class', this.$el.attr('class')); + + $footerTd = this.$tableFooter.find('td'); + + this.$body.find('>tr:first-child:not(.no-records-found) > *').each(function (i) { + var $this = $(this); + + $footerTd.eq(i).find('.fht-cell').width($this.innerWidth()); + }); + }; + + BootstrapTable.prototype.toggleColumn = function (index, checked, needUpdate) { + if (index === -1) { + return; + } + this.columns[index].visible = checked; + this.initHeader(); + this.initSearch(); + this.initPagination(); + this.initBody(); + + if (this.options.showColumns) { + var $items = this.$toolbar.find('.keep-open input').prop('disabled', false); + + if (needUpdate) { + $items.filter(sprintf('[value="%s"]', index)).prop('checked', checked); + } + + if ($items.filter(':checked').length <= this.options.minimumCountColumns) { + $items.filter(':checked').prop('disabled', true); + } + } + }; + + BootstrapTable.prototype.getVisibleFields = function () { + var that = this, + visibleFields = []; + + $.each(this.header.fields, function (j, field) { + var column = that.columns[getFieldIndex(that.columns, field)]; + + if (!column.visible) { + return; + } + visibleFields.push(field); + }); + return visibleFields; + }; + + // PUBLIC FUNCTION DEFINITION + // ======================= + + BootstrapTable.prototype.resetView = function (params) { + var padding = 0; + + if (params && params.height) { + this.options.height = params.height; + } + + this.$selectAll.prop('checked', this.$selectItem.length > 0 && + this.$selectItem.length === this.$selectItem.filter(':checked').length); + + if (this.options.height) { + var toolbarHeight = this.$toolbar.outerHeight(true), + paginationHeight = this.$pagination.outerHeight(true), + height = this.options.height - toolbarHeight - paginationHeight; + + this.$tableContainer.css('height', height + 'px'); + } + + if (this.options.cardView) { + // remove the element css + this.$el.css('margin-top', '0'); + this.$tableContainer.css('padding-bottom', '0'); + this.$tableFooter.hide(); + return; + } + + if (this.options.showHeader && this.options.height) { + this.$tableHeader.show(); + this.resetHeader(); + padding += this.$header.outerHeight(); + } else { + this.$tableHeader.hide(); + this.trigger('post-header'); + } + + if (this.options.showFooter) { + this.resetFooter(); + if (this.options.height) { + padding += this.$tableFooter.outerHeight() + 1; + } + } + + // Assign the correct sortable arrow + this.getCaret(); + this.$tableContainer.css('padding-bottom', padding + 'px'); + this.trigger('reset-view'); + }; + + BootstrapTable.prototype.getData = function (useCurrentPage) { + return (this.searchText || !$.isEmptyObject(this.filterColumns) || !$.isEmptyObject(this.filterColumnsPartial)) ? + (useCurrentPage ? this.data.slice(this.pageFrom - 1, this.pageTo) : this.data) : + (useCurrentPage ? this.options.data.slice(this.pageFrom - 1, this.pageTo) : this.options.data); + }; + + BootstrapTable.prototype.load = function (data) { + var fixedScroll = false; + + // #431: support pagination + if (this.options.sidePagination === 'server') { + this.options.totalRows = data[this.options.totalField]; + fixedScroll = data.fixedScroll; + data = data[this.options.dataField]; + } else if (!$.isArray(data)) { // support fixedScroll + fixedScroll = data.fixedScroll; + data = data.data; + } + + this.initData(data); + this.initSearch(); + this.initPagination(); + this.initBody(fixedScroll); + }; + + BootstrapTable.prototype.append = function (data) { + this.initData(data, 'append'); + this.initSearch(); + this.initPagination(); + this.initSort(); + this.initBody(true); + }; + + BootstrapTable.prototype.prepend = function (data) { + this.initData(data, 'prepend'); + this.initSearch(); + this.initPagination(); + this.initSort(); + this.initBody(true); + }; + + BootstrapTable.prototype.remove = function (params) { + var len = this.options.data.length, + i, row; + + if (!params.hasOwnProperty('field') || !params.hasOwnProperty('values')) { + return; + } + + for (i = len - 1; i >= 0; i--) { + row = this.options.data[i]; + + if (!row.hasOwnProperty(params.field)) { + continue; + } + if ($.inArray(row[params.field], params.values) !== -1) { + this.options.data.splice(i, 1); + if (this.options.sidePagination === 'server') { + this.options.totalRows -= 1; + } + } + } + + if (len === this.options.data.length) { + return; + } + + this.initSearch(); + this.initPagination(); + this.initSort(); + this.initBody(true); + }; + + BootstrapTable.prototype.removeAll = function () { + if (this.options.data.length > 0) { + this.options.data.splice(0, this.options.data.length); + this.initSearch(); + this.initPagination(); + this.initBody(true); + } + }; + + BootstrapTable.prototype.getRowByUniqueId = function (id) { + var uniqueId = this.options.uniqueId, + len = this.options.data.length, + dataRow = null, + i, row, rowUniqueId; + + for (i = len - 1; i >= 0; i--) { + row = this.options.data[i]; + + if (row.hasOwnProperty(uniqueId)) { // uniqueId is a column + rowUniqueId = row[uniqueId]; + } else if(row._data.hasOwnProperty(uniqueId)) { // uniqueId is a row data property + rowUniqueId = row._data[uniqueId]; + } else { + continue; + } + + if (typeof rowUniqueId === 'string') { + id = id.toString(); + } else if (typeof rowUniqueId === 'number') { + if ((Number(rowUniqueId) === rowUniqueId) && (rowUniqueId % 1 === 0)) { + id = parseInt(id); + } else if ((rowUniqueId === Number(rowUniqueId)) && (rowUniqueId !== 0)) { + id = parseFloat(id); + } + } + + if (rowUniqueId === id) { + dataRow = row; + break; + } + } + + return dataRow; + }; + + BootstrapTable.prototype.removeByUniqueId = function (id) { + var len = this.options.data.length, + row = this.getRowByUniqueId(id); + + if (row) { + this.options.data.splice(this.options.data.indexOf(row), 1); + } + + if (len === this.options.data.length) { + return; + } + + this.initSearch(); + this.initPagination(); + this.initBody(true); + }; + + BootstrapTable.prototype.updateByUniqueId = function (params) { + var that = this; + var allParams = $.isArray(params) ? params : [ params ]; + + $.each(allParams, function(i, params) { + var rowId; + + if (!params.hasOwnProperty('id') || !params.hasOwnProperty('row')) { + return; + } + + rowId = $.inArray(that.getRowByUniqueId(params.id), that.options.data); + + if (rowId === -1) { + return; + } + $.extend(that.options.data[rowId], params.row); + }); + + this.initSearch(); + this.initPagination(); + this.initSort(); + this.initBody(true); + }; + + BootstrapTable.prototype.insertRow = function (params) { + if (!params.hasOwnProperty('index') || !params.hasOwnProperty('row')) { + return; + } + this.data.splice(params.index, 0, params.row); + this.initSearch(); + this.initPagination(); + this.initSort(); + this.initBody(true); + }; + + BootstrapTable.prototype.updateRow = function (params) { + var that = this; + var allParams = $.isArray(params) ? params : [ params ]; + + $.each(allParams, function(i, params) { + if (!params.hasOwnProperty('index') || !params.hasOwnProperty('row')) { + return; + } + $.extend(that.options.data[params.index], params.row); + }); + + this.initSearch(); + this.initPagination(); + this.initSort(); + this.initBody(true); + }; + + BootstrapTable.prototype.initHiddenRows = function () { + this.hiddenRows = []; + }; + + BootstrapTable.prototype.showRow = function (params) { + this.toggleRow(params, true); + }; + + BootstrapTable.prototype.hideRow = function (params) { + this.toggleRow(params, false); + }; + + BootstrapTable.prototype.toggleRow = function (params, visible) { + var row, index; + + if (params.hasOwnProperty('index')) { + row = this.getData()[params.index]; + } else if (params.hasOwnProperty('uniqueId')) { + row = this.getRowByUniqueId(params.uniqueId); + } + + if (!row) { + return; + } + + index = $.inArray(row, this.hiddenRows); + + if (!visible && index === -1) { + this.hiddenRows.push(row); + } else if (visible && index > -1) { + this.hiddenRows.splice(index, 1); + } + this.initBody(true); + }; + + BootstrapTable.prototype.getHiddenRows = function (show) { + var that = this, + data = this.getData(), + rows = []; + + $.each(data, function (i, row) { + if ($.inArray(row, that.hiddenRows) > -1) { + rows.push(row); + } + }); + this.hiddenRows = rows; + return rows; + }; + + BootstrapTable.prototype.mergeCells = function (options) { + var row = options.index, + col = $.inArray(options.field, this.getVisibleFields()), + rowspan = options.rowspan || 1, + colspan = options.colspan || 1, + i, j, + $tr = this.$body.find('>tr'), + $td; + + if (this.options.detailView && !this.options.cardView) { + col += 1; + } + + $td = $tr.eq(row).find('>td').eq(col); + + if (row < 0 || col < 0 || row >= this.data.length) { + return; + } + + for (i = row; i < row + rowspan; i++) { + for (j = col; j < col + colspan; j++) { + $tr.eq(i).find('>td').eq(j).hide(); + } + } + + $td.attr('rowspan', rowspan).attr('colspan', colspan).show(); + }; + + BootstrapTable.prototype.updateCell = function (params) { + if (!params.hasOwnProperty('index') || + !params.hasOwnProperty('field') || + !params.hasOwnProperty('value')) { + return; + } + this.data[params.index][params.field] = params.value; + + if (params.reinit === false) { + return; + } + this.initSort(); + this.initBody(true); + }; + + BootstrapTable.prototype.getOptions = function () { + return this.options; + }; + + BootstrapTable.prototype.getSelections = function () { + var that = this; + + return $.grep(this.options.data, function (row) { + // fix #2424: from html with checkbox + return row[that.header.stateField] === true; + }); + }; + + BootstrapTable.prototype.getAllSelections = function () { + var that = this; + + return $.grep(this.options.data, function (row) { + return row[that.header.stateField]; + }); + }; + + BootstrapTable.prototype.checkAll = function () { + this.checkAll_(true); + }; + + BootstrapTable.prototype.uncheckAll = function () { + this.checkAll_(false); + }; + + BootstrapTable.prototype.checkInvert = function () { + var that = this; + var rows = that.$selectItem.filter(':enabled'); + var checked = rows.filter(':checked'); + rows.each(function() { + $(this).prop('checked', !$(this).prop('checked')); + }); + that.updateRows(); + that.updateSelected(); + that.trigger('uncheck-some', checked); + checked = that.getSelections(); + that.trigger('check-some', checked); + }; + + BootstrapTable.prototype.checkAll_ = function (checked) { + var rows; + if (!checked) { + rows = this.getSelections(); + } + this.$selectAll.add(this.$selectAll_).prop('checked', checked); + this.$selectItem.filter(':enabled').prop('checked', checked); + this.updateRows(); + if (checked) { + rows = this.getSelections(); + } + this.trigger(checked ? 'check-all' : 'uncheck-all', rows); + }; + + BootstrapTable.prototype.check = function (index) { + this.check_(true, index); + }; + + BootstrapTable.prototype.uncheck = function (index) { + this.check_(false, index); + }; + + BootstrapTable.prototype.check_ = function (checked, index) { + var $el = this.$selectItem.filter(sprintf('[data-index="%s"]', index)).prop('checked', checked); + this.data[index][this.header.stateField] = checked; + this.updateSelected(); + this.trigger(checked ? 'check' : 'uncheck', this.data[index], $el); + }; + + BootstrapTable.prototype.checkBy = function (obj) { + this.checkBy_(true, obj); + }; + + BootstrapTable.prototype.uncheckBy = function (obj) { + this.checkBy_(false, obj); + }; + + BootstrapTable.prototype.checkBy_ = function (checked, obj) { + if (!obj.hasOwnProperty('field') || !obj.hasOwnProperty('values')) { + return; + } + + var that = this, + rows = []; + $.each(this.options.data, function (index, row) { + if (!row.hasOwnProperty(obj.field)) { + return false; + } + if ($.inArray(row[obj.field], obj.values) !== -1) { + var $el = that.$selectItem.filter(':enabled') + .filter(sprintf('[data-index="%s"]', index)).prop('checked', checked); + row[that.header.stateField] = checked; + rows.push(row); + that.trigger(checked ? 'check' : 'uncheck', row, $el); + } + }); + this.updateSelected(); + this.trigger(checked ? 'check-some' : 'uncheck-some', rows); + }; + + BootstrapTable.prototype.destroy = function () { + this.$el.insertBefore(this.$container); + $(this.options.toolbar).insertBefore(this.$el); + this.$container.next().remove(); + this.$container.remove(); + this.$el.html(this.$el_.html()) + .css('margin-top', '0') + .attr('class', this.$el_.attr('class') || ''); // reset the class + }; + + BootstrapTable.prototype.showLoading = function () { + this.$tableLoading.show(); + }; + + BootstrapTable.prototype.hideLoading = function () { + this.$tableLoading.hide(); + }; + + BootstrapTable.prototype.togglePagination = function () { + this.options.pagination = !this.options.pagination; + var button = this.$toolbar.find('button[name="paginationSwitch"] i'); + if (this.options.pagination) { + button.attr("class", this.options.iconsPrefix + " " + this.options.icons.paginationSwitchDown); + } else { + button.attr("class", this.options.iconsPrefix + " " + this.options.icons.paginationSwitchUp); + } + this.updatePagination(); + }; + + BootstrapTable.prototype.refresh = function (params) { + if (params && params.url) { + this.options.url = params.url; + } + if (params && params.pageNumber) { + this.options.pageNumber = params.pageNumber; + } + if (params && params.pageSize) { + this.options.pageSize = params.pageSize; + } + this.initServer(params && params.silent, + params && params.query, params && params.url); + this.trigger('refresh', params); + }; + + BootstrapTable.prototype.resetWidth = function () { + if (this.options.showHeader && this.options.height) { + this.fitHeader(); + } + if (this.options.showFooter) { + this.fitFooter(); + } + }; + + BootstrapTable.prototype.showColumn = function (field) { + this.toggleColumn(getFieldIndex(this.columns, field), true, true); + }; + + BootstrapTable.prototype.hideColumn = function (field) { + this.toggleColumn(getFieldIndex(this.columns, field), false, true); + }; + + BootstrapTable.prototype.getHiddenColumns = function () { + return $.grep(this.columns, function (column) { + return !column.visible; + }); + }; + + BootstrapTable.prototype.getVisibleColumns = function () { + return $.grep(this.columns, function (column) { + return column.visible; + }); + }; + + BootstrapTable.prototype.toggleAllColumns = function (visible) { + $.each(this.columns, function (i, column) { + this.columns[i].visible = visible; + }); + + this.initHeader(); + this.initSearch(); + this.initPagination(); + this.initBody(); + if (this.options.showColumns) { + var $items = this.$toolbar.find('.keep-open input').prop('disabled', false); + + if ($items.filter(':checked').length <= this.options.minimumCountColumns) { + $items.filter(':checked').prop('disabled', true); + } + } + }; + + BootstrapTable.prototype.showAllColumns = function () { + this.toggleAllColumns(true); + }; + + BootstrapTable.prototype.hideAllColumns = function () { + this.toggleAllColumns(false); + }; + + BootstrapTable.prototype.filterBy = function (columns) { + this.filterColumns = $.isEmptyObject(columns) ? {} : columns; + this.options.pageNumber = 1; + this.initSearch(); + this.updatePagination(); + }; + + BootstrapTable.prototype.scrollTo = function (value) { + if (typeof value === 'string') { + value = value === 'bottom' ? this.$tableBody[0].scrollHeight : 0; + } + if (typeof value === 'number') { + this.$tableBody.scrollTop(value); + } + if (typeof value === 'undefined') { + return this.$tableBody.scrollTop(); + } + }; + + BootstrapTable.prototype.getScrollPosition = function () { + return this.scrollTo(); + }; + + BootstrapTable.prototype.selectPage = function (page) { + if (page > 0 && page <= this.options.totalPages) { + this.options.pageNumber = page; + this.updatePagination(); + } + }; + + BootstrapTable.prototype.prevPage = function () { + if (this.options.pageNumber > 1) { + this.options.pageNumber--; + this.updatePagination(); + } + }; + + BootstrapTable.prototype.nextPage = function () { + if (this.options.pageNumber < this.options.totalPages) { + this.options.pageNumber++; + this.updatePagination(); + } + }; + + BootstrapTable.prototype.toggleView = function () { + this.options.cardView = !this.options.cardView; + this.initHeader(); + // Fixed remove toolbar when click cardView button. + //that.initToolbar(); + this.initBody(); + this.trigger('toggle', this.options.cardView); + }; + + BootstrapTable.prototype.refreshOptions = function (options) { + //If the objects are equivalent then avoid the call of destroy / init methods + if (compareObjects(this.options, options, true)) { + return; + } + this.options = $.extend(this.options, options); + this.trigger('refresh-options', this.options); + this.destroy(); + this.init(); + }; + + BootstrapTable.prototype.resetSearch = function (text) { + var $search = this.$toolbar.find('.search input'); + $search.val(text || ''); + this.onSearch({currentTarget: $search}); + }; + + BootstrapTable.prototype.expandRow_ = function (expand, index) { + var $tr = this.$body.find(sprintf('> tr[data-index="%s"]', index)); + if ($tr.next().is('tr.detail-view') === (expand ? false : true)) { + $tr.find('> td > .detail-icon').click(); + } + }; + + BootstrapTable.prototype.expandRow = function (index) { + this.expandRow_(true, index); + }; + + BootstrapTable.prototype.collapseRow = function (index) { + this.expandRow_(false, index); + }; + + BootstrapTable.prototype.expandAllRows = function (isSubTable) { + if (isSubTable) { + var $tr = this.$body.find(sprintf('> tr[data-index="%s"]', 0)), + that = this, + detailIcon = null, + executeInterval = false, + idInterval = -1; + + if (!$tr.next().is('tr.detail-view')) { + $tr.find('> td > .detail-icon').click(); + executeInterval = true; + } else if (!$tr.next().next().is('tr.detail-view')) { + $tr.next().find(".detail-icon").click(); + executeInterval = true; + } + + if (executeInterval) { + try { + idInterval = setInterval(function () { + detailIcon = that.$body.find("tr.detail-view").last().find(".detail-icon"); + if (detailIcon.length > 0) { + detailIcon.click(); + } else { + clearInterval(idInterval); + } + }, 1); + } catch (ex) { + clearInterval(idInterval); + } + } + } else { + var trs = this.$body.children(); + for (var i = 0; i < trs.length; i++) { + this.expandRow_(true, $(trs[i]).data("index")); + } + } + }; + + BootstrapTable.prototype.collapseAllRows = function (isSubTable) { + if (isSubTable) { + this.expandRow_(false, 0); + } else { + var trs = this.$body.children(); + for (var i = 0; i < trs.length; i++) { + this.expandRow_(false, $(trs[i]).data("index")); + } + } + }; + + BootstrapTable.prototype.updateFormatText = function (name, text) { + if (this.options[sprintf('format%s', name)]) { + if (typeof text === 'string') { + this.options[sprintf('format%s', name)] = function () { + return text; + }; + } else if (typeof text === 'function') { + this.options[sprintf('format%s', name)] = text; + } + } + this.initToolbar(); + this.initPagination(); + this.initBody(); + }; + + // BOOTSTRAP TABLE PLUGIN DEFINITION + // ======================= + + var allowedMethods = [ + 'getOptions', + 'getSelections', 'getAllSelections', 'getData', + 'load', 'append', 'prepend', 'remove', 'removeAll', + 'insertRow', 'updateRow', 'updateCell', 'updateByUniqueId', 'removeByUniqueId', + 'getRowByUniqueId', 'showRow', 'hideRow', 'getHiddenRows', + 'mergeCells', + 'checkAll', 'uncheckAll', 'checkInvert', + 'check', 'uncheck', + 'checkBy', 'uncheckBy', + 'refresh', + 'resetView', + 'resetWidth', + 'destroy', + 'showLoading', 'hideLoading', + 'showColumn', 'hideColumn', 'getHiddenColumns', 'getVisibleColumns', + 'showAllColumns', 'hideAllColumns', + 'filterBy', + 'scrollTo', + 'getScrollPosition', + 'selectPage', 'prevPage', 'nextPage', + 'togglePagination', + 'toggleView', + 'refreshOptions', + 'resetSearch', + 'expandRow', 'collapseRow', 'expandAllRows', 'collapseAllRows', + 'updateFormatText' + ]; + + $.fn.bootstrapTable = function (option) { + var value, + args = Array.prototype.slice.call(arguments, 1); + + this.each(function () { + var $this = $(this), + data = $this.data('bootstrap.table'), + options = $.extend({}, BootstrapTable.DEFAULTS, $this.data(), + typeof option === 'object' && option); + + if (typeof option === 'string') { + if ($.inArray(option, allowedMethods) < 0) { + throw new Error("Unknown method: " + option); + } + + if (!data) { + return; + } + + value = data[option].apply(data, args); + + if (option === 'destroy') { + $this.removeData('bootstrap.table'); + } + } + + if (!data) { + $this.data('bootstrap.table', (data = new BootstrapTable(this, options))); + } + }); + + return typeof value === 'undefined' ? this : value; + }; + + $.fn.bootstrapTable.Constructor = BootstrapTable; + $.fn.bootstrapTable.defaults = BootstrapTable.DEFAULTS; + $.fn.bootstrapTable.columnDefaults = BootstrapTable.COLUMN_DEFAULTS; + $.fn.bootstrapTable.locales = BootstrapTable.LOCALES; + $.fn.bootstrapTable.methods = allowedMethods; + $.fn.bootstrapTable.utils = { + sprintf: sprintf, + getFieldIndex: getFieldIndex, + compareObjects: compareObjects, + calculateObjectValue: calculateObjectValue, + getItemField: getItemField, + objectKeys: objectKeys, + isIEBrowser: isIEBrowser + }; + + // BOOTSTRAP TABLE INIT + // ======================= + + $(function () { + $('[data-toggle="table"]').bootstrapTable(); + }); +})(jQuery);
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/js/filter.js Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,20 @@ +function search(input) { + // Declare variables + var elt, filter, uls, li, a, i; + elt = input.parentElement; + filter = input.value.toUpperCase(); + uls = elt.getElementsByClassName('thumbs'); + + // Loop through all list items, and hide those who don't match the search query + for (j = 0; j < uls.length; j++) { + li = uls[j].getElementsByTagName('li'); + for (i = 0; i < li.length; i++) { + a = li[i].getElementsByTagName("a")[0]; + if (a.innerHTML.toUpperCase().indexOf(filter) > -1) { + li[i].style.display = ""; + } else { + li[i].style.display = "none"; + } + } + } +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/js/jquery.galleriffic.js Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,979 @@ +/** + * jQuery Galleriffic plugin + * + * Copyright (c) 2008 Trent Foley (http://trentacular.com) + * Licensed under the MIT License: + * http://www.opensource.org/licenses/mit-license.php + * + * Much thanks to primary contributer Ponticlaro (http://www.ponticlaro.com) + */ +;(function($) { + // Globally keep track of all images by their unique hash. Each item is an image data object. + var allImages = {}; + var imageCounter = 0; + + // Galleriffic static class + $.galleriffic = { + version: '2.0.1', + + // Strips invalid characters and any leading # characters + normalizeHash: function(hash) { + return hash.replace(/^.*#/, '').replace(/\?.*$/, ''); + }, + + getImage: function(hash) { + if (!hash) + return undefined; + + hash = $.galleriffic.normalizeHash(hash); + return allImages[hash]; + }, + + // Global function that looks up an image by its hash and displays the image. + // Returns false when an image is not found for the specified hash. + // @param {String} hash This is the unique hash value assigned to an image. + gotoImage: function(hash) { + var imageData = $.galleriffic.getImage(hash); + if (!imageData) + return false; + + var gallery = imageData.gallery; + gallery.gotoImage(imageData); + + return true; + }, + + // Removes an image from its respective gallery by its hash. + // Returns false when an image is not found for the specified hash or the + // specified owner gallery does match the located images gallery. + // @param {String} hash This is the unique hash value assigned to an image. + // @param {Object} ownerGallery (Optional) When supplied, the located images + // gallery is verified to be the same as the specified owning gallery before + // performing the remove operation. + removeImageByHash: function(hash, ownerGallery) { + var imageData = $.galleriffic.getImage(hash); + if (!imageData) + return false; + + var gallery = imageData.gallery; + if (ownerGallery && ownerGallery != gallery) + return false; + + return gallery.removeImageByIndex(imageData.index); + } + }; + + var defaults = { + delay: 3000, + numThumbs: 20, + preloadAhead: 40, // Set to -1 to preload all images + enableTopPager: false, + enableBottomPager: true, + maxPagesToShow: 7, + imageContainerSel: '', + captionContainerSel: '', + controlsContainerSel: '', + loadingContainerSel: '', + renderSSControls: true, + renderNavControls: true, + playLinkText: 'Play', + pauseLinkText: 'Pause', + prevLinkText: 'Previous', + nextLinkText: 'Next', + nextPageLinkText: 'Next ›', + prevPageLinkText: '‹ Prev', + enableHistory: false, + enableKeyboardNavigation: true, + autoStart: false, + syncTransitions: false, + defaultTransitionDuration: 1000, + onSlideChange: undefined, // accepts a delegate like such: function(prevIndex, nextIndex) { ... } + onTransitionOut: undefined, // accepts a delegate like such: function(slide, caption, isSync, callback) { ... } + onTransitionIn: undefined, // accepts a delegate like such: function(slide, caption, isSync) { ... } + onPageTransitionOut: undefined, // accepts a delegate like such: function(callback) { ... } + onPageTransitionIn: undefined, // accepts a delegate like such: function() { ... } + onImageAdded: undefined, // accepts a delegate like such: function(imageData, $li) { ... } + onImageRemoved: undefined // accepts a delegate like such: function(imageData, $li) { ... } + }; + + // Primary Galleriffic initialization function that should be called on the thumbnail container. + $.fn.galleriffic = function(settings) { + // Extend Gallery Object + $.extend(this, { + // Returns the version of the script + version: $.galleriffic.version, + + // Current state of the slideshow + isSlideshowRunning: false, + slideshowTimeout: undefined, + + // This function is attached to the click event of generated hyperlinks within the gallery + clickHandler: function(e, link) { + this.pause(); + + if (!this.enableHistory) { + // The href attribute holds the unique hash for an image + var hash = $.galleriffic.normalizeHash($(link).attr('href')); + $.galleriffic.gotoImage(hash); + e.preventDefault(); + } + }, + + // Appends an image to the end of the set of images. Argument listItem can be either a jQuery DOM element or arbitrary html. + // @param listItem Either a jQuery object or a string of html of the list item that is to be added to the gallery. + appendImage: function(listItem) { + this.addImage(listItem, false, false); + return this; + }, + + // Inserts an image into the set of images. Argument listItem can be either a jQuery DOM element or arbitrary html. + // @param listItem Either a jQuery object or a string of html of the list item that is to be added to the gallery. + // @param {Integer} position The index within the gallery where the item shouold be added. + insertImage: function(listItem, position) { + this.addImage(listItem, false, true, position); + return this; + }, + + // Adds an image to the gallery and optionally inserts/appends it to the DOM (thumbExists) + // @param listItem Either a jQuery object or a string of html of the list item that is to be added to the gallery. + // @param {Boolean} thumbExists Specifies whether the thumbnail already exists in the DOM or if it needs to be added. + // @param {Boolean} insert Specifies whether the the image is appended to the end or inserted into the gallery. + // @param {Integer} position The index within the gallery where the item shouold be added. + addImage: function(listItem, thumbExists, insert, position) { + var $li = ( typeof listItem === "string" ) ? $(listItem) : listItem; + var $aThumb = $li.find('a.thumb'); + var slideUrl = $aThumb.attr('href'); + var title = $aThumb.attr('title'); + var $caption = $li.find('.caption').remove(); + var hash = $aThumb.attr('name'); + + // Increment the image counter + imageCounter++; + + // Autogenerate a hash value if none is present or if it is a duplicate + if (!hash || allImages[''+hash]) { + hash = imageCounter; + } + + // Set position to end when not specified + if (!insert) + position = this.data.length; + + var imageData = { + title:title, + slideUrl:slideUrl, + caption:$caption, + hash:hash, + gallery:this, + index:position + }; + + // Add the imageData to this gallery's array of images + if (insert) { + this.data.splice(position, 0, imageData); + + // Reset index value on all imageData objects + this.updateIndices(position); + } + else { + this.data.push(imageData); + } + + var gallery = this; + + // Add the element to the DOM + if (!thumbExists) { + // Update thumbs passing in addition post transition out handler + this.updateThumbs(function() { + var $thumbsUl = gallery.find('ul.thumbs'); + if (insert) + $thumbsUl.children(':eq('+position+')').before($li); + else + $thumbsUl.append($li); + + if (gallery.onImageAdded) + gallery.onImageAdded(imageData, $li); + }); + } + + // Register the image globally + allImages[''+hash] = imageData; + + // Setup attributes and click handler + $aThumb.attr('rel', 'history') + .attr('href', '#'+hash) + .removeAttr('name') + .click(function(e) { + gallery.clickHandler(e, this); + }); + + return this; + }, + + // Removes an image from the gallery based on its index. + // Returns false when the index is out of range. + removeImageByIndex: function(index) { + if (index < 0 || index >= this.data.length) + return false; + + var imageData = this.data[index]; + if (!imageData) + return false; + + this.removeImage(imageData); + + return true; + }, + + // Convenience method that simply calls the global removeImageByHash method. + removeImageByHash: function(hash) { + return $.galleriffic.removeImageByHash(hash, this); + }, + + // Removes an image from the gallery. + removeImage: function(imageData) { + var index = imageData.index; + + // Remove the image from the gallery data array + this.data.splice(index, 1); + + // Remove the global registration + delete allImages[''+imageData.hash]; + + // Remove the image's list item from the DOM + this.updateThumbs(function() { + var $li = gallery.find('ul.thumbs') + .children(':eq('+index+')') + .remove(); + + if (gallery.onImageRemoved) + gallery.onImageRemoved(imageData, $li); + }); + + // Update each image objects index value + this.updateIndices(index); + + return this; + }, + + // Updates the index values of the each of the images in the gallery after the specified index + updateIndices: function(startIndex) { + for (i = startIndex; i < this.data.length; i++) { + this.data[i].index = i; + } + + return this; + }, + + // Scraped the thumbnail container for thumbs and adds each to the gallery + initializeThumbs: function() { + this.data = []; + var gallery = this; + + this.find('ul.thumbs > li').each(function(i) { + gallery.addImage($(this), true, false); + }); + + return this; + }, + + isPreloadComplete: false, + + // Initalizes the image preloader + preloadInit: function() { + if (this.preloadAhead == 0) return this; + + this.preloadStartIndex = this.currentImage.index; + var nextIndex = this.getNextIndex(this.preloadStartIndex); + return this.preloadRecursive(this.preloadStartIndex, nextIndex); + }, + + // Changes the location in the gallery the preloader should work + // @param {Integer} index The index of the image where the preloader should restart at. + preloadRelocate: function(index) { + // By changing this startIndex, the current preload script will restart + this.preloadStartIndex = index; + return this; + }, + + // Recursive function that performs the image preloading + // @param {Integer} startIndex The index of the first image the current preloader started on. + // @param {Integer} currentIndex The index of the current image to preload. + preloadRecursive: function(startIndex, currentIndex) { + // Check if startIndex has been relocated + if (startIndex != this.preloadStartIndex) { + var nextIndex = this.getNextIndex(this.preloadStartIndex); + return this.preloadRecursive(this.preloadStartIndex, nextIndex); + } + + var gallery = this; + + // Now check for preloadAhead count + var preloadCount = currentIndex - startIndex; + if (preloadCount < 0) + preloadCount = this.data.length-1-startIndex+currentIndex; + if (this.preloadAhead >= 0 && preloadCount > this.preloadAhead) { + // Do this in order to keep checking for relocated start index + setTimeout(function() { gallery.preloadRecursive(startIndex, currentIndex); }, 500); + return this; + } + + var imageData = this.data[currentIndex]; + if (!imageData) + return this; + + // If already loaded, continue + if (imageData.image) + return this.preloadNext(startIndex, currentIndex); + + // Preload the image + var image = new Image(); + + image.onload = function() { + imageData.image = this; + gallery.preloadNext(startIndex, currentIndex); + }; + + image.alt = imageData.title; + image.src = imageData.slideUrl; + + return this; + }, + + // Called by preloadRecursive in order to preload the next image after the previous has loaded. + // @param {Integer} startIndex The index of the first image the current preloader started on. + // @param {Integer} currentIndex The index of the current image to preload. + preloadNext: function(startIndex, currentIndex) { + var nextIndex = this.getNextIndex(currentIndex); + if (nextIndex == startIndex) { + this.isPreloadComplete = true; + } else { + // Use setTimeout to free up thread + var gallery = this; + setTimeout(function() { gallery.preloadRecursive(startIndex, nextIndex); }, 100); + } + + return this; + }, + + // Safe way to get the next image index relative to the current image. + // If the current image is the last, returns 0 + getNextIndex: function(index) { + var nextIndex = index+1; + if (nextIndex >= this.data.length) + nextIndex = 0; + return nextIndex; + }, + + // Safe way to get the previous image index relative to the current image. + // If the current image is the first, return the index of the last image in the gallery. + getPrevIndex: function(index) { + var prevIndex = index-1; + if (prevIndex < 0) + prevIndex = this.data.length-1; + return prevIndex; + }, + + // Pauses the slideshow + pause: function() { + this.isSlideshowRunning = false; + if (this.slideshowTimeout) { + clearTimeout(this.slideshowTimeout); + this.slideshowTimeout = undefined; + } + + if (this.$controlsContainer) { + this.$controlsContainer + .find('div.ss-controls a').removeClass().addClass('play') + .attr('title', this.playLinkText) + .attr('href', '#play') + .html(this.playLinkText); + } + + return this; + }, + + // Plays the slideshow + play: function() { + this.isSlideshowRunning = true; + + if (this.$controlsContainer) { + this.$controlsContainer + .find('div.ss-controls a').removeClass().addClass('pause') + .attr('title', this.pauseLinkText) + .attr('href', '#pause') + .html(this.pauseLinkText); + } + + if (!this.slideshowTimeout) { + var gallery = this; + this.slideshowTimeout = setTimeout(function() { gallery.ssAdvance(); }, this.delay); + } + + return this; + }, + + // Toggles the state of the slideshow (playing/paused) + toggleSlideshow: function() { + if (this.isSlideshowRunning) + this.pause(); + else + this.play(); + + return this; + }, + + // Advances the slideshow to the next image and delegates navigation to the + // history plugin when history is enabled + // enableHistory is true + ssAdvance: function() { + if (this.isSlideshowRunning) + this.next(true); + + return this; + }, + + // Advances the gallery to the next image. + // @param {Boolean} dontPause Specifies whether to pause the slideshow. + // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. + next: function(dontPause, bypassHistory) { + this.gotoIndex(this.getNextIndex(this.currentImage.index), dontPause, bypassHistory); + return this; + }, + + // Navigates to the previous image in the gallery. + // @param {Boolean} dontPause Specifies whether to pause the slideshow. + // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. + previous: function(dontPause, bypassHistory) { + this.gotoIndex(this.getPrevIndex(this.currentImage.index), dontPause, bypassHistory); + return this; + }, + + // Navigates to the next page in the gallery. + // @param {Boolean} dontPause Specifies whether to pause the slideshow. + // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. + nextPage: function(dontPause, bypassHistory) { + var page = this.getCurrentPage(); + var lastPage = this.getNumPages() - 1; + if (page < lastPage) { + var startIndex = page * this.numThumbs; + var nextPage = startIndex + this.numThumbs; + this.gotoIndex(nextPage, dontPause, bypassHistory); + } + + return this; + }, + + // Navigates to the previous page in the gallery. + // @param {Boolean} dontPause Specifies whether to pause the slideshow. + // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. + previousPage: function(dontPause, bypassHistory) { + var page = this.getCurrentPage(); + if (page > 0) { + var startIndex = page * this.numThumbs; + var prevPage = startIndex - this.numThumbs; + this.gotoIndex(prevPage, dontPause, bypassHistory); + } + + return this; + }, + + // Navigates to the image at the specified index in the gallery + // @param {Integer} index The index of the image in the gallery to display. + // @param {Boolean} dontPause Specifies whether to pause the slideshow. + // @param {Boolean} bypassHistory Specifies whether to delegate navigation to the history plugin when history is enabled. + gotoIndex: function(index, dontPause, bypassHistory) { + if (!dontPause) + this.pause(); + + if (index < 0) index = 0; + else if (index >= this.data.length) index = this.data.length-1; + + var imageData = this.data[index]; + + if (!bypassHistory && this.enableHistory) + $.historyLoad(String(imageData.hash)); // At the moment, historyLoad only accepts string arguments + else + this.gotoImage(imageData); + + return this; + }, + + // This function is garaunteed to be called anytime a gallery slide changes. + // @param {Object} imageData An object holding the image metadata of the image to navigate to. + gotoImage: function(imageData) { + var index = imageData.index; + + if (this.onSlideChange) + this.onSlideChange(this.currentImage.index, index); + + this.currentImage = imageData; + this.preloadRelocate(index); + + this.refresh(); + + return this; + }, + + // Returns the default transition duration value. The value is halved when not + // performing a synchronized transition. + // @param {Boolean} isSync Specifies whether the transitions are synchronized. + getDefaultTransitionDuration: function(isSync) { + if (isSync) + return this.defaultTransitionDuration; + return this.defaultTransitionDuration / 2; + }, + + // Rebuilds the slideshow image and controls and performs transitions + refresh: function() { + var imageData = this.currentImage; + if (!imageData) + return this; + + var index = imageData.index; + + // Update Controls + if (this.$controlsContainer) { + this.$controlsContainer + .find('div.nav-controls a.prev').attr('href', '#'+this.data[this.getPrevIndex(index)].hash).end() + .find('div.nav-controls a.next').attr('href', '#'+this.data[this.getNextIndex(index)].hash); + } + + var previousSlide = this.$imageContainer.find('span.current').addClass('previous').removeClass('current'); + var previousCaption = 0; + + if (this.$captionContainer) { + previousCaption = this.$captionContainer.find('span.current').addClass('previous').removeClass('current'); + } + + // Perform transitions simultaneously if syncTransitions is true and the next image is already preloaded + var isSync = this.syncTransitions && imageData.image; + + // Flag we are transitioning + var isTransitioning = true; + var gallery = this; + + var transitionOutCallback = function() { + // Flag that the transition has completed + isTransitioning = false; + + // Remove the old slide + previousSlide.remove(); + + // Remove old caption + if (previousCaption) + previousCaption.remove(); + + if (!isSync) { + if (imageData.image && imageData.hash == gallery.data[gallery.currentImage.index].hash) { + gallery.buildImage(imageData, isSync); + } else { + // Show loading container + if (gallery.$loadingContainer) { + gallery.$loadingContainer.show(); + } + } + } + }; + + if (previousSlide.length == 0) { + // For the first slide, the previous slide will be empty, so we will call the callback immediately + transitionOutCallback(); + } else { + if (this.onTransitionOut) { + this.onTransitionOut(previousSlide, previousCaption, isSync, transitionOutCallback); + } else { + previousSlide.fadeTo(this.getDefaultTransitionDuration(isSync), 0.0, transitionOutCallback); + if (previousCaption) + previousCaption.fadeTo(this.getDefaultTransitionDuration(isSync), 0.0); + } + } + + // Go ahead and begin transitioning in of next image + if (isSync) + this.buildImage(imageData, isSync); + + if (!imageData.image) { + var image = new Image(); + + // Wire up mainImage onload event + image.onload = function() { + imageData.image = this; + + // Only build image if the out transition has completed and we are still on the same image hash + if (!isTransitioning && imageData.hash == gallery.data[gallery.currentImage.index].hash) { + gallery.buildImage(imageData, isSync); + } + }; + + // set alt and src + image.alt = imageData.title; + image.src = imageData.slideUrl; + } + + // This causes the preloader (if still running) to relocate out from the currentIndex + this.relocatePreload = true; + + return this.syncThumbs(); + }, + + // Called by the refresh method after the previous image has been transitioned out or at the same time + // as the out transition when performing a synchronous transition. + // @param {Object} imageData An object holding the image metadata of the image to build. + // @param {Boolean} isSync Specifies whether the transitions are synchronized. + buildImage: function(imageData, isSync) { + var gallery = this; + var nextIndex = this.getNextIndex(imageData.index); + + // Construct new hidden span for the image + var newSlide = this.$imageContainer + .append('<span class="image-wrapper current"><a class="advance-link" rel="history" href="#'+this.data[nextIndex].hash+'" title="'+imageData.title+'"> </a></span>') + .find('span.current').css('opacity', '0'); + + newSlide.find('a') + .append(imageData.image) + .click(function(e) { + gallery.clickHandler(e, this); + }); + + var newCaption = 0; + if (this.$captionContainer) { + // Construct new hidden caption for the image + newCaption = this.$captionContainer + .append('<span class="image-caption current"></span>') + .find('span.current').css('opacity', '0') + .append(imageData.caption); + } + + // Hide the loading conatiner + if (this.$loadingContainer) { + this.$loadingContainer.hide(); + } + + // Transition in the new image + if (this.onTransitionIn) { + this.onTransitionIn(newSlide, newCaption, isSync); + } else { + newSlide.fadeTo(this.getDefaultTransitionDuration(isSync), 1.0); + if (newCaption) + newCaption.fadeTo(this.getDefaultTransitionDuration(isSync), 1.0); + } + + if (this.isSlideshowRunning) { + if (this.slideshowTimeout) + clearTimeout(this.slideshowTimeout); + + this.slideshowTimeout = setTimeout(function() { gallery.ssAdvance(); }, this.delay); + } + + return this; + }, + + // Returns the current page index that should be shown for the currentImage + getCurrentPage: function() { + return Math.floor(this.currentImage.index / this.numThumbs); + }, + + // Applies the selected class to the current image's corresponding thumbnail. + // Also checks if the current page has changed and updates the displayed page of thumbnails if necessary. + syncThumbs: function() { + var page = this.getCurrentPage(); + if (page != this.displayedPage) + this.updateThumbs(); + + // Remove existing selected class and add selected class to new thumb + var $thumbs = this.find('ul.thumbs').children(); + $thumbs.filter('.selected').removeClass('selected'); + $thumbs.eq(this.currentImage.index).addClass('selected'); + + return this; + }, + + // Performs transitions on the thumbnails container and updates the set of + // thumbnails that are to be displayed and the navigation controls. + // @param {Delegate} postTransitionOutHandler An optional delegate that is called after + // the thumbnails container has transitioned out and before the thumbnails are rebuilt. + updateThumbs: function(postTransitionOutHandler) { + var gallery = this; + var transitionOutCallback = function() { + // Call the Post-transition Out Handler + if (postTransitionOutHandler) + postTransitionOutHandler(); + + gallery.rebuildThumbs(); + + // Transition In the thumbsContainer + if (gallery.onPageTransitionIn) + gallery.onPageTransitionIn(); + else + gallery.show(); + }; + + // Transition Out the thumbsContainer + if (this.onPageTransitionOut) { + this.onPageTransitionOut(transitionOutCallback); + } else { + this.hide(); + transitionOutCallback(); + } + + return this; + }, + + // Updates the set of thumbnails that are to be displayed and the navigation controls. + rebuildThumbs: function() { + var needsPagination = this.data.length > this.numThumbs; + + // Rebuild top pager + if (this.enableTopPager) { + var $topPager = this.find('div.top'); + if ($topPager.length == 0) + $topPager = this.prepend('<div class="top pagination"></div>').find('div.top'); + else + $topPager.empty(); + + if (needsPagination) + this.buildPager($topPager); + } + + // Rebuild bottom pager + if (this.enableBottomPager) { + var $bottomPager = this.find('div.bottom'); + if ($bottomPager.length == 0) + $bottomPager = this.append('<div class="bottom pagination"></div>').find('div.bottom'); + else + $bottomPager.empty(); + + if (needsPagination) + this.buildPager($bottomPager); + } + + var page = this.getCurrentPage(); + var startIndex = page*this.numThumbs; + var stopIndex = startIndex+this.numThumbs-1; + if (stopIndex >= this.data.length) + stopIndex = this.data.length-1; + + // Show/Hide thumbs + var $thumbsUl = this.find('ul.thumbs'); + $thumbsUl.find('li').each(function(i) { + var $li = $(this); + if (i >= startIndex && i <= stopIndex) { + $li.show(); + } else { + $li.hide(); + } + }); + + this.displayedPage = page; + + // Remove the noscript class from the thumbs container ul + $thumbsUl.removeClass('noscript'); + + return this; + }, + + // Returns the total number of pages required to display all the thumbnails. + getNumPages: function() { + return Math.ceil(this.data.length/this.numThumbs); + }, + + // Rebuilds the pager control in the specified matched element. + // @param {jQuery} pager A jQuery element set matching the particular pager to be rebuilt. + buildPager: function(pager) { + var gallery = this; + var numPages = this.getNumPages(); + var page = this.getCurrentPage(); + var startIndex = page * this.numThumbs; + var pagesRemaining = this.maxPagesToShow - 1; + + var pageNum = page - Math.floor((this.maxPagesToShow - 1) / 2) + 1; + if (pageNum > 0) { + var remainingPageCount = numPages - pageNum; + if (remainingPageCount < pagesRemaining) { + pageNum = pageNum - (pagesRemaining - remainingPageCount); + } + } + + if (pageNum < 0) { + pageNum = 0; + } + + // Prev Page Link + if (page > 0) { + var prevPage = startIndex - this.numThumbs; + pager.append('<a rel="history" href="#'+this.data[prevPage].hash+'" title="'+this.prevPageLinkText+'">'+this.prevPageLinkText+'</a>'); + } + + // Create First Page link if needed + if (pageNum > 0) { + this.buildPageLink(pager, 0, numPages); + if (pageNum > 1) + pager.append('<span class="ellipsis">…</span>'); + + pagesRemaining--; + } + + // Page Index Links + while (pagesRemaining > 0) { + this.buildPageLink(pager, pageNum, numPages); + pagesRemaining--; + pageNum++; + } + + // Create Last Page link if needed + if (pageNum < numPages) { + var lastPageNum = numPages - 1; + if (pageNum < lastPageNum) + pager.append('<span class="ellipsis">…</span>'); + + this.buildPageLink(pager, lastPageNum, numPages); + } + + // Next Page Link + var nextPage = startIndex + this.numThumbs; + if (nextPage < this.data.length) { + pager.append('<a rel="history" href="#'+this.data[nextPage].hash+'" title="'+this.nextPageLinkText+'">'+this.nextPageLinkText+'</a>'); + } + + pager.find('a').click(function(e) { + gallery.clickHandler(e, this); + }); + + return this; + }, + + // Builds a single page link within a pager. This function is called by buildPager + // @param {jQuery} pager A jQuery element set matching the particular pager to be rebuilt. + // @param {Integer} pageNum The page number of the page link to build. + // @param {Integer} numPages The total number of pages required to display all thumbnails. + buildPageLink: function(pager, pageNum, numPages) { + var pageLabel = pageNum + 1; + var currentPage = this.getCurrentPage(); + if (pageNum == currentPage) + pager.append('<span class="current">'+pageLabel+'</span>'); + else if (pageNum < numPages) { + var imageIndex = pageNum*this.numThumbs; + pager.append('<a rel="history" href="#'+this.data[imageIndex].hash+'" title="'+pageLabel+'">'+pageLabel+'</a>'); + } + + return this; + } + }); + + // Now initialize the gallery + $.extend(this, defaults, settings); + + // Verify the history plugin is available + if (this.enableHistory && !$.historyInit) + this.enableHistory = false; + + // Select containers + if (this.imageContainerSel) this.$imageContainer = $(this.imageContainerSel); + if (this.captionContainerSel) this.$captionContainer = $(this.captionContainerSel); + if (this.loadingContainerSel) this.$loadingContainer = $(this.loadingContainerSel); + + // Initialize the thumbails + this.initializeThumbs(); + + if (this.maxPagesToShow < 3) + this.maxPagesToShow = 3; + + this.displayedPage = -1; + this.currentImage = this.data[0]; + var gallery = this; + + // Hide the loadingContainer + if (this.$loadingContainer) + this.$loadingContainer.hide(); + + // Setup controls + if (this.controlsContainerSel) { + this.$controlsContainer = $(this.controlsContainerSel).empty(); + + if (this.renderSSControls) { + if (this.autoStart) { + this.$controlsContainer + .append('<div class="ss-controls"><a href="#pause" class="pause" title="'+this.pauseLinkText+'">'+this.pauseLinkText+'</a></div>'); + } else { + this.$controlsContainer + .append('<div class="ss-controls"><a href="#play" class="play" title="'+this.playLinkText+'">'+this.playLinkText+'</a></div>'); + } + + this.$controlsContainer.find('div.ss-controls a') + .click(function(e) { + gallery.toggleSlideshow(); + e.preventDefault(); + return false; + }); + } + + if (this.renderNavControls) { + this.$controlsContainer + .append('<div class="nav-controls"><a class="prev" rel="history" title="'+this.prevLinkText+'">'+this.prevLinkText+'</a><a class="next" rel="history" title="'+this.nextLinkText+'">'+this.nextLinkText+'</a></div>') + .find('div.nav-controls a') + .click(function(e) { + gallery.clickHandler(e, this); + }); + } + } + + var initFirstImage = !this.enableHistory || !location.hash; + if (this.enableHistory && location.hash) { + var hash = $.galleriffic.normalizeHash(location.hash); + var imageData = allImages[hash]; + if (!imageData) + initFirstImage = true; + } + + // Setup gallery to show the first image + if (initFirstImage) + this.gotoIndex(0, false, true); + + // Setup Keyboard Navigation + if (this.enableKeyboardNavigation) { + $(document).keydown(function(e) { + var key = e.charCode ? e.charCode : e.keyCode ? e.keyCode : 0; + switch(key) { + case 32: // space + gallery.next(); + e.preventDefault(); + break; + case 33: // Page Up + gallery.previousPage(); + e.preventDefault(); + break; + case 34: // Page Down + gallery.nextPage(); + e.preventDefault(); + break; + case 35: // End + gallery.gotoIndex(gallery.data.length-1); + e.preventDefault(); + break; + case 36: // Home + gallery.gotoIndex(0); + e.preventDefault(); + break; + case 37: // left arrow + gallery.previous(); + e.preventDefault(); + break; + case 39: // right arrow + gallery.next(); + e.preventDefault(); + break; + } + }); + } + + // Auto start the slideshow + if (this.autoStart) + this.play(); + + // Kickoff Image Preloader after 1 second + setTimeout(function() { gallery.preloadInit(); }, 1000); + + return this; + }; +})(jQuery);
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/js/jquery.opacityrollover.js Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,42 @@ +/** + * jQuery Opacity Rollover plugin + * + * Copyright (c) 2009 Trent Foley (http://trentacular.com) + * Licensed under the MIT License: + * http://www.opensource.org/licenses/mit-license.php + */ +;(function($) { + var defaults = { + mouseOutOpacity: 0.67, + mouseOverOpacity: 1.0, + fadeSpeed: 'fast', + exemptionSelector: '.selected' + }; + + $.fn.opacityrollover = function(settings) { + // Initialize the effect + $.extend(this, defaults, settings); + + var config = this; + + function fadeTo(element, opacity) { + var $target = $(element); + + if (config.exemptionSelector) + $target = $target.not(config.exemptionSelector); + + $target.fadeTo(config.fadeSpeed, opacity); + } + + this.css('opacity', this.mouseOutOpacity) + .hover( + function () { + fadeTo(this, config.mouseOverOpacity); + }, + function () { + fadeTo(this, config.mouseOutOpacity); + }); + + return this; + }; +})(jQuery);
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/ppp.pm Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,230 @@ +package sRNAPipe::ppp; + +use strict; +use warnings; +use FindBin; +use lib "$FindBin::Bin/../lib"; +use sRNAPipe::Rcall qw ( histogram ); +use Math::CDF; + +use Exporter; +our @ISA = qw( Exporter ); +our @EXPORT_OK = qw( &ping_pong_partners ); + +sub ping_pong_partners +{ + my ( $TE_fai, $sam, $dir, $max ) = @_; + my ( $hashRef, $dupRef, $hasPpp ) = count_mapped ( $TE_fai, $sam ); + my ( %num_per_overlap_size, $overlap_number, $reverseR, $begRev, $endRev, $sensR, $begSens, $endSens, $snum, $rnum, $overlap ); + my ( $SP, $AP, $SN, $AN, $txt ); + my $flag = 0; + my @distri_overlap = (); my @overlaps_names = (); + + open my $ppp_f, '>', $dir."ppp.txt" || die "cannot create ppp.txt $!\n"; + foreach my $k ( sort keys %{$hashRef} ) + { + my $v = $hashRef->{$k}; + my $TE_dir = $dir.$k.'/'; + + %num_per_overlap_size = (); $overlap_number = 0; + $flag = 0; + for ( my $i = 0; $i <= $#{$v->[1]} ; $i++ ) + { + $reverseR = ${$v->[1]}[$i] ; + $begRev = $reverseR->[0]; + $endRev = $begRev + length($reverseR->[1]) - 1; + + my $revR = reverse($reverseR->[1]); + $revR =~ tr/atgcuATGCU/tacgaTACGA/; + + for ( my $j = 0; $j <= $#{$v->[0]}; $j++ ) + { + $sensR = ${$v->[0]}[$j]; + $begSens = $sensR->[0]; + $endSens = $begSens + length($sensR->[1]) - 1; + + if ( $begSens <= $endRev && $endSens > $endRev ) + { + $flag = 1; + mkdir $TE_dir; + open $txt, '>', $TE_dir.'overlap_size.txt' || die "cannot open repartition\n"; + + $overlap = $endRev - $begSens + 1; + $snum = $dupRef->{$sensR->[0].$sensR->[1].$sensR->[2].$sensR->[3]}; + $rnum = $dupRef->{$reverseR->[0].$reverseR->[1].$reverseR->[2].$reverseR->[3]}; + + if ( $overlap == 10 ) + { + $hasPpp->{ $sensR->[0].$sensR->[1].$sensR->[2].$sensR->[3] } = 1; + $hasPpp->{ $reverseR->[0].$reverseR->[1].$reverseR->[2].$reverseR->[3] } = 1; + } + next if $overlap > $max; + if ( $snum < $rnum ) + { + $num_per_overlap_size{$overlap} += $snum; + $overlap_number += $snum; + } + else + { + $num_per_overlap_size{$overlap} += $rnum ; + $overlap_number += $rnum ; + } + } + } + } + if ( $max != 0 ) + { + my @overlaps = (); + push @overlaps_names, $k; + for my $i (1..$max) + { + $num_per_overlap_size{$i} = 0 unless exists( $num_per_overlap_size{$i} ); + push @overlaps, $num_per_overlap_size{$i}; + } + push @distri_overlap, \@overlaps; + } + + if ( $flag == 1 ) + { + open $AP, '>', $TE_dir."antisensPPP.txt" || die "cannot create antisensPPP\n"; + open $AN, '>', $TE_dir."antisens.txt" || die "cannot create antisens\n"; + for ( my $i = 0; $i <= $#{$v->[1]} ; $i++ ) + { + $reverseR = ${$v->[1]}[$i] ; + my $revR = reverse($reverseR->[1]); + $revR =~ tr/atgcuATGCU/tacgaTACGA/; + $rnum = $dupRef->{$reverseR->[0].$reverseR->[1].$reverseR->[2].$reverseR->[3]}; + if ( $hasPpp->{ $reverseR->[0].$reverseR->[1].$reverseR->[2].$reverseR->[3] } == 1 ) + { + print $AP ">$reverseR->[0]|$reverseR->[2]|$reverseR->[3]|$rnum\n$revR\n"; + } + else + { + print $AN ">$reverseR->[0]|$reverseR->[2]|$reverseR->[3]|$rnum\n$revR\n"; + } + } + close $AP; close $AN; + + open $SP, '>', $TE_dir."sensPPP.txt" || die "cannot create sensPPP\n"; + open $SN, '>', $TE_dir."sens.txt" || die "cannot create sens\n"; + for ( my $j = 0; $j <= $#{$v->[0]}; $j++ ) + { + $sensR = ${$v->[0]}[$j]; + $snum = $dupRef->{$sensR->[0].$sensR->[1].$sensR->[2].$sensR->[3]}; + if ( $hasPpp->{ $sensR->[0].$sensR->[1].$sensR->[2].$sensR->[3] } == 1 ) + { + print $SP ">$sensR->[0]|$sensR->[2]|$sensR->[3]|$snum\n$sensR->[1]\n"; + } + else + { + print $SN ">$sensR->[0]|$sensR->[2]|$sensR->[3]|$snum\n$sensR->[1]\n"; + } + } + close $SP; close $SN; + + my $histo_png = $TE_dir.'histogram.png'; + histogram( \%num_per_overlap_size, $histo_png, $overlap_number ); + print $txt "size\tnumber\tpercentage of the total overlap number\n"; + foreach my $k ( sort {$a <=> $b} keys %num_per_overlap_size ) + { + my $percentage = 0; + $percentage = $num_per_overlap_size{$k} * 100 / $overlap_number unless $overlap_number == 0; + print $txt "$k\t$num_per_overlap_size{$k}\t"; printf $txt "%.2f\n",$percentage; + } + close $txt; + } + } + + foreach my $tabP ( @distri_overlap ) + { + my $sum = sum($tabP); + my $ten = $tabP->[9]; + my $mean = mean($tabP); + my $std = standard_deviation($tabP, $mean); + my $zsc = z_significance($ten, $mean, $std); + my $name = shift @overlaps_names; + my $prob = 'NA'; + $prob = 1 - &Math::CDF::pnorm( $zsc ) if $zsc ne 'NA'; + print $ppp_f (join ("\t", $name, $sum, $ten, $mean, $std, $zsc, $prob ),"\n" ); + } + close $ppp_f; +} + +sub count_mapped +{ + my ( $fai, $in_file ) = @_; + my ( %mapped, %dup, %has_ppp ); + + open my $f, '<', $fai || die "cannot open $fai $! \n"; + while(<$f>) + { + if ($_ =~ /(.*)\t(\d+)\n/) + { + $mapped{$1} = []; + $mapped{$1}->[0] = []; $mapped{$1}->[1] = []; + } + } + close $f; + + open my $infile, "samtools view '$in_file' |"|| die "cannot open input file $! \n"; + while(<$infile>) + { + unless ($_ =~ /^\@[A-Za-z][A-Za-z](\t[A-Za-z][A-Za-z0-9]:[ -~]+)+$/ || $_ =~ /^\@CO\t.*/ ) + { + my @line = split (/\t/,$_); + if ($line[1] == 0) + { + unless ( exists ($dup{$line[3].$line[9].$line[1].$line[2]}) ) + { + push @{$mapped{$line[2]}->[0]} , [$line[3], $line[9], $line[1], $line[2]]; + $has_ppp {$line[3].$line[9].$line[1].$line[2]} = 0; + } + $dup{$line[3].$line[9].$line[1].$line[2]}+=1; + } + elsif ($line[1] == 16) + { + unless ( exists ($dup{$line[3].$line[9].$line[1].$line[2]}) ) + { + push @{$mapped{$line[2]}->[1]} , [$line[3], $line[9], $line[1], $line[2]]; + $has_ppp{$line[3].$line[9].$line[1].$line[2]} = 0; + } + $dup{$line[3].$line[9].$line[1].$line[2]}+=1 + } + } + } + close $infile; + return (\%mapped, \%dup, \%has_ppp ); +} + +sub sum +{ + my $arrayref = shift; + my $result = 0; + foreach (@$arrayref) {$result += $_} + return $result; +} + +sub mean +{ + my $arrayref = shift; + my $result; + foreach (@$arrayref) {$result += $_} + return $result / scalar(@$arrayref); +} + +sub standard_deviation +{ + my ($arrayref, $mean) = @_; + return sqrt ( mean ( [map $_**2 , @$arrayref ]) - ($mean**2)); +} + +sub z_significance +{ + my ($ten, $mean, $std) = @_; + my $z = 'NA'; + $z = (($ten - $mean) / $std) if $std != 0; + return $z; +} + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/resize.pm Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,101 @@ +package sRNAPipe::resize; + +use strict; +use warnings; + +use FindBin; +use lib "$FindBin::Bin/../lib"; +use sRNAPipe::Rcall qw ( histogram ); + +use Exporter; +our @ISA = qw( Exporter ); +our @EXPORT_OK = qw( &size_distribution ); + +sub size_distribution +{ + my ( $fastq, $fastq_out, $dir, $min, $max ) = @_; + + my ( %fragments_size, %duplicates ) ; + my $num = size($min, $max, $fastq, $fastq_out, \%fragments_size, \%duplicates); + + my $png = $dir.'histogram.png'; + histogram(\%fragments_size, $png, $num); + + my $size = $dir.'reads_size.txt'; + + + my $pourcentage; + open my $o, '>', $size || die "cannot open $size $!\n"; + print $o "size\tnumber\tpercentage\n"; + foreach my $k (sort { $a <=> $b } keys %fragments_size ) + { + $pourcentage = $fragments_size{$k} / $num * 100; + + print $o "$k\t$fragments_size{$k}\t"; + printf $o "%.2f\n",$pourcentage; + } + close $o; + + my $dup = $dir.'duplicates.txt' ; + open $o, '>', $dup || die "cannot open $size $!\n"; + print $o "size\tnumber\n"; + foreach my $k (sort { $duplicates{$b} <=> $duplicates{$a} } keys %duplicates ) + { + print $o "$k\t$duplicates{$k}\n"; + } + close $o; +} + +sub size +{ + my ($min, $max, $in_file, $out_file, $sizeHashR, $duplicateHashR) = @_; + my ($numreads, $size, $cmp, $ok, $line) = (0, 0, 0, 0); + my @fastq; + open (my $in, $in_file) || die "cannot open $in_file $!\n"; + open (my $out, ">".$out_file) || die "cannot create $out_file $!\n"; + while(<$in>) + { + chomp $_; + $cmp++; $line++; + if ($cmp == 1) + { + die "file do not contain a @ at line $line\n" unless ($_ =~ /^\@/ ); + $ok = 0; @fastq = (); + push(@fastq,$_); + } + elsif ($cmp == 2) + { + #die "unrecognized symbol at line $line\n" unless ($_ =~ /[atcgATCGnN]+/ || $_ =~ /^$/ ); + push(@fastq,$_); + $size = length($_); + if ($size >= $min && $size <= $max) + { + $numreads++; + ${$sizeHashR}{$size}+=1; + ${$duplicateHashR}{$_}+=1 if (defined($duplicateHashR)); + $ok = 1; + } + } + elsif ($cmp == 3 ) + { + die "file do not contain a + at line $line\n" unless $_ =~ /^\+/; + push(@fastq,$_); + } + elsif ($cmp == 4 ) + { + push(@fastq,$_); + $cmp = 0; + if ($ok == 1) + { + foreach my $t (@fastq) + { + print $out $t."\n"; + } + } + } + } + close $in; close $out; + return $numreads; +} + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/sRNAPipe/subgroups.pm Mon Jan 28 11:57:15 2019 -0500 @@ -0,0 +1,174 @@ +package sRNAPipe::subgroups; + +use strict; +use warnings; +use Exporter; +our @ISA = qw( Exporter ); +our @EXPORT_OK = qw( &subgroups ); + +use POSIX; +use File::Copy; +use FindBin; +use lib "$FindBin::Bin/../lib"; +use sRNAPipe::align qw ( get_hash_alignment ); + +sub subgroups +{ + my ($fin, $dir, $mis, $mis_TE, $proc, $tRNAs, $rRNAs, $snRNAs, $miRNAs, $transcripts, $TE, $min_si, $max_si, $min_pi, $max_pi, $report ) = @_; + my (@files, $sum, $pie, $repar, %ismapped, %isjunk, %repartition, @junk_ref, @all_ref ); + + srand(); + print $report "----------------------------\n"; + print $report "Create subgroups:\nfastq_in: $fin\ndirectory_out: $dir\nmismatches: $mis\nmismatches TE: $mis_TE\n"; + + mkdir $dir; + $dir = $dir.'/' unless $dir =~ /(.*)\/$/; + + my $accept_miRNas = $dir.'miRNAs.fastq'; + my $reject_miRNAs = $dir.'miRNAs_rejected.fastq'; + my $sam_miRNAs = $dir.'miRNAs.sam'; + my @tmp = get_hash_alignment($miRNAs, $mis, 1, 1, $accept_miRNas, $reject_miRNAs, $fin, $proc, 'miRNAs',$sam_miRNAs, $report); + my $mi = $tmp[0]; my $sam = ''; + $repartition{'miRNAs'} = $mi; + + + my $reject_rRNAs = $dir.'rRNAs_rejected.fastq'; + if ( $rRNAs eq 'None') + { + move($reject_miRNAs,$reject_rRNAs); + } + else + { + $sam = new String::Random; + $sam = $sam->randpattern("CCcccccc"); + @tmp = get_hash_alignment($rRNAs, $mis, 0, 1, 'NA', $reject_rRNAs, $reject_miRNAs, $proc, 'rRNAs', $sam, $report); + $repartition{'rRNAs'} = $tmp[0]; + unlink $sam, $sam.'_aln.err', $sam.'_samse.err'; + } + + my $reject_tRNAs = $dir.'rRNAs_rejected.fastq'; + if ( $rRNAs eq 'None') + { + move($reject_rRNAs,$reject_tRNAs); + } + else + { + $sam = new String::Random; + $sam = $sam->randpattern("CCcccccc"); + @tmp = get_hash_alignment($tRNAs, $mis, 0, 1, 'NA', $reject_tRNAs, $reject_rRNAs, $proc, 'tRNAs', $sam, $report); + $repartition{'tRNAs'} = $tmp[0]; + unlink $sam, $sam.'_aln.err', $sam.'_samse.err'; + } + + + my $bonafide = $dir.'bonafide_reads.fastq'; + if ( $rRNAs eq 'None') + { + move($reject_tRNAs,$bonafide); + } + else + { + $sam = new String::Random; + $sam = $sam->randpattern("CCcccccc"); + @tmp = get_hash_alignment($snRNAs, $mis, 0, 1, 'NA', $bonafide, $reject_tRNAs, $proc, 'snRNAs', $sam, $report); + $repartition{'snRNAs'} = $tmp[0]; + + unlink $sam, $sam.'_aln.err', $sam.'_samse.err'; + } + my $bo = $tmp[1]; + + my $sam_transcripts = $dir.'transcripts.sam'; + my $reject_transcripts = $dir.'rejected_transcripts.fastq'; + @tmp = get_hash_alignment($transcripts, $mis, 0, 1, 'NA', $reject_transcripts, $bonafide, $proc, 'transcripts', $sam_transcripts, $report, $dir.'transcripts.fai'); + $repartition{'transcripts'} = $tmp[0]; + + + my $sam_TEs = $dir.'TEs.sam'; + my $reject_TEs = $dir.'rejected.fastq'; + @tmp = get_hash_alignment($TE, $mis_TE, 0, 1, 'NA', $reject_TEs, $reject_transcripts, $proc, 'TEs', $sam_TEs, $report, $dir.'TEs.fai' ); + $repartition{'TEs'} = $tmp[0] ; $repartition{'others'} = $tmp[1]; + unlink $sam, $sam.'_aln.err', $sam.'_samse.err'; + unlink $reject_transcripts; + unlink $reject_rRNAs; + unlink $reject_miRNAs; + unlink $reject_tRNAs; + + #create repartition + my $pi = fastqSubgroups($bonafide, $dir, $min_si, $max_si, $min_pi, $max_pi ); + + open (my $re, '>'.$dir.'repartition.txt') || die "cannot open $dir repartition.txt $!\n"; + print $re "type\tnumber\tpercentage\n"; + $sum += $_ foreach values %repartition; + foreach my $k ( sort keys %repartition ) + { + my $prct = 0; + $prct = $repartition{$k} / $sum * 100 if $sum != 0; + print $re "$k\t$repartition{$k}\t"; printf $re "%.2f\n",$prct; + } + return ( $bo, $mi, $pi); +} + +sub fastqSubgroups +{ + my ( $fastq, $output_directory, $min_si, $max_si, $min_pi, $max_pi ) = @_; + my $fastq_siRNA = $output_directory."siRNAs.fastq"; + my $fastq_piRNA = $output_directory."piRNAs.fastq"; + + open my $fic, '<', $fastq || die "cannot open input file $! \n"; + open my $si, '>', $fastq_siRNA || die "cannot open siRNA.fastq $! \n"; + open my $pi, '>', $fastq_piRNA || die "cannot open piRNA.fastq $! \n"; + + my ($length, $cmp, $type, $siRNA_number, $miRNA_h_number, $piRNA_number, $not_pi_number) = (0,0,0,0,0,0,0); + my (@fastq) =(); my $seq_name; + my $out; + while(<$fic>) + { + chomp $_; + $cmp++; + if ($cmp == 1) + { + die "file do not contain a @ at line $cmp\n" unless ($_ =~ /^\@/ ); + $type = 0; @fastq = (); + if ($_ =~ /^\@(.*)\s.*/) { $seq_name = $1;} + elsif ($_ =~ /^\@(.*)/) {$seq_name = $1;} + push(@fastq,$_); + } + elsif ($cmp == 2) + { + #die "unrecognized symbol at line $cmp\n" unless $_ =~ /[atcgATCGnN]+/; + push(@fastq,$_); + $length = length($_); + $type = 0; + if ( $length >= $min_si && $length <= $max_si ) + { + $type = 2; + $siRNA_number++; + } + if ($length >= $min_pi && $length <= $max_pi ) + { + $type += 4; + $piRNA_number++; + } + } + elsif ($cmp == 3 ) + { + die "file do not contain a + at line $cmp\n" unless $_ =~ /^\+/; + push(@fastq,$_); + } + elsif ($cmp == 4 ) + { + push(@fastq,$_); + $cmp = 0; + if ($type != 0) + { + if ($type & 4 ) { foreach my $t (@fastq) { print $pi $t."\n";} } + if ($type & 2 ) { foreach my $t (@fastq) { print $si $t."\n";} } + } + } + } + close $fic; + close $si; close $pi; + return ($piRNA_number); +} + +1;
--- a/sRNAPipe.xml Thu Jan 24 13:09:46 2019 -0500 +++ b/sRNAPipe.xml Mon Jan 28 11:57:15 2019 -0500 @@ -36,7 +36,7 @@ <requirement type="package" version="1.1_2">r-rcolorbrewer</requirement> <requirement type="package" version="2.2.1">r-ggplot2</requirement> </requirements> - <version_command>perl '$__tool_directory__/bin/sRNAPipe.pl'</version_command> + <version_command>perl '$__tool_directory__/bin/sRNAPipe.pl' | grep 'version' | grep "version" | cut -d ' ' -f 3</version_command> <command detect_errors="aggressive"><![CDATA[ perl '$__tool_directory__/bin/sRNAPipe.pl'