# HG changeset patch # User matces # Date 1307480373 14400 # Node ID 78770028dcf10c4c0f304db1b7feb4e75695bd0d # Parent cdd489d987663a3e1a886cd73b2602a055e44f96 Migrated tool version 1.0.1 from old tool shed archive to new tool shed repository diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/.DS_Store Binary file carpet-src-1/.DS_Store has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/static/example_file/._CARPET_userManual.zip Binary file carpet-src-1/static/example_file/._CARPET_userManual.zip has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/static/example_file/._Expression_analysis_files.zip Binary file carpet-src-1/static/example_file/._Expression_analysis_files.zip has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/static/example_file/._GFF_file_norm.txt.zip Binary file carpet-src-1/static/example_file/._GFF_file_norm.txt.zip has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/static/example_file/._Pair_file.txt.zip Binary file carpet-src-1/static/example_file/._Pair_file.txt.zip has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/static/example_file/._UCSC_hs_refGene_chr19.zip Binary file carpet-src-1/static/example_file/._UCSC_hs_refGene_chr19.zip has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/static/example_file/._all_pair.txt.zip Binary file carpet-src-1/static/example_file/._all_pair.txt.zip has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/static/example_file/._log2ratio_file.txt.zip Binary file carpet-src-1/static/example_file/._log2ratio_file.txt.zip has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/static/example_file/._raw_value.txt.zip Binary file carpet-src-1/static/example_file/._raw_value.txt.zip has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/suite_config.xml --- a/carpet-src-1/suite_config.xml Tue Jun 07 16:50:41 2011 -0400 +++ b/carpet-src-1/suite_config.xml Tue Jun 07 16:59:33 2011 -0400 @@ -1,4 +1,4 @@ -<suite id="CARPET_toolsuite" name="CARPET" version="1.0.0"> +<suite id="CARPET_toolsuite" name="CARPET" version="1.0.1"> <description>This suite contains all tha CARPET tools created for Galaxy</description> <tool id="view_chip" name="ChipView" version="1.0.0"> <description>looking into the chip</description> @@ -15,7 +15,7 @@ <tool id="common unique" name="Com&Uni" version="1.1.0"> <description>easy way to compare results</description> </tool> - <tool id="Annotation_RefSeq" name="GIN" version="1.2.0"> + <tool id="Annotation_RefSeq" name="GIN" version="1.3.0"> <description>Gene Intervals Notator</description> </tool> <tool id="Annotation visualization" name="GIN visualizator" version="1.0.0"> diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/tools/.DS_Store Binary file carpet-src-1/tools/.DS_Store has changed diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/tools/CARPET/MapToExon_RefSeqMat.xml --- a/carpet-src-1/tools/CARPET/MapToExon_RefSeqMat.xml Tue Jun 07 16:50:41 2011 -0400 +++ b/carpet-src-1/tools/CARPET/MapToExon_RefSeqMat.xml Tue Jun 07 16:59:33 2011 -0400 @@ -1,4 +1,4 @@ -<tool id="Annotation_RefSeq" name="GIN" version="1.2.0"> +<tool id="Annotation_RefSeq" name="GIN" version="1.3.0"> <description>Gene Intervals Notator</description> <command interpreter="perl">MapToExon_RefSeqMat_new.pl $input1 $input2 $promoter $3prime $priority $output</command> <inputs> diff -r cdd489d98766 -r 78770028dcf1 carpet-src-1/tools/CARPET/MapToExon_RefSeqMat_new.pl --- a/carpet-src-1/tools/CARPET/MapToExon_RefSeqMat_new.pl Tue Jun 07 16:50:41 2011 -0400 +++ b/carpet-src-1/tools/CARPET/MapToExon_RefSeqMat_new.pl Tue Jun 07 16:59:33 2011 -0400 @@ -144,7 +144,7 @@ } $geneName=$kEle[$zname]; $exonStartref=$kEle[$zexonstart]; - my $feature="$ref\t$geneName\t$transcriptStart\t$transcriptStop\t$strand"; + #my $feature="$ref\t$geneName\t$transcriptStart\t$transcriptStop\t$strand"; my @exonStart=split(",", $exonStartref);