Mercurial > repos > mcharles > rapsosnp

annotate rapsodyn/rapsosnp_stats.xml @ 3:9332b9da7491 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author mcharles
date Thu, 11 Sep 2014 07:31:20 -0400
parents 7f36bd129321
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
1
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
1 <tool id="rapsosnp_stats" name="rapsosnp_stats" version="0.01">
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
2 <description>Merge best results from Blast</description>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
3 <command interpreter="perl">
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
4 rapsosnp_stats.pl $input_read1_row_file $input_read2_row_file $input_read1_trimmed_file $input_read2_trimmed_file $input_sam_row_file $input_sam_filtered_file $input_mpileup_variant_file $input_list_filtered_file $input_blast_filtered_file $input_snp_selected_file > $output_file
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
5 </command>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
6 <inputs>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
7 <param name="input_read1_row_file" type="data" format="fastq,fastqsanger,fastqsolexa,fastqillumina" label="Select a suitable input READ1 ROW file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
8 <param name="input_read2_row_file" type="data" format="fastq,fastqsanger,fastqsolexa,fastqillumina" label="Select a suitable input READ2 ROW file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
9 <param name="input_read1_trimmed_file" type="data" format="fastq,fastqsanger,fastqsolexa,fastqillumina" label="Select a suitable input READ1 TRIMMED file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
10 <param name="input_read2_trimmed_file" type="data" format="fastq,fastqsanger,fastqsolexa,fastqillumina" label="Select a suitable input READ2 TRIMMED file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
11 <param name="input_sam_row_file" type="data" format="sam" label="Select a suitable input SAM file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
12 <param name="input_sam_filtered_file" type="data" format="sam" label="Select a suitable input SAM FILTERED file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
13 <param name="input_mpileup_variant_file" type="data" format="pileup" label="Select a suitable input MPILEUP VARIANT file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
14 <param name="input_list_filtered_file" type="data" format="pileup" label="Select a suitable input LIST FILTERED file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
15 <param name="input_blast_filtered_file" type="data" format="pileup" label="Select a suitable input BLAST FILTERED file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
16 <param name="input_snp_selected_file" type="data" format="pileup" label="Select a suitable input SNP SELECTED file from your history"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
17 </inputs>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
18 <outputs>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
19 <data name="output_file" format="txt" label="STATS"/>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
20 </outputs>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
21
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
22
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
23 <help>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
24
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
25 </help>
7f36bd129321 Uploaded
mcharles
parents:
diff changeset
26 </tool>