Mercurial > repos > mcharles > rapsosnp
comparison rapsodyn/rapsosnp_stats2x.xml @ 2:761fecc07fa9 draft
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| author | mcharles |
|---|---|
| date | Thu, 11 Sep 2014 03:10:47 -0400 |
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| 1:7f36bd129321 | 2:761fecc07fa9 |
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| 1 <tool id="rapsosnp_stats2x" name="rapsosnp_stats2x" version="0.01"> | |
| 2 <description>Stats for rapsosnp workflow</description> | |
| 3 <command interpreter="perl"> | |
| 4 rapsosnp_stats2x.pl $input_read1_row_file $input_read2_row_file $input_read1_part1_trimmed_file $input_read1_part2_trimmed_file $input_read2_part1_trimmed_file $input_read2_part2_trimmed_file $input_sam_row_part1_file $input_sam_row_part2_file $input_sam_filtered_part1_file $input_sam_filtered_part2_file $input_mpileup_variant_file $input_list_filtered_file $input_blast_filtered_part1_file $input_blast_filtered_part2_file $input_snp_selected_file > $output_file | |
| 5 </command> | |
| 6 <inputs> | |
| 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"/> | |
| 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"/> | |
| 9 <param name="input_read1_part1_trimmed_file" type="data" format="fastq,fastqsanger,fastqsolexa,fastqillumina" label="Select a suitable input READ1 PART1 TRIMMED file from your history"/> | |
| 10 <param name="input_read1_part2_trimmed_file" type="data" format="fastq,fastqsanger,fastqsolexa,fastqillumina" label="Select a suitable input READ1 PART2 TRIMMED file from your history"/> | |
| 11 <param name="input_read2_part1_trimmed_file" type="data" format="fastq,fastqsanger,fastqsolexa,fastqillumina" label="Select a suitable input READ2 PART1 TRIMMED file from your history"/> | |
| 12 <param name="input_read2_part2_trimmed_file" type="data" format="fastq,fastqsanger,fastqsolexa,fastqillumina" label="Select a suitable input READ2 PART2 TRIMMED file from your history"/> | |
| 13 <param name="input_sam_row_part1_file" type="data" format="sam" label="Select a suitable input SAM PART1 file from your history"/> | |
| 14 <param name="input_sam_row_part2_file" type="data" format="sam" label="Select a suitable input SAM PART2 file from your history"/> | |
| 15 <param name="input_sam_filtered_part1_file" type="data" format="sam" label="Select a suitable input SAM PART1 FILTERED file from your history"/> | |
| 16 <param name="input_sam_filtered_part2_file" type="data" format="sam" label="Select a suitable input SAM PART2 FILTERED file from your history"/> | |
| 17 <param name="input_mpileup_variant_file" type="data" format="pileup" label="Select a suitable input MPILEUP VARIANT file from your history"/> | |
| 18 <param name="input_list_filtered_file" type="data" format="pileup" label="Select a suitable input LIST FILTERED file from your history"/> | |
| 19 <param name="input_blast_filtered_part1_file" type="data" format="pileup" label="Select a suitable input BLAST FILTERED PART1 file from your history"/> | |
| 20 <param name="input_blast_filtered_part2_file" type="data" format="pileup" label="Select a suitable input BLAST FILTERED PART2 file from your history"/> | |
| 21 <param name="input_snp_selected_file" type="data" format="pileup" label="Select a suitable input SNP SELECTED file from your history"/> | |
| 22 </inputs> | |
| 23 <outputs> | |
| 24 <data name="output_file" format="txt" label="STATS"/> | |
| 25 </outputs> | |
| 26 | |
| 27 | |
| 28 <help> | |
| 29 | |
| 30 </help> | |
| 31 </tool> |