Mercurial > repos > artbio > sequence_format_converter
comparison sequence_format_converter.xml @ 4:1c14d2869d4d draft default tip
"planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit 9c5f0b8e89dfe4347c610f42923f0acad2ecc81b"
| author | artbio |
|---|---|
| date | Wed, 17 Mar 2021 22:09:13 +0000 |
| parents | 772bd67ef26a |
| children |
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| 3:772bd67ef26a | 4:1c14d2869d4d |
|---|---|
| 1 <tool id="sequence_format_converter" name="sequence_format_converter" version="2.1.2"> | 1 <tool id="sequence_format_converter" name="sequence_format_converter" version="2.2.0"> |
| 2 <description></description> | 2 <description></description> |
| 3 <requirements> | |
| 4 <requirement type="package" version="3.7.6">python</requirement> | |
| 5 </requirements> | |
| 3 <command><![CDATA[ | 6 <command><![CDATA[ |
| 4 #if $input.is_of_type('fastq.gz'): | 7 #if $input.is_of_type('fastq.gz'): |
| 5 gzip -dc $input > '${input}.tmp'; | 8 gzip -dc $input > '${input}.tmp'; |
| 6 python '$__tool_directory__'/sequence_format_converter.py | 9 python '$__tool_directory__'/sequence_format_converter.py |
| 7 --input '${input}.tmp' | 10 --input '${input}.tmp' |
| 36 <tests> | 39 <tests> |
| 37 <test> | 40 <test> |
| 38 <!-- convertion fasta to tabular --> | 41 <!-- convertion fasta to tabular --> |
| 39 <param name="output_format" value="tabular" /> | 42 <param name="output_format" value="tabular" /> |
| 40 <param ftype="fasta" name="input" value="input.fa" /> | 43 <param ftype="fasta" name="input" value="input.fa" /> |
| 41 <output file="output.tab" name="output" /> | 44 <output file="output.tab" name="output" sort="true" /> |
| 42 </test> | 45 </test> |
| 43 <test> | 46 <test> |
| 44 <!-- convertion tabular to fasta --> | 47 <!-- convertion tabular to fasta --> |
| 45 <param name="output_format" value="fasta" /> | 48 <param name="output_format" value="fasta" /> |
| 46 <param ftype="tabular" name="input" value="output.tab" /> | 49 <param ftype="tabular" name="input" value="output.tab" /> |