Mercurial > repos > devteam > fastx_reverse_complement
diff fastx_reverse_complement.xml @ 3:3f1017d3f785 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
| author | iuc |
|---|---|
| date | Tue, 08 May 2018 13:28:22 -0400 |
| parents | e246088b6e34 |
| children | 0c2907307ba4 |
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--- a/fastx_reverse_complement.xml Wed Nov 11 12:40:00 2015 -0500 +++ b/fastx_reverse_complement.xml Tue May 08 13:28:22 2018 -0400 @@ -1,21 +1,19 @@ -<tool id="cshl_fastx_reverse_complement" version="1.0.0" name="Reverse-Complement"> +<tool id="cshl_fastx_reverse_complement" version="1.0.1" name="Reverse-Complement"> <description></description> - <requirements> - <requirement type="package" version="0.0.13">fastx_toolkit</requirement> - </requirements> - <command> -<![CDATA[ -zcat -f < '$input' | fastx_reverse_complement -v -o '$output' -#if $input.ext == "fastqsanger": - -Q 33 -#end if -]]> - </command> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="exit_code"><![CDATA[ +@CATS@ fastx_reverse_complement -v +-o '$output' +@FQQUAL@ + ]]></command> <inputs> - <param format="fasta,fastqsolexa,fastqsanger" name="input" type="data" label="Library to reverse-complement" /> + <expand macro="fastx_input" /> </inputs> <outputs> - <data format_source="input" name="output" metadata_source="input" /> + <data name="output" format_source="input" metadata_source="input" /> </outputs> <tests> <test> @@ -29,7 +27,7 @@ <output name="output" ftype="fastqsolexa" file="fastx_reverse_complement2.out" /> </test> </tests> - <help> + <help><![CDATA[ **What it does** This tool reverse-complements each sequence in a library. @@ -59,5 +57,6 @@ This tool is based on `FASTX-toolkit`__ by Assaf Gordon. .. __: http://hannonlab.cshl.edu/fastx_toolkit/ - </help> + ]]></help> + <expand macro="citations" /> </tool>