Mercurial > repos > devteam > fastq_quality_filter
diff macros.xml @ 4:a55430a1c754 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastq_quality_filter commit 3953b65f6b1c0336e9cadbe0792a5d3b14b5643a
author | iuc |
---|---|
date | Wed, 22 Aug 2018 11:02:06 -0400 |
parents | 7b6a748e438f |
children | b4c9c66a7a4d |
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--- a/macros.xml Tue May 08 12:50:05 2018 -0400 +++ b/macros.xml Wed Aug 22 11:02:06 2018 -0400 @@ -2,7 +2,7 @@ <macros> <token name="@CATS@"> #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'): - zcat -f '$input' | + gunzip -c -f '$input' | #elif $input.is_of_type('fastqsanger.bz2', 'fastqsolexa.bz2', 'fastqillumina.bz2'): bzcat -f '$input' | #else: @@ -18,6 +18,13 @@ #end if ]]> </token> + <token name="@GZIP@"> + <![CDATA[ + #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'): + -z + #end if + ]]> + </token> <xml name="requirements"> <requirements> <requirement type="package" version="@VERSION@">fastx_toolkit</requirement>