Mercurial > repos > devteam > fasta_nucleotide_changer
changeset 4:091ca73f5804 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fasta_nucleotide_changer commit 3953b65f6b1c0336e9cadbe0792a5d3b14b5643a
| author | iuc |
|---|---|
| date | Wed, 22 Aug 2018 11:04:20 -0400 |
| parents | cc9a18dd41c9 |
| children | ec0b5076173a |
| files | fasta_nucleotide_changer.xml macros.xml |
| diffstat | 2 files changed, 10 insertions(+), 2 deletions(-) [+] |
line wrap: on
line diff
--- a/fasta_nucleotide_changer.xml Tue May 08 13:26:01 2018 -0400 +++ b/fasta_nucleotide_changer.xml Wed Aug 22 11:04:20 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="cshl_fasta_nucleotides_changer" version="1.0.1" name="RNA/DNA" > +<tool id="cshl_fasta_nucleotides_changer" version="1.0.2" name="RNA/DNA" > <description>converter</description> <macros> <import>macros.xml</import> @@ -9,6 +9,7 @@ -$mode -v -o '$output' +@GZIP@ ]]></command> <inputs> <expand macro="fasta_input" />
--- a/macros.xml Tue May 08 13:26:01 2018 -0400 +++ b/macros.xml Wed Aug 22 11:04:20 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>