Mercurial > repos > devteam > fastq_to_fasta
diff macros.xml @ 5:b8e3c0a52f33 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastq_to_fasta commit 415a5c5de30530910f3039e5fc66aa15103c6f20
| author | iuc |
|---|---|
| date | Tue, 27 Jun 2023 17:37:16 +0000 |
| parents | 5dbca5fbdc45 |
| children | 0a759fe3fd43 |
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--- a/macros.xml Thu Jan 30 18:26:18 2020 +0000 +++ b/macros.xml Tue Jun 27 17:37:16 2023 +0000 @@ -11,22 +11,13 @@ </token> <token name="@FQQUAL@"> <![CDATA[ - #if $input.is_of_type('fastqsanger', 'fastqsanger.gz', 'fastqsanger.bz2'): + #if 'fastqsanger' in $input.ext: -Q 33 - #elif $input.is_of_type('fastqsolexa', 'fastqsolexa.gz', 'fastqsolexa.bz2', 'fastqillumina', 'fastqillumina.gz', 'fastqillumina.bz2'): + #elif 'fastqsolexa' in $input.ext or 'fastqillumina' in $input.ext: -Q 64 #end if ]]> </token> - <token name="@GZIP@"> - <![CDATA[ - #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'): - | gzip -c - #elif $input.is_of_type('fastqsanger.bz2', 'fastqsolexa.bz2', 'fastqillumina.bz2'): - | bzip2 -c - #end if - ]]> - </token> <xml name="requirements"> <requirements> <requirement type="package" version="@VERSION@">fastx_toolkit</requirement> @@ -51,13 +42,7 @@ </citation> </citations> </xml> - <xml name="fasta_input"> - <param name="input" type="data" format="@FASTAS@" label="Input FASTA file" /> - </xml> <xml name="fastq_input"> <param name="input" type="data" format="@FASTQS@" label="Input FASTQ file" /> </xml> - <xml name="fastx_input"> - <param name="input" type="data" format="@FASTAS@,@FASTQS@" label="Input file in FASTA or FASTQ format" /> - </xml> </macros>