Mercurial > repos > iuc > nonpareil
changeset 1:45210df786b9 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nonpareil commit 46f7675fa6e17042965d1a8e5e368ed1c482f08c
author | iuc |
---|---|
date | Wed, 27 Jul 2022 09:26:36 +0000 |
parents | 280386b252a5 |
children | cef64c36c89e |
files | nonpareil.xml |
diffstat | 1 files changed, 9 insertions(+), 6 deletions(-) [+] |
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--- a/nonpareil.xml Sun Nov 05 11:40:13 2017 -0500 +++ b/nonpareil.xml Wed Jul 27 09:26:36 2022 +0000 @@ -1,16 +1,18 @@ -<tool id="nonpareil" name="Nonpareil" version="@WRAPPER_VERSION@.0"> +<tool id="nonpareil" name="Nonpareil" version="@TOOL_VERSION@.1" profile="21.01"> <description>to estimate average coverage and generate Nonpareil curves</description> <macros> - <token name="@WRAPPER_VERSION@">3.1.1</token> + <token name="@TOOL_VERSION@">3.1.1</token> </macros> <requirements> - <requirement type="package" version="@WRAPPER_VERSION@">nonpareil</requirement> + <requirement type="package" version="@TOOL_VERSION@">nonpareil</requirement> </requirements> <version_command>nonpareil -V</version_command> <command detect_errors="exit_code"> <![CDATA[ +ln -s '$input' input && + nonpareil - -s '$input' + -s input -T '$algo' #if $input.is_of_type("fasta") -f 'fasta' @@ -44,6 +46,7 @@ -x '$mating.proba' #end if -r '$seed' + && echo $log_test ]]></command> <inputs> <param name="input" type="data" format="fastq,fasta" label="Input sequences" help="FastQ format is recommended for kmer algorithm and Fasta for the alignment" argument="-s"/> @@ -88,7 +91,7 @@ <data format="tabular" name="mating_vector_output" label="${tool.name} on ${on_string}: Mates distribution"/> </outputs> <tests> - <test> + <test expect_num_outputs="4"> <param name="input" value="test.fasta"/> <param name="algo" value="alignment"/> <param name="subsampling" value="0.7"/> @@ -119,7 +122,7 @@ <output name="summary" value="test1-summary" compare="sim_size" delta="0"/> <output name="mating_vector_output" value="test1-mating_vector_output" compare="sim_size" delta="0"/> </test> - <test> + <test expect_num_outputs="3"> <param name="input" value="test.fastq"/> <param name="algo" value="kmer"/> <param name="subsampling" value="0.7"/>