Mercurial > repos > iuc > chewbbaca_prepexternalschema
changeset 2:0b73dd40d83f draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/chewbbaca commit 501c1cb91f4b91ec93e6df6e555323bbe8e2b703
| author | iuc |
|---|---|
| date | Fri, 07 Jun 2024 14:27:17 +0000 |
| parents | 7035fc8b4ae3 |
| children | d8c1dcd7418c |
| files | PrepExternalSchema.xml macros.xml test-data/PrepExternal_test.zip |
| diffstat | 3 files changed, 4 insertions(+), 5 deletions(-) [+] |
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--- a/PrepExternalSchema.xml Sat May 11 22:49:51 2024 +0000 +++ b/PrepExternalSchema.xml Fri Jun 07 14:27:17 2024 +0000 @@ -5,7 +5,6 @@ </macros> <expand macro="requirements" /> <command detect_errors="exit_code"><![CDATA[ - mkdir 'schema' && unzip '$input_schema' -d 'schema' && chewBBACA.py PrepExternalSchema #if $training_file: @@ -16,11 +15,11 @@ #end if @COMMON_INPUT@ $size_filter - -g 'schema/schema_seed/' -o 'schema_seed' && + -g 'schema/' -o 'schema_seed' && zip -r PExternalschema_seed.zip 'schema_seed' ]]></command> <inputs> - <param format="zip" name="input_schema" type="data" label="Schema Files in zip format" help="The schema directory contains the loci FASTA files and a folder named 'short' that contains the FASTA files with the loci representative alleles."/> + <param format="zip" name="input_schema" type="data" label="Schema Files in zip format" help="The schema directory contains the loci FASTA files and the schema must contain one FASTA file per gene/locus."/> <section name="advanced" title="Advanced options"> <param argument="--training-file" type="data" format="binary" label="Prodigal training file" optional="true" /> <param argument="--genes-list" type="data" format="txt" label="Gene list" optional="true" /> @@ -34,7 +33,7 @@ </outputs> <tests> <test expect_num_outputs="1"> - <param name="input_schema" value="GCA_000007265.1_ASM726v1_schema_seed.zip"/> + <param name="input_schema" value="PrepExternal_test.zip"/> <param name="size_filter" value="false"/> <output name="schema"> <assert_contents>
--- a/macros.xml Sat May 11 22:49:51 2024 +0000 +++ b/macros.xml Fri Jun 07 14:27:17 2024 +0000 @@ -1,6 +1,6 @@ <macros> <token name="@CHEW_VERSION@">3.3.3</token> - <token name="@VERSION_SUFFIX@">1</token> + <token name="@VERSION_SUFFIX@">2</token> <token name="@PROFILE@">22.05</token> <xml name="requirements"> <requirements>