| Previous changeset 0:294de027cb5d (2019-01-11) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/goenrichment commit 2983eca17b9a004685024b6f4554a5190d63c7fd |
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modified:
goslimmer.xml |
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added:
macros.xml |
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| diff -r 294de027cb5d -r de3e053bd6a5 goslimmer.xml --- a/goslimmer.xml Fri Jan 11 06:18:00 2019 -0500 +++ b/goslimmer.xml Wed Jul 24 05:37:26 2019 -0400 |
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| @@ -1,5 +1,8 @@ <tool id="goslimmer" name="GOSlimmer" version="1.0.1"> <description>converts a set of annotation from GO to a given GOSlim version</description> + <macros> + <import>macros.xml</import> + </macros> <requirements> <requirement type="package" version="1.0">goslimmer</requirement> </requirements> @@ -10,8 +13,8 @@ --output '${output}' </command> <inputs> - <param name="go" type="data" format="obo,owl" label="Full Gene Ontology File" help="Full Gene Ontology file in OBO or OWL format (see http://geneontology.org/page/download-ontology)"/> - <param name="slim" type="data" format="obo,owl" label="GOSlim File" help="Slim Gene Ontology file in OBO or OWL format (see http://geneontology.org/page/download-ontology)"/> + <param name="go" type="data" format="obo,owl" label="Full Gene Ontology File" help="Full Gene Ontology file in OBO or OWL format (see @ONTOLOGY_URL@)"/> + <param name="slim" type="data" format="obo,owl" label="GOSlim File" help="Slim Gene Ontology file in OBO or OWL format (see @ONTOLOGY_URL@)"/> <param name="annotation" type="data" format="tabular,txt" label="Gene Product Annotation File" help="Tabular file containing annotations from gene products to GO terms (in GAF or BLAST2GO format, or a simple two-column table)"/> </inputs> <outputs> @@ -32,9 +35,9 @@ It requires: -- A full Gene Ontology file in either OBO or OWL format (see http://geneontology.org/page/download-ontology). +- A full Gene Ontology file in either OBO or OWL format (see @ONTOLOGY_URL@). - A slim Gene Ontology file in either OBO or OWL format (see http://geneontology.org/page/go-subset-guide). -- A tabular annotation file in GAF (http://geneontology.org/page/download-annotations) format, BLAST2GO format, or a simple two-column table (e.g. from BioMart) with gene product ids in the first column and GO terms in the second one. +- A tabular annotation file in GAF (@ANNOTATION_URL@) format, BLAST2GO format, or a simple two-column table (e.g. from BioMart) with gene product ids in the first column and GO terms in the second one. ----- |
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| diff -r 294de027cb5d -r de3e053bd6a5 macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Wed Jul 24 05:37:26 2019 -0400 |
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| @@ -0,0 +1,4 @@ +<tokens> + <token name="@ANNOTATION_URL@">http://geneontology.org/docs/download-go-annotations</token> + <token name="@ONTOLOGY_URL@">http://geneontology.org/docs/download-ontology</token> +</tokens> |