Mercurial > repos > gga > tripal_analysis_load_go
diff analysis_load_go.xml @ 0:81f5e6980725 draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
author | gga |
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date | Mon, 11 Sep 2017 05:51:44 -0400 |
parents | |
children | 976020e5c924 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/analysis_load_go.xml Mon Sep 11 05:51:44 2017 -0400 @@ -0,0 +1,78 @@ +<?xml version="1.0"?> +<tool id="analysis_load_go" profile="16.04" name="Load Blast2GO results" version="@WRAPPER_VERSION@.0"> + <description>into Tripal</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> + <expand macro="stdio"/> + <command><![CDATA[ + tmp_dir=`mktemp -d -p "@DATA_DIR@"` && chmod a+rx "\${tmp_dir}" + + && + + cp '${input}' "\${tmp_dir}/blast2go.gaf" + + && + + @AUTH@ + + tripaille analysis load_go + + @ANALYSIS@ + + @MATCHING@ + + "\${tmp_dir}/blast2go.gaf" + + && + + echo "Data loaded" > $results + ]]></command> + <inputs> + <param name="input" + type="data" + format="txt" + label="Blast2Go results (GAF file)" /> + + <expand macro="matching"/> + <expand macro="analysis" /> + </inputs> + <outputs> + <data format="txt" name="results" label="Load Blast2GO results into Tripal" /> + </outputs> + <tests> + <test expect_failure="true" expect_exit_code="1"> + <param name="input" value="blast2go.gaf" /> + <param name="query_type" value="polypeptide" /> + <param name="query_uniquename" value="true" /> + <section name="analysis"> + <param name="name" value="Some analysis" /> + <param name="program" value="interproscan" /> + <param name="program_version" value="58.2" /> + <param name="algorithm" value="blast2go" /> + <param name="source" value="NCBI" /> + <param name="source_version" value="1.0" /> + <param name="source_uri" value="http://ncbi.com/somewhere" /> + <param name="description" value="My cool new test analysis" /> + <param name="date" value="2016-12-12" /> + </section> + + <expand macro="test_result" /> + </test> + </tests> + <help><![CDATA[ + @HELP_OVERVIEW@ + + **Load Blast2Go results** + + With this tool, you can load Blast2go results into the Tripal/Chado database. + + A corresponding analysis will be created, keep in mind that you cannot add multiple analysis with the same program, program version and source. + + The `tripal_analysis_go <http://github.com/tripal/tripal_analysis_go>`_ module must be installed and configured on the Tripal instance. + + @HELP@ + ]]></help> + <expand macro="citation"/> +</tool>