Mercurial > repos > iuc > tbvcfreport
diff tbvcfreport.xml @ 3:42818629ec4c draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/tbvcfreport commit f54e7cfd572498517dde7fe6afab47a20e3fcb17
| author | iuc |
|---|---|
| date | Fri, 31 May 2024 20:06:49 +0000 |
| parents | 4934c0ac6197 |
| children | 9793bc5d741b |
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--- a/tbvcfreport.xml Thu Mar 17 07:33:00 2022 +0000 +++ b/tbvcfreport.xml Fri May 31 20:06:49 2024 +0000 @@ -1,8 +1,8 @@ <?xml version="1.0" ?> -<tool id="tbvcfreport" name="TB Variant Report" version="@TOOL_VERSION@+galaxy0"> +<tool id="tbvcfreport" name="TB Variant Report" version="@TOOL_VERSION@+galaxy0" profile="23.0" license="AGPL-3.0-or-later"> <description>- generate HTML report from SnpEff annotated M.tb VCF(s)</description> <macros> - <token name="@TOOL_VERSION@">0.1.10</token> + <token name="@TOOL_VERSION@">1.0.0</token> </macros> <requirements> <requirement type="package" version="@TOOL_VERSION@">tbvcfreport</requirement> @@ -62,7 +62,7 @@ <inputs> <param name="input_vcf" type="data" format="vcf" label="Input SnpEff annotated M.tuberculosis VCF(s)" /> <param name="tbprofiler_json" type="data" format="json" optional="true" label="TBProfiler Drug Resistance Report (Optional)" help="--tbprofiler-report" /> - <param name="filter_udi" argument="--filter-udi" type="boolean" truevalue="--filter-udi" falsevalue="--no-filter-udi" checked="true" label="Filter UPSTREAM, DOWNSTREAM and INTERGENIC variants" /> + <param argument="--filter-udi" type="boolean" truevalue="--filter-udi" falsevalue="--no-filter-udi" checked="true" label="Filter UPSTREAM, DOWNSTREAM and INTERGENIC variants" /> <section name="adv" title="Advanced options" expanded="false"> <param name="database_uri" type="text" optional="true" value="neodb.sanbi.ac.za" label="Specify COMBAT-TB-NeoDB URI" help="For people with their own deployment of COMBAT-TB-NeoDB" /> </section> @@ -102,7 +102,7 @@ <![CDATA[ **tbvcfreport - @TOOL_VERSION@** - **tbvcfreport** takes SnpEff annotated M.tuberculosis VCF file(s) and generates an HTML-based report with data from Combat-TB-NeoDB (https://neodb.sanbi.ac.za) + **tbvcfreport** takes SnpEff annotated M.tuberculosis VCF file(s) and generates an HTML-based report with data from Combat-TB-NeoDB and links to Combat-TB-eXplorer (https://explorer.sanbi.ac.za/). **tbvcfreport** will generate an HTML-based Drug Resistance report if provided with a TBProfiler json report.