Mercurial > repos > iuc > metaphlan
changeset 15:eca2e2e20436 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan/ commit e567b31e44ef8525e6667b37480b6f1b599224b9
| author | iuc |
|---|---|
| date | Fri, 21 Feb 2025 21:30:21 +0000 |
| parents | 740fd2d16a28 |
| children | |
| files | metaphlan.xml |
| diffstat | 1 files changed, 2 insertions(+), 10 deletions(-) [+] |
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--- a/metaphlan.xml Fri Sep 20 20:14:38 2024 +0000 +++ b/metaphlan.xml Fri Feb 21 21:30:21 2025 +0000 @@ -1,4 +1,4 @@ -<tool id="metaphlan" name="MetaPhlAn" version="@TOOL_VERSION@+galaxy3" profile="@PROFILE@"> +<tool id="metaphlan" name="MetaPhlAn" version="@TOOL_VERSION@+galaxy4" profile="@PROFILE@"> <description>to profile the composition of microbial communities</description> <macros> <import>macros.xml</import> @@ -183,6 +183,7 @@ #if 'ignore_archaea' in $analysis.organism_profiling --ignore_archaea #end if + --stat $analysis.stat --stat_q $analysis.stat_q --perc_nonzero $analysis.perc_nonzero #if $analysis.ignore_markers @@ -1139,14 +1140,6 @@ <param name="cached_db" value="test-db-20210409"/> </conditional> </section> - <conditional name="in"> - <param name="selector" value="bowtie2out"/> - <param name="in" value="SRS014464-Anterior_nares-bowtie2out.tabular"/> - </conditional> - <section name="mapping"> - <param name="bt2_ps" value="sensite"/> - <param name="min_mapq_val" value="5"/> - </section> <section name="analysis"> <conditional name="analysis_type"> <param name="t" value="rel_ab"/> @@ -1354,7 +1347,6 @@ </section> <conditional name="viral_analysis"> <param name="profile_vsc" value="--profile_vsc"/> - <param name="vsc_out" value="true"/> </conditional> <conditional name="subsample"> <param name="selector" value="single"/>