| Previous changeset 9:fd69c607b43f (2024-02-10) Next changeset 11:b6897977d13e (2024-07-29) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan/ commit b8bc892a6d5eeae0b78c33058b532fcd52208179 |
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modified:
macros.xml metaphlan.xml |
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| diff -r fd69c607b43f -r 289b3807e80c macros.xml --- a/macros.xml Sat Feb 10 23:56:11 2024 +0000 +++ b/macros.xml Tue Apr 30 09:09:32 2024 +0000 |
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| @@ -1,7 +1,7 @@ <?xml version="1.0"?> <macros> <token name="@TOOL_VERSION@">4.0.6</token> - <token name="@VERSION_SUFFIX@">2</token> + <token name="@VERSION_SUFFIX@">3</token> <token name="@PROFILE@">22.05</token> <!-- Metaphlan DB compatible with this version of Metaphlan v4 introduced single genome level bins (SGB) and the index syntax differs from previous versions --> |
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| diff -r fd69c607b43f -r 289b3807e80c metaphlan.xml --- a/metaphlan.xml Sat Feb 10 23:56:11 2024 +0000 +++ b/metaphlan.xml Tue Apr 30 09:09:32 2024 +0000 |
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| @@ -180,7 +180,7 @@ $out.use_group_representative $out.legacy_output $out.CAMI_format_output - $out.unknown_estimation + $out.unclassified_estimation -o '$output_file' --bowtie2out 'bowtie2out' -s '$sam_output_file' @@ -347,7 +347,7 @@ label="Old MetaPhlAn2 two columns output?"/> <param argument="--CAMI_format_output" type='boolean' checked="false" truevalue='--CAMI_format_output' falsevalue='' label="Report the profiling using the CAMI output format?"/> - <param argument="--unknown_estimation" type='boolean' checked="false" truevalue='--unknown_estimation' falsevalue='' + <param argument="--unclassified_estimation" type='boolean' checked="false" truevalue='--unclassified_estimation' falsevalue='' label="Scale relative abundances to the number of reads mapping to known clades in order to estimate unknowness?"/> <param name="krona_output" type='boolean' checked="false" truevalue='true' falsevalue='false' label="Output for Krona?"/> </section> @@ -412,7 +412,7 @@ <param name="use_group_representative" value="false"/> <param name="legacy_output" value="false"/> <param name="CAMI_format_output" value="false"/> - <param name="unknown_estimation" value="false"/> + <param name="unclassified_estimation" value="false"/> <param name="krona_output" value="true"/> </section> <output name="output_file" ftype="tabular"> @@ -559,7 +559,7 @@ <param name="use_group_representative" value="false"/> <param name="legacy_output" value="false"/> <param name="CAMI_format_output" value="false"/> - <param name="unknown_estimation" value="false"/> + <param name="unclassified_estimation" value="false"/> <param name="krona_output" value="true"/> </section> <output name="output_file" ftype="tabular" file="SRS014464-Anterior_nares-abundances.tabular" compare="sim_size"> @@ -705,7 +705,7 @@ <param name="use_group_representative" value="false"/> <param name="legacy_output" value="false"/> <param name="CAMI_format_output" value="false"/> - <param name="unknown_estimation" value="false"/> + <param name="unclassified_estimation" value="false"/> <param name="krona_output" value="false"/> </section> <output name="output_file" ftype="tabular" file="SRS014464-Anterior_nares-abundances.tabular" compare="sim_size"> @@ -776,7 +776,7 @@ <param name="use_group_representative" value="false"/> <param name="legacy_output" value="false"/> <param name="CAMI_format_output" value="false"/> - <param name="unknown_estimation" value="false"/> + <param name="unclassified_estimation" value="false"/> <param name="krona_output" value="false"/> </section> <output name="output_file" ftype="tabular" file="SRS014464-Anterior_nares-abundances.tabular" compare="sim_size"> @@ -838,7 +838,7 @@ <param name="use_group_representative" value="false"/> <param name="legacy_output" value="false"/> <param name="CAMI_format_output" value="false"/> - <param name="unknown_estimation" value="false"/> + <param name="unclassified_estimation" value="false"/> <param name="krona_output" value="false"/> </section> <output name="output_file" ftype="tabular" file="SRS014464-Anterior_nares-abundances.tabular" compare="sim_size"> @@ -897,7 +897,7 @@ <param name="use_group_representative" value="false"/> <param name="legacy_output" value="false"/> <param name="CAMI_format_output" value="false"/> - <param name="unknown_estimation" value="false"/> + <param name="unclassified_estimation" value="false"/> <param name="krona_output" value="false"/> </section> <output name="output_file" ftype="tabular" file="SRS014464-Anterior_nares-abundances.tabular" compare="sim_size"> @@ -957,7 +957,7 @@ <param name="use_group_representative" value="false"/> <param name="legacy_output" value="true"/> <param name="CAMI_format_output" value="false"/> - <param name="unknown_estimation" value="false"/> + <param name="unclassified_estimation" value="false"/> <param name="krona_output" value="true"/> </section> <output name="output_file" ftype="tabular" file="SRS014464-Anterior_nares-legacy-abundances.tabular" compare="sim_size"> |