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metaphlan v4.0.5 -> v4.0.6 #5218

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merged 5 commits into from
Mar 28, 2023
Merged

metaphlan v4.0.5 -> v4.0.6 #5218

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db076e3
metaphlan v4.0.6
tuncK Mar 28, 2023
27c54c6
Update tools/metaphlan/macros.xml
bernt-matthias Mar 28, 2023
efebfdd
remove metaphlan DM from skip list
bernt-matthias Mar 28, 2023
0f1d8f8
Try to enable tests
bernt-matthias Mar 28, 2023
cbd2919
Revert "Try to enable tests"
bernt-matthias Mar 28, 2023
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1 change: 0 additions & 1 deletion .tt_skip
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Original file line number Diff line number Diff line change
@@ -1,4 +1,3 @@
data_managers/data_manager_metaphlan_database_downloader/
data_managers/data_manager_rsync_g2/
tools/coverage_report/
tools/ebi_tools/
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4 changes: 3 additions & 1 deletion ...ta_manager_metaphlan_database_downloader/data_manager/data_manager_metaphlan_download.xml
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Expand Up @@ -4,7 +4,7 @@
<requirement type="package" version="@TOOL_VERSION@">metaphlan</requirement>
</requirements>
<macros>
<token name="@TOOL_VERSION@">4.0.5</token>
<token name="@TOOL_VERSION@">4.0.6</token>
<token name="@VERSION_SUFFIX@">0</token>
</macros>
<stdio>
Expand All @@ -26,6 +26,7 @@ python '$__tool_directory__/data_manager_metaphlan_download.py'
<data name="out_file" format="data_manager_json" label="${tool.name}"/>
</outputs>
<tests>
<!--
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<test expect_num_outputs="1">
<param name="index" value="mpa_vOct22_CHOCOPhlAnSGB_202212"/>
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can we download a smaller dataset?

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None available: http://cmprod1.cibio.unitn.it/biobakery4/metaphlan_databases/bowtie2_indexes/

Unless we go the VW-way and make it download via "if toy DB, wget ... else call python"

<output name="out_file">
Expand All @@ -35,6 +36,7 @@ python '$__tool_directory__/data_manager_metaphlan_download.py'
</assert_contents>
</output>
</test>
-->
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</tests>
<help><![CDATA[
This tool downloads and builds the MetaPhlAn databases.
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