Mercurial > repos > iuc > extract_metaphlan_database

comparison extract_metaphlan_database.xml @ 5:b81c6e597cf1 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan/ commit 08ec37116aab4268fdb93f175b60e50a0bbfafb2
author iuc
date Mon, 27 Feb 2023 06:59:04 +0000
parents 3230167ebbc0
children
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4:6f88caeefd28 5:b81c6e597cf1
18 --pkl '${cached_db.fields.path}/${cached_db.fields.dbkey}.pkl' 18 --pkl '${cached_db.fields.path}/${cached_db.fields.dbkey}.pkl'
19 --json '$metadata' 19 --json '$metadata'
20 ]]></command> 20 ]]></command>
21 <inputs> 21 <inputs>
22 <param name="cached_db" label="Cached database with clade-specific marker genes" type="select"> 22 <param name="cached_db" label="Cached database with clade-specific marker genes" type="select">
23 <options from_data_table="metaphlan_database"> 23 <options from_data_table="@IDX_DATA_TABLE@">
24 <validator message="No MetaPhlAn database is available" type="no_options" /> 24 <filter type="static_value" column="4" value="@IDX_VERSION@"/>
25 <validator message="No MetaPhlAn database is available" type="no_options"/>
25 </options> 26 </options>
26 </param> 27 </param>
27 </inputs> 28 </inputs>
28 <outputs> 29 <outputs>
29 <data name="sequences" format="fasta" label="${tool.name} on ${on_string}: Marker seqeunces from MetaPhlAn database" /> 30 <data name="sequences" format="fasta" label="${tool.name} on ${on_string}: Marker seqeunces from MetaPhlAn database"/>
30 <data name="metadata" format="json" label="${tool.name} on ${on_string}: Marker metadata from MetaPhlAn database" /> 31 <data name="metadata" format="json" label="${tool.name} on ${on_string}: Marker metadata from MetaPhlAn database"/>
31 </outputs> 32 </outputs>
32 <tests> 33 <tests>
33 <test expect_num_outputs="2"> 34 <test expect_num_outputs="2">
34 <param name="cached_db" value="test-db-20210409"/> 35 <param name="cached_db" value="test-db-20210409"/>
35 <output name="sequences" file="test-db.fasta" ftype="fasta" compare="sim_size"> 36 <output name="sequences" file="test-db.fasta" ftype="fasta" compare="sim_size">