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comparison metaphlan.xml @ 14:740fd2d16a28 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan/ commit 081635c7e118b90aae323f8e41530a1d827e4860
author iuc
date Fri, 20 Sep 2024 20:14:38 +0000
parents ef65b083bd0c
children
comparison
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13:ef65b083bd0c 14:740fd2d16a28
1 <tool id="metaphlan" name="MetaPhlAn" version="@TOOL_VERSION@+galaxy2" profile="@PROFILE@"> 1 <tool id="metaphlan" name="MetaPhlAn" version="@TOOL_VERSION@+galaxy3" profile="@PROFILE@">
2 <description>to profile the composition of microbial communities</description> 2 <description>to profile the composition of microbial communities</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 <xml name="tax_lev"> 5 <xml name="tax_lev">
6 <conditional name="tax_lev"> 6 <conditional name="tax_lev">
75 zcat '$inputs.in.raw_in.in_f' > 'in_f' && 75 zcat '$inputs.in.raw_in.in_f' > 'in_f' &&
76 zcat '$inputs.in.raw_in.in_r' > 'in_r' && 76 zcat '$inputs.in.raw_in.in_r' > 'in_r' &&
77 #else if $full_ext.endswith("bz2") 77 #else if $full_ext.endswith("bz2")
78 bzcat '$inputs.in.raw_in.in_f' > 'in_f' && 78 bzcat '$inputs.in.raw_in.in_f' > 'in_f' &&
79 bzcat '$inputs.in.raw_in.in_r' > 'in_r' && 79 bzcat '$inputs.in.raw_in.in_r' > 'in_r' &&
80 #set file_path="-1 in_f -2 in_r" 80 #else:
81 ln -s '$inputs.in.raw_in.in_f' 'in_f' && 81 ln -s '$inputs.in.raw_in.in_f' 'in_f' &&
82 ln -s '$inputs.in.raw_in.in_r' 'in_r' && 82 ln -s '$inputs.in.raw_in.in_r' 'in_r' &&
83 #end if 83 #end if
84 ## paired data has by default no special treatment, i.e. it is given as comma separated list 84 ## paired data has by default no special treatment, i.e. it is given as comma separated list
85 ## except iff paired subsampling where -1 and -2 must be used 85 ## except iff paired subsampling where -1 and -2 must be used