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modified:
metaphlan2_hutlab/metaphlan2.xml |
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| diff -r 0e82a9af69ab -r c7cd6467b570 metaphlan2_hutlab/metaphlan2.xml --- a/metaphlan2_hutlab/metaphlan2.xml Mon Apr 25 00:35:32 2016 -0400 +++ b/metaphlan2_hutlab/metaphlan2.xml Mon Apr 25 00:47:00 2016 -0400 |
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| @@ -3,8 +3,8 @@ <description>metagenomic profiler V2</description> <command interpreter="python">metaphlan2.py $input - --mpa_pkl $REPOSITORY_INSTALL_DIR/db_v20/mpa_v20_m200.pkl - --bowtie2db $REPOSITORY_INSTALL_DIR/db_v20/mpa_v20_m200 + --mpa_pkl $METAPHLAN_PATH/db_v20/mpa_v20_m200.pkl + --bowtie2db $METAPHLAN_PATH/db_v20/mpa_v20_m200 --input_type fastq --no_map --bt2_ps $PresetsForBowtie2 @@ -168,7 +168,9 @@ </outputs> - + <requirements> + <requirement type="set_environment">METAPHLAN2_PATH</requirement> + </requirements> <help> **MetaPhlAn** is a computational tool for profiling the composition of microbial communities *(Bacteria, Archaea, Eukaryotes and Viruses)* from metagenomic shotgun sequencing data with species level resolution. |