| Previous changeset 12:b4195377038d (2020-01-02) Next changeset 14:ac3abb440e3f (2020-01-02) |
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modified:
repex_full_clustering.xml |
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| diff -r b4195377038d -r 09c1934e0c45 repex_full_clustering.xml --- a/repex_full_clustering.xml Thu Jan 02 14:12:13 2020 +0000 +++ b/repex_full_clustering.xml Thu Jan 02 14:13:10 2020 +0000 |
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| @@ -10,7 +10,7 @@ <requirements> <requirement type="package" version="3.7">python</requirement> <requirement type="package" version="0.9.1" >pyrserve</requirement> - <requirement type="package">last</requirement> + <requirement type="package" version="1021" >last</requirement> <requirement type="package">mafft</requirement> <requirement type="package">imagemagick</requirement> <requirement type="package">blast</requirement> @@ -32,11 +32,11 @@ <requirement type="package">r-rsqlite</requirement> <requirement type="package">r-rserve</requirement> <requirement type="package">bioconductor-biostrings</requirement> + <requirement type="set_environment">REPEX</requirement> </requirements> <command > - make -C ${__tool_directory__}; export PYTHONHASHSEED=0; - ${__tool_directory__}/seqclust --sample ${sample} --output_dir=tarean_output --logfile=${log} --cleanup $paired --taxon $taxon + \${REPEX}/seqclust --sample ${sample} --output_dir=tarean_output --logfile=${log} --cleanup $paired --taxon $taxon #if $advanced_options.advanced: --mincl $advanced_options.size_threshold $advanced_options.keep_names $advanced_options.automatic_filtering -D $advanced_options.blastx.options_blastx |