Mercurial > repos > petr-novak > repeatrxplorer

comparison repex_tarean.xml @ 7:07bacdf2d9f6 draft

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Uploaded
author petr-novak
date Mon, 06 Jan 2020 08:59:56 -0500
parents ee202a87eecc
children c884df88593f
comparison
equal deleted inserted replaced
6:ee6fbf1bf166 7:07bacdf2d9f6
5 <regex match="warning" source="stderr" level="warning" description="Unknown warning" /> 5 <regex match="warning" source="stderr" level="warning" description="Unknown warning" />
6 <exit_code range="1:" level="fatal" description="Error" /> 6 <exit_code range="1:" level="fatal" description="Error" />
7 </stdio> 7 </stdio>
8 <description>Identification of genomic tandem repeats from NGS data</description> 8 <description>Identification of genomic tandem repeats from NGS data</description>
9 <requirements> 9 <requirements>
10 <requirement type="package" version="0.9.1">pyrserve</requirement> 10 <requirement type="package">imagemagick</requirement>
11 <requirement type="package" version="3.7.4">python</requirement>
12 <requirement type="package">last</requirement>
13 <requirement type="package">mafft</requirement> 11 <requirement type="package">mafft</requirement>
14 <requirement type="package">imagemagick</requirement>
15 <requirement type="package">blast</requirement> 12 <requirement type="package">blast</requirement>
16 <requirement type="package">diamond</requirement> 13 <requirement type="package">diamond</requirement>
17 <requirement type="package">blast-legacy</requirement> 14 <requirement type="package">blast-legacy</requirement>
18 <requirement type="package">r-igraph</requirement> 15 <requirement type="package">r-igraph</requirement>
19 <requirement type="package">r-data.tree</requirement> 16 <requirement type="package">r-data.tree</requirement>
31 <requirement type="package">r-rsqlite</requirement> 28 <requirement type="package">r-rsqlite</requirement>
32 <requirement type="package">r-rserve</requirement> 29 <requirement type="package">r-rserve</requirement>
33 <requirement type="package">bioconductor-biostrings</requirement> 30 <requirement type="package">bioconductor-biostrings</requirement>
34 <requirement type="package" version="1.0">repex_tarean</requirement> 31 <requirement type="package" version="1.0">repex_tarean</requirement>
35 <requirement type="set_environment">REPEX</requirement> 32 <requirement type="set_environment">REPEX</requirement>
33 <requirement type="package" version="0.9.1">pyrserve</requirement>
36 </requirements> 34 </requirements>
37 <command detect_errors="exit_code"> 35 <command detect_errors="exit_code">
38 export PYTHONHASHSEED=0; 36 export PYTHONHASHSEED=0;
39 \${REPEX}/seqclust --paired --sample ${sample} --output_dir=tarean_output --logfile=${log} --cleanup --tarean_mode 37 \${REPEX}/seqclust --paired --sample ${sample} --output_dir=tarean_output --logfile=${log} --cleanup --tarean_mode
40 #if $advanced_options.advanced: 38 #if $advanced_options.advanced: