Mercurial > repos > petr-novak > dante

comparison dante.xml @ 6:6dcecbe81d78 draft

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author petr-novak
date Wed, 03 Jul 2019 07:32:07 -0400
parents 18d6c1c66798
children d0431a839606
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5:a38efa4937d7 6:6dcecbe81d78
10 <regex match="error" source="stderr" level="fatal" description="Unknown error" /> 10 <regex match="error" source="stderr" level="fatal" description="Unknown error" />
11 </stdio> 11 </stdio>
12 <command> 12 <command>
13 python3 ${__tool_directory__}/dante.py --query ${input} --domain_gff ${DomGff} 13 python3 ${__tool_directory__}/dante.py --query ${input} --domain_gff ${DomGff}
14 --protein_database \${REXDB}/${db_type}_pdb 14 --protein_database \${REXDB}/${db_type}_pdb
15 --classification ${__tool_directory__ }/tool-data/protein_domains/${db_type}_class 15 --classification \${REXDB}/${db_type}_class
16 </command> 16 </command>
17 <inputs> 17 <inputs>
18 <param format="fasta" type="data" name="input" label="Choose your input sequence" help="Input DNA must be in proper fasta format, multi-fasta containing more sequences is allowed" /> 18 <param format="fasta" type="data" name="input" label="Choose your input sequence" help="Input DNA must be in proper fasta format, multi-fasta containing more sequences is allowed" />
19 19
20 <param name="db_type" type="select" label="Select taxon and protein domain database version (REXdb)" help=""> 20 <param name="db_type" type="select" label="Select taxon and protein domain database version (REXdb)" help="">