| Previous changeset 18:039c45c01b47 (2019-09-24) Next changeset 20:31449f1183d8 (2019-09-24) |
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Commit message:
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modified:
dante_gff_to_dna.xml |
| b |
| diff -r 039c45c01b47 -r b34483adf8f0 dante_gff_to_dna.xml --- a/dante_gff_to_dna.xml Tue Sep 24 07:27:56 2019 -0400 +++ b/dante_gff_to_dna.xml Tue Sep 24 08:00:54 2019 -0400 |
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| @@ -2,6 +2,7 @@ <description> Tool to extract nucleotide sequences of protein domains found by DANTE </description> <requirements> <requirement type="package">biopython</requirement> + <requirement type="set_environment">REXDB</requirement> </requirements> <command> TEMP_DIR_LINEAGES=\$(mktemp -d) && @@ -12,7 +13,7 @@ #else: --extended False #end if - --classification ${__tool_data_path__ }/protein_domains/${db_type}_class + --classification \${REXDB}/${db_type}_class && cat \$TEMP_DIR_LINEAGES/domains_counts.txt \$TEMP_DIR_LINEAGES/*fasta > $out_fasta && |