Mercurial > repos > greg > phylogenomics_analysis

comparison phylogenomics_analysis.xml @ 20:d34a42c6affb draft

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author greg
date Sat, 07 Jan 2017 09:48:59 -0500
parents 953e13d2940b
children 86a469a50fc4
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19:953e13d2940b 20:d34a42c6affb
52 #end if 52 #end if
53 53
54 mkdir -p $dest_fasta_dir && 54 mkdir -p $dest_fasta_dir &&
55 55
56 PhylogenomicsAnalysis 56 PhylogenomicsAnalysis
57 --num_threads \${GALAXY_SLOTS:-4} 57 --num_threads "\${GALAXY_SLOTS:-4}"
58 --orthogroup_faa "$orthogroup_faa.extra_files_path" 58 --orthogroup_faa "$orthogroup_faa.extra_files_path"
59 --scaffold_dir "${GALAXY_DATA_INDEX_DIR}/plant_tribes/scaffolds" 59 --scaffold_dir "${GALAXY_DATA_INDEX_DIR}/plant_tribes/scaffolds"
60 --scaffold "$scaffold" 60 --scaffold "$scaffold"
61 --method $method 61 --method $method
62 62