| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/data_manager_build_bracken_database/bracken_build_database/2.8+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/data_manager_build_bracken_database/bracken_build_database/2.5+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/data_manager_build_bracken_database/bracken_build_database/2.5+galaxy0 |
| bracken_build_database |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bracken | 2.8 | package |
| Additional information about this tool |
#import os
#set db_dir = os.path.basename($kraken_db.fields.path)
mkdir '$db_dir' &&
ln -s '${kraken_db.fields.path}/*' '$db_dir/' &&
python '$__tool_directory__/bracken_build_database.py'
'${out_file}'
--threads \${GALAXY_SLOTS:-1}
#if $check_prebuilt.prebuilt == "no"
--kraken-db '$db_dir'
--kmer-len ${check_prebuilt.kmer_len}
#end if
#if $check_prebuilt.prebuilt == "yes"
--kraken-db '${kraken_db.fields.path}'
--prebuilt
#end if
--read-len ${check_prebuilt.read_len}
--database-name '${database_name}'
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
kraken_db: test_entry database_name: database |
name: value |
value |