| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/devteam/data_manager_build_kraken_database/kraken_database_builder/1.1.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/devteam/data_manager_build_kraken_database/kraken_database_builder/1.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/data_manager_build_kraken_database/kraken_database_builder/1.0.2 |
| toolshed.g2.bx.psu.edu/repos/devteam/data_manager_build_kraken_database/kraken_database_builder/1.0.1 |
| toolshed.g2.bx.psu.edu/repos/devteam/data_manager_build_kraken_database/kraken_database_builder/1.0.0 |
| kraken_database_builder |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| kraken | 1.1.1 | package |
| Additional information about this tool |
#set $library_list = str($libraries).split(',')
mkdir kraken-database && cd kraken-database &&
kraken-build --threads \${GALAXY_SLOTS:-1} --download-taxonomy --db '${database_name}' &&
#for $library in $library_list:
#if str($library) != 'None':
kraken-build --threads \${GALAXY_SLOTS:-1} --download-library $library --db '${database_name}' &&
#end if
#end for
#for $fasta in $input_fasta:
#if str($fasta) != 'None':
kraken-build --threads \${GALAXY_SLOTS:-1} --db '${database_name}' --add-to-library '$fasta' &&
#end if
#end for
kraken-build --threads \${GALAXY_SLOTS:-1} --db '${database_name}' --build --kmer-len ${kmer_len} --minimizer-len ${minimizer_len} &&
cd .. &&
python '$__tool_directory__/make_json.py' --db '${database_name}' --out '${out_file}'
| Functional tests |