LICENSE
README.md
setup.cfg
setup.py
beauris/__init__.py
beauris/annotation.py
beauris/assembly.py
beauris/beauris.py
beauris/blastbank.py
beauris/config.py
beauris/data_locker.py
beauris/expression_data.py
beauris/extra_file.py
beauris/job_runner.py
beauris/managed_entity.py
beauris/managed_file.py
beauris/mr_bot.py
beauris/organism.py
beauris/proteome.py
beauris/task.py
beauris/track.py
beauris/transcriptome.py
beauris/util.py
beauris.egg-info/PKG-INFO
beauris.egg-info/SOURCES.txt
beauris.egg-info/dependency_links.txt
beauris.egg-info/requires.txt
beauris.egg-info/top_level.txt
beauris/deployers/__init__.py
beauris/deployers/authelia.py
beauris/deployers/basedeployer.py
beauris/deployers/blast.py
beauris/deployers/deployers.py
beauris/deployers/dockercompose.py
beauris/deployers/download.py
beauris/deployers/elasticsearch.py
beauris/deployers/genoboo.py
beauris/deployers/genomehomepage.py
beauris/deployers/jbrowse.py
beauris/es_parsers/__init__.py
beauris/es_parsers/diamond_parser.py
beauris/es_parsers/eggnog_parser.py
beauris/es_parsers/gff_parser.py
beauris/es_parsers/interpro_parser.py
beauris/tasks/__init__.py
beauris/tasks/annotation.py
beauris/tasks/assembly.py
beauris/tasks/organism.py
beauris/tasks/proteome.py
beauris/tasks/tasks.py
beauris/tasks/track.py
beauris/tasks/transcriptome.py
beauris/validation/__init__.py
beauris/validation/ogs/__init__.py
beauris/validation/ogs/fasta_check.py
beauris/validation/ogs/ogs_check.py
beauris/validation/template/__init__.py
beauris/validation/template/ext.py
beauris/validation/template/schema.yaml
beauris/workflows/__init__.py
beauris/workflows/minimal.bam
beauris/workflows/minimal.wg
beauris/workflows/ansible/ansible_data/project/playbook_deploy.yml
beauris/workflows/ansible/ansible_data/project/playbook_shutdown.yml
beauris/workflows/ansible/ansible_data/project/playbook_update.yml
beauris/workflows/ansible/docker_files/postgres-blast-entrypoint.sh
beauris/workflows/ansible/templates/default.conf.j2
beauris/workflows/ansible/templates/docker-compose.yml.j2
beauris/workflows/ansible/templates/genoboo.json.j2
beauris/workflows/ansible/templates/web/index.html.j2
beauris/workflows/ansible/templates/web/search.html.j2
beauris/workflows/drmaa/__init__.py
beauris/workflows/drmaa/add_fa_description.py
beauris/workflows/drmaa/add_gff_description.py
beauris/workflows/drmaa/bam_to_wig.py
beauris/workflows/drmaa/bam_to_wig.sh
beauris/workflows/drmaa/blastdb.py
beauris/workflows/drmaa/blastdb.sh
beauris/workflows/drmaa/fatotwobit.py
beauris/workflows/drmaa/fatotwobit.sh
beauris/workflows/drmaa/func_annot_bipaa.py
beauris/workflows/drmaa/func_annot_bipaa.sh
beauris/workflows/drmaa/func_annot_orson.py
beauris/workflows/drmaa/func_annot_orson.sh
beauris/workflows/drmaa/gffread.py
beauris/workflows/drmaa/gffread.sh
beauris/workflows/drmaa/gffread_fa_rename.py
beauris/workflows/drmaa/index_bai.py
beauris/workflows/drmaa/index_bai.sh
beauris/workflows/galaxy/__init__.py
beauris/workflows/galaxy/genoboo.py
beauris/workflows/galaxy/jbrowse.py
beauris/workflows/local/__init__.py
beauris/workflows/local/apollo_deploy.py
beauris/workflows/local/apollo_perms.py
beauris/workflows/local/assembly_check.py
beauris/workflows/local/build_elasticsearch.py
beauris/workflows/local/check_yml.py
beauris/workflows/local/deploy_all.py
beauris/workflows/local/deploy_authelia.py
beauris/workflows/local/deploy_blast.py
beauris/workflows/local/deploy_download.py
beauris/workflows/local/deploy_elasticsearch.py
beauris/workflows/local/deploy_genoboo.py
beauris/workflows/local/deploy_jbrowse.py
beauris/workflows/local/lock.py
beauris/workflows/local/ogs_check.py
beauris/workflows/local/prepare_workdir.py
beauris/workflows/local/run_apollo.py
beauris/workflows/local/run_apollo_perms.py
beauris/workflows/local/run_build_elasticsearch.py
beauris/workflows/local/track_check.py
beauris/workflows/local/track_check_bam.py
beauris/workflows/local/track_check_gff.py
beauris/workflows/local/track_check_vcf.py
scripts/beauris_check_env
scripts/beauris_clean_workdir
scripts/beauris_commit_lockfiles
scripts/beauris_diff_lockfiles
scripts/beauris_fetch_locked_artifacts
scripts/beauris_run_on_touched_orgs