HISTORY.rst
LICENSE
MANIFEST.in
Makefile
README.rst
dev-requirements.txt
requirements.txt
setup.cfg
setup.py
galaxy/__init__.py
galaxy/app.py
galaxy/config_watchers.py
galaxy/main.py
galaxy/project_galaxy_app.py
galaxy/queue_worker.py
galaxy/queues.py
galaxy/version.py
galaxy/actions/__init__.py
galaxy/actions/admin.py
galaxy/actions/library.py
galaxy/config/__init__.py
galaxy/config/config_manage.py
galaxy/config/schema.py
galaxy/config/script.py
galaxy/config/sample/auth_conf.xml.sample
galaxy/config/sample/build_sites.yml.sample
galaxy/config/sample/container_resolvers_conf.xml.sample
galaxy/config/sample/containers_conf.yml.sample
galaxy/config/sample/data_manager_conf.xml.sample
galaxy/config/sample/datatypes_conf.xml.sample
galaxy/config/sample/dependency_resolvers_conf.xml.sample
galaxy/config/sample/disposable_email_blacklist.conf.sample
galaxy/config/sample/environment_modules_mapping.yml.sample
galaxy/config/sample/error_report.yml.sample
galaxy/config/sample/galaxy.yml.sample
galaxy/config/sample/job_conf.xml.sample_advanced
galaxy/config/sample/job_conf.xml.sample_basic
galaxy/config/sample/job_metrics_conf.xml.sample
galaxy/config/sample/job_resource_params_conf.xml.sample
galaxy/config/sample/lmod_modules_mapping.yml.sample
galaxy/config/sample/local_conda_mapping.yml.sample
galaxy/config/sample/object_store_conf.xml.sample
galaxy/config/sample/oidc_backends_config.xml.sample
galaxy/config/sample/oidc_config.xml.sample
galaxy/config/sample/reports.yml.sample
galaxy/config/sample/tool_conf.xml.main
galaxy/config/sample/tool_conf.xml.sample
galaxy/config/sample/tool_data_table_conf.xml.sample
galaxy/config/sample/tool_destinations.yml.sample
galaxy/config/sample/tool_shed.yml.sample
galaxy/config/sample/tool_sheds_conf.xml.sample
galaxy/config/sample/user_preferences_extra_conf.yml.sample
galaxy/config/sample/workflow_resource_mapper_conf.yml.sample
galaxy/config/sample/workflow_resource_params_conf.xml.sample
galaxy/config/sample/workflow_schedulers_conf.xml.sample
galaxy/forms/__init__.py
galaxy/forms/forms.py
galaxy/jobs/__init__.py
galaxy/jobs/command_factory.py
galaxy/jobs/dynamic_tool_destination.py
galaxy/jobs/handler.py
galaxy/jobs/manager.py
galaxy/jobs/mapper.py
galaxy/jobs/rule_helper.py
galaxy/jobs/stock_rules.py
galaxy/jobs/transfer_manager.py
galaxy/jobs/actions/__init__.py
galaxy/jobs/actions/post.py
galaxy/jobs/rules/__init__.py
galaxy/jobs/runners/__init__.py
galaxy/jobs/runners/chronos.py
galaxy/jobs/runners/cli.py
galaxy/jobs/runners/condor.py
galaxy/jobs/runners/drmaa.py
galaxy/jobs/runners/godocker.py
galaxy/jobs/runners/kubernetes.py
galaxy/jobs/runners/local.py
galaxy/jobs/runners/pbs.py
galaxy/jobs/runners/pulsar.py
galaxy/jobs/runners/slurm.py
galaxy/jobs/runners/state_handler_factory.py
galaxy/jobs/runners/tasks.py
galaxy/jobs/runners/univa.py
galaxy/jobs/runners/state_handlers/__init__.py
galaxy/jobs/runners/state_handlers/_safe_eval.py
galaxy/jobs/runners/state_handlers/resubmit.py
galaxy/jobs/runners/util/__init__.py
galaxy/jobs/runners/util/env.py
galaxy/jobs/runners/util/external.py
galaxy/jobs/runners/util/kill.py
galaxy/jobs/runners/util/process_groups.py
galaxy/jobs/runners/util/pykube_util.py
galaxy/jobs/runners/util/sudo.py
galaxy/jobs/runners/util/cli/__init__.py
galaxy/jobs/runners/util/cli/factory.py
galaxy/jobs/runners/util/cli/job/__init__.py
galaxy/jobs/runners/util/cli/job/lsf.py
galaxy/jobs/runners/util/cli/job/slurm.py
galaxy/jobs/runners/util/cli/job/slurm_torque.py
galaxy/jobs/runners/util/cli/job/torque.py
galaxy/jobs/runners/util/cli/shell/__init__.py
galaxy/jobs/runners/util/cli/shell/local.py
galaxy/jobs/runners/util/cli/shell/rsh.py
galaxy/jobs/runners/util/condor/__init__.py
galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh
galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh
galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT.sh
galaxy/jobs/runners/util/job_script/__init__.py
galaxy/jobs/splitters/__init__.py
galaxy/jobs/splitters/basic.py
galaxy/jobs/splitters/multi.py
galaxy/managers/__init__.py
galaxy/managers/annotatable.py
galaxy/managers/api_keys.py
galaxy/managers/base.py
galaxy/managers/citations.py
galaxy/managers/cloud.py
galaxy/managers/cloudauthzs.py
galaxy/managers/collections.py
galaxy/managers/collections_util.py
galaxy/managers/configuration.py
galaxy/managers/containers.py
galaxy/managers/context.py
galaxy/managers/datasets.py
galaxy/managers/deletable.py
galaxy/managers/executables.py
galaxy/managers/folders.py
galaxy/managers/hdas.py
galaxy/managers/hdcas.py
galaxy/managers/histories.py
galaxy/managers/history_contents.py
galaxy/managers/interactivetool.py
galaxy/managers/jobs.py
galaxy/managers/lddas.py
galaxy/managers/libraries.py
galaxy/managers/library_datasets.py
galaxy/managers/markdown_export_base.css
galaxy/managers/markdown_parse.py
galaxy/managers/markdown_util.py
galaxy/managers/pages.py
galaxy/managers/ratable.py
galaxy/managers/rbac_secured.py
galaxy/managers/roles.py
galaxy/managers/secured.py
galaxy/managers/sharable.py
galaxy/managers/taggable.py
galaxy/managers/tools.py
galaxy/managers/users.py
galaxy/managers/visualizations.py
galaxy/managers/workflows.py
galaxy/openid/__init__.py
galaxy/openid/openid_conf.xml
galaxy/openid/openid_manager.py
galaxy/openid/providers.py
galaxy/tool_shed/__init__.py
galaxy/tool_shed/repository_type.py
galaxy/tool_shed/tool_shed_registry.py
galaxy/tool_shed/galaxy_install/__init__.py
galaxy/tool_shed/galaxy_install/install_manager.py
galaxy/tool_shed/galaxy_install/installed_repository_manager.py
galaxy/tool_shed/galaxy_install/tool_migration_manager.py
galaxy/tool_shed/galaxy_install/update_repository_manager.py
galaxy/tool_shed/galaxy_install/datatypes/__init__.py
galaxy/tool_shed/galaxy_install/datatypes/custom_datatype_manager.py
galaxy/tool_shed/galaxy_install/metadata/__init__.py
galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py
galaxy/tool_shed/galaxy_install/migrate/__init__.py
galaxy/tool_shed/galaxy_install/migrate/check.py
galaxy/tool_shed/galaxy_install/migrate/common.py
galaxy/tool_shed/galaxy_install/migrate/migrate.cfg
galaxy/tool_shed/galaxy_install/migrate/scripts/0002_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0003_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0004_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0005_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0006_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0007_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0008_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0009_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0010_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0011_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/0012_tools.xml
galaxy/tool_shed/galaxy_install/migrate/scripts/migrate_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0001_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0002_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0003_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0004_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0005_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0006_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0007_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0008_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0009_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0010_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0011_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/0012_tools.py
galaxy/tool_shed/galaxy_install/migrate/versions/__init__.py
galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py
galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py
galaxy/tool_shed/galaxy_install/tool_dependencies/__init__.py
galaxy/tool_shed/galaxy_install/tool_dependencies/env_manager.py
galaxy/tool_shed/galaxy_install/tool_dependencies/recipe/__init__.py
galaxy/tool_shed/galaxy_install/tool_dependencies/recipe/asynchronous_reader.py
galaxy/tool_shed/galaxy_install/tool_dependencies/recipe/env_file_builder.py
galaxy/tool_shed/galaxy_install/tool_dependencies/recipe/install_environment.py
galaxy/tool_shed/galaxy_install/tool_dependencies/recipe/recipe_manager.py
galaxy/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py
galaxy/tool_shed/galaxy_install/tool_dependencies/recipe/tag_handler.py
galaxy/tool_shed/galaxy_install/tools/__init__.py
galaxy/tool_shed/galaxy_install/tools/data_manager.py
galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py
galaxy/tool_shed/metadata/__init__.py
galaxy/tool_shed/metadata/metadata_generator.py
galaxy/tool_shed/tools/__init__.py
galaxy/tool_shed/tools/data_table_manager.py
galaxy/tool_shed/tools/tool_validator.py
galaxy/tool_shed/util/__init__.py
galaxy/tool_shed/util/basic_util.py
galaxy/tool_shed/util/container_util.py
galaxy/tool_shed/util/hg_util.py
galaxy/tool_shed/util/metadata_util.py
galaxy/tool_shed/util/repository_util.py
galaxy/tool_shed/util/shed_util_common.py
galaxy/tool_shed/util/tool_dependency_util.py
galaxy/tool_shed/util/tool_util.py
galaxy/tools/__init__.py
galaxy/tools/apply_rules.xml
galaxy/tools/build_list.xml
galaxy/tools/cache.py
galaxy/tools/data_fetch.py
galaxy/tools/data_fetch.xml
galaxy/tools/errors.py
galaxy/tools/evaluation.py
galaxy/tools/exception_handling.py
galaxy/tools/execute.py
galaxy/tools/extract_dataset.xml
galaxy/tools/filter_empty_collection.xml
galaxy/tools/filter_failed_collection.xml
galaxy/tools/filter_from_file.xml
galaxy/tools/flatten_collection.xml
galaxy/tools/merge_collection.xml
galaxy/tools/recommendations.py
galaxy/tools/relabel_from_file.xml
galaxy/tools/repositories.py
galaxy/tools/sort_collection_list.xml
galaxy/tools/special_tools.py
galaxy/tools/tag_collection_from_file.xml
galaxy/tools/test.py
galaxy/tools/unzip_collection.xml
galaxy/tools/wrappers.py
galaxy/tools/zip_collection.xml
galaxy/tools/actions/__init__.py
galaxy/tools/actions/data_manager.py
galaxy/tools/actions/data_source.py
galaxy/tools/actions/history_imp_exp.py
galaxy/tools/actions/metadata.py
galaxy/tools/actions/model_operations.py
galaxy/tools/actions/upload.py
galaxy/tools/actions/upload_common.py
galaxy/tools/bundled/cloud/send.py
galaxy/tools/bundled/cloud/send.xml
galaxy/tools/bundled/data_source/access_libraries.xml
galaxy/tools/bundled/data_source/biomart.xml
galaxy/tools/bundled/data_source/biomart_test.xml
galaxy/tools/bundled/data_source/cbi_rice_mart.xml
galaxy/tools/bundled/data_source/data_source.py
galaxy/tools/bundled/data_source/ebi_sra.xml
galaxy/tools/bundled/data_source/eupathdb.xml
galaxy/tools/bundled/data_source/fetch.py
galaxy/tools/bundled/data_source/fly_modencode.xml
galaxy/tools/bundled/data_source/flymine.xml
galaxy/tools/bundled/data_source/flymine_test.xml
galaxy/tools/bundled/data_source/genbank.py
galaxy/tools/bundled/data_source/genbank.xml
galaxy/tools/bundled/data_source/gramene_mart.xml
galaxy/tools/bundled/data_source/hapmapmart.xml
galaxy/tools/bundled/data_source/hbvar.xml
galaxy/tools/bundled/data_source/hbvar_filter.py
galaxy/tools/bundled/data_source/import.py
galaxy/tools/bundled/data_source/import.xml
galaxy/tools/bundled/data_source/intermine.xml
galaxy/tools/bundled/data_source/metabolicmine.xml
galaxy/tools/bundled/data_source/microbial_import.py
galaxy/tools/bundled/data_source/microbial_import.xml
galaxy/tools/bundled/data_source/microbial_import_code.py
galaxy/tools/bundled/data_source/modmine.xml
galaxy/tools/bundled/data_source/mousemine.xml
galaxy/tools/bundled/data_source/ratmine.xml
galaxy/tools/bundled/data_source/sra.xml
galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml
galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml
galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml
galaxy/tools/bundled/data_source/upload.py
galaxy/tools/bundled/data_source/upload.xml
galaxy/tools/bundled/data_source/worm_modencode.xml
galaxy/tools/bundled/data_source/wormbase.xml
galaxy/tools/bundled/data_source/wormbase_test.xml
galaxy/tools/bundled/data_source/yeastmine.xml
galaxy/tools/bundled/data_source/zebrafishmine.xml
galaxy/tools/bundled/evolution/add_scores.py
galaxy/tools/bundled/evolution/add_scores.xml
galaxy/tools/bundled/evolution/codingSnps.pl
galaxy/tools/bundled/evolution/codingSnps.xml
galaxy/tools/bundled/evolution/codingSnps_filter.py
galaxy/tools/bundled/expression_tools/parse_values_from_file.xml
galaxy/tools/bundled/extract/extract_genomic_dna.py
galaxy/tools/bundled/extract/extract_genomic_dna.xml
galaxy/tools/bundled/extract/liftOver_wrapper.py
galaxy/tools/bundled/extract/liftOver_wrapper.xml
galaxy/tools/bundled/filters/CreateInterval.pl
galaxy/tools/bundled/filters/CreateInterval.xml
galaxy/tools/bundled/filters/axt_to_concat_fasta.py
galaxy/tools/bundled/filters/axt_to_concat_fasta.xml
galaxy/tools/bundled/filters/axt_to_fasta.py
galaxy/tools/bundled/filters/axt_to_fasta.xml
galaxy/tools/bundled/filters/axt_to_lav.py
galaxy/tools/bundled/filters/axt_to_lav.xml
galaxy/tools/bundled/filters/axt_to_lav_code.py
galaxy/tools/bundled/filters/bed2gff.xml
galaxy/tools/bundled/filters/bed_to_bigbed.xml
galaxy/tools/bundled/filters/bed_to_gff_converter.py
galaxy/tools/bundled/filters/catWrapper.py
galaxy/tools/bundled/filters/catWrapper.xml
galaxy/tools/bundled/filters/changeCase.pl
galaxy/tools/bundled/filters/changeCase.xml
galaxy/tools/bundled/filters/commWrapper.pl
galaxy/tools/bundled/filters/commWrapper.xml
galaxy/tools/bundled/filters/compare.xml
galaxy/tools/bundled/filters/condense_characters.pl
galaxy/tools/bundled/filters/condense_characters.xml
galaxy/tools/bundled/filters/convert_characters.py
galaxy/tools/bundled/filters/convert_characters.xml
galaxy/tools/bundled/filters/cutWrapper.pl
galaxy/tools/bundled/filters/cutWrapper.xml
galaxy/tools/bundled/filters/fileGrep.xml
galaxy/tools/bundled/filters/fixedValueColumn.pl
galaxy/tools/bundled/filters/fixedValueColumn.xml
galaxy/tools/bundled/filters/gff2bed.xml
galaxy/tools/bundled/filters/gff_to_bed_converter.py
galaxy/tools/bundled/filters/grep.py
galaxy/tools/bundled/filters/grep.xml
galaxy/tools/bundled/filters/gtf2bedgraph.xml
galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py
galaxy/tools/bundled/filters/headWrapper.pl
galaxy/tools/bundled/filters/headWrapper.xml
galaxy/tools/bundled/filters/join.py
galaxy/tools/bundled/filters/joinWrapper.py
galaxy/tools/bundled/filters/joiner.xml
galaxy/tools/bundled/filters/joiner2.xml
galaxy/tools/bundled/filters/lav_to_bed.py
galaxy/tools/bundled/filters/lav_to_bed.xml
galaxy/tools/bundled/filters/lav_to_bed_code.py
galaxy/tools/bundled/filters/mergeCols.py
galaxy/tools/bundled/filters/mergeCols.xml
galaxy/tools/bundled/filters/pasteWrapper.pl
galaxy/tools/bundled/filters/pasteWrapper.xml
galaxy/tools/bundled/filters/random_lines_two_pass.py
galaxy/tools/bundled/filters/randomlines.py
galaxy/tools/bundled/filters/randomlines.xml
galaxy/tools/bundled/filters/remove_beginning.pl
galaxy/tools/bundled/filters/remove_beginning.xml
galaxy/tools/bundled/filters/secure_hash_message_digest.py
galaxy/tools/bundled/filters/secure_hash_message_digest.xml
galaxy/tools/bundled/filters/sff_extract.py
galaxy/tools/bundled/filters/sff_extractor.xml
galaxy/tools/bundled/filters/sorter.py
galaxy/tools/bundled/filters/sorter.xml
galaxy/tools/bundled/filters/tailWrapper.pl
galaxy/tools/bundled/filters/tailWrapper.xml
galaxy/tools/bundled/filters/trimmer.py
galaxy/tools/bundled/filters/trimmer.xml
galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py
galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml
galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py
galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml
galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py
galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml
galaxy/tools/bundled/filters/uniq.py
galaxy/tools/bundled/filters/uniq.xml
galaxy/tools/bundled/filters/wc_gnu.xml
galaxy/tools/bundled/filters/wig_to_bigwig.xml
galaxy/tools/bundled/filters/wiggle_to_simple.py
galaxy/tools/bundled/filters/wiggle_to_simple.xml
galaxy/tools/bundled/filters/gff/extract_GFF_Features.py
galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml
galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py
galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml
galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py
galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml
galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py
galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml
galaxy/tools/bundled/interactive/default_notebook.ipynb
galaxy/tools/bundled/interactive/interactivetool_askomics.xml
galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml
galaxy/tools/bundled/interactive/interactivetool_cellxgene.xml
galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml
galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml
galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml
galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml
galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml
galaxy/tools/bundled/interactive/interactivetool_higlass.xml
galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml
galaxy/tools/bundled/interactive/interactivetool_neo4j.xml
galaxy/tools/bundled/interactive/interactivetool_openrefine.xml
galaxy/tools/bundled/interactive/interactivetool_panoply.xml
galaxy/tools/bundled/interactive/interactivetool_paraview.xml
galaxy/tools/bundled/interactive/interactivetool_phinch.xml
galaxy/tools/bundled/interactive/interactivetool_pyiron.xml
galaxy/tools/bundled/interactive/interactivetool_radiant.xml
galaxy/tools/bundled/interactive/interactivetool_rstudio.xml
galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml
galaxy/tools/bundled/interactive/interactivetool_wallace.xml
galaxy/tools/bundled/interactive/interactivetool_wilson.xml
galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml
galaxy/tools/bundled/maf/interval2maf.py
galaxy/tools/bundled/maf/interval2maf.xml
galaxy/tools/bundled/maf/interval2maf_pairwise.xml
galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py
galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml
galaxy/tools/bundled/maf/macros.xml
galaxy/tools/bundled/maf/maf_by_block_number.py
galaxy/tools/bundled/maf/maf_by_block_number.xml
galaxy/tools/bundled/maf/maf_filter.py
galaxy/tools/bundled/maf/maf_filter.xml
galaxy/tools/bundled/maf/maf_limit_size.py
galaxy/tools/bundled/maf/maf_limit_size.xml
galaxy/tools/bundled/maf/maf_limit_to_species.py
galaxy/tools/bundled/maf/maf_limit_to_species.xml
galaxy/tools/bundled/maf/maf_reverse_complement.py
galaxy/tools/bundled/maf/maf_reverse_complement.xml
galaxy/tools/bundled/maf/maf_split_by_species.py
galaxy/tools/bundled/maf/maf_split_by_species.xml
galaxy/tools/bundled/maf/maf_stats.py
galaxy/tools/bundled/maf/maf_stats.xml
galaxy/tools/bundled/maf/maf_thread_for_species.py
galaxy/tools/bundled/maf/maf_thread_for_species.xml
galaxy/tools/bundled/maf/maf_to_bed.py
galaxy/tools/bundled/maf/maf_to_bed.xml
galaxy/tools/bundled/maf/maf_to_bed_code.py
galaxy/tools/bundled/maf/maf_to_fasta.xml
galaxy/tools/bundled/maf/maf_to_fasta_concat.py
galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py
galaxy/tools/bundled/maf/maf_to_interval.py
galaxy/tools/bundled/maf/maf_to_interval.xml
galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py
galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml
galaxy/tools/bundled/meme/fimo.xml
galaxy/tools/bundled/meme/fimo_wrapper.py
galaxy/tools/bundled/meme/meme.xml
galaxy/tools/bundled/metag_tools/blat_wrapper.py
galaxy/tools/bundled/metag_tools/blat_wrapper.xml
galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py
galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml
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