galaxy

chained_dyndest_rules

fix chained dynamic destinations integration test

2021-02-25 13:49:19 +01:00

cloudauthz

Minor test cleanup

2020-09-18 12:28:33 +02:00

delay_rules

Integration test for job recovery (before and after handler has picked it up).

2018-08-21 15:17:12 -04:00

mock_biotools_content/data

Parse edam operation and topic data from bio.tools if available.

2021-09-07 14:29:38 -04:00

objectstore

Clear the cache before fetching a file from irods object store, to verify file is fetched from the object store, not from the cache

2022-01-13 15:19:10 -05:00

objectstore_selection_rules

Allow configuring object stores on a per-job-destination basis.

2018-08-06 11:29:08 -04:00

panel_views_1

Allow static panel views without explicit "items" - just start with integrated panel and apply filters.

2021-09-15 10:50:57 -04:00

resubmission_rules

Allow YAML configuration of job_conf.xml.

2019-05-07 08:23:30 -04:00

webdav

Pluggable URI handling across upload components.

2020-07-14 10:09:50 -04:00

__init__.py

Fix things found by @mvdbeek

2016-04-05 14:59:09 -04:00

chained_dyndest_job_conf.xml

Cleanup integration test configuration code.

2019-05-02 08:45:11 -04:00

conftest.py

Shut down driver instance after collection

2021-10-19 13:27:15 +02:00

delay_job_conf.yml

Allow specifying useful classes of tools for mapping in job conf.

2021-07-14 13:46:56 -04:00

dockerized_job_conf.yml

Support setting per-job-environment container resolvers using the container_resolvers key in the environment config.

2021-08-17 10:28:51 -04:00

embedded_pulsar_docker_job_conf.yml

Use remote_metadata: true when using extended metadata

2021-10-26 17:59:05 +02:00

embedded_pulsar_job_conf.xml

Use remote_metadata: true when using extended metadata

2021-10-26 17:59:05 +02:00

embedded_pulsar_metadata_extended_job_conf.yml

Allow specifying useful classes of tools for mapping in job conf.

2021-07-14 13:46:56 -04:00

embedded_pulsar_metadata_job_conf.yml

Allow specifying useful classes of tools for mapping in job conf.

2021-07-14 13:46:56 -04:00

embedded_pulsar_singularity_job_conf.yml

Allow specifying useful classes of tools for mapping in job conf.

2021-07-14 13:46:56 -04:00

file_sources_conf_vault.yml

Add new secret type to user preferences that is not sent to client

2021-12-01 10:48:36 +05:30

file_sources_conf.yml

Pluggable URI handling across upload components.

2020-07-14 10:09:50 -04:00

handler_template_job_conf.xml

Integration tests for handler assignment methods

2019-01-04 16:46:29 -05:00

io_injection_job_conf.yml

Allow YAML configuration of job_conf.xml.

2019-05-07 08:23:30 -04:00

refgenie.yml

add more tests

2021-03-25 14:01:17 +01:00

resubmission_default_job_conf.yml

Allow specifying useful classes of tools for mapping in job conf.

2021-07-14 13:46:56 -04:00

resubmission_dynamic_job_conf.xml

Allow specifying useful classes of tools for mapping in job conf.

2021-07-14 13:46:56 -04:00

resubmission_job_conf.yml

Allow specifying useful classes of tools for mapping in job conf.

2021-07-14 13:46:56 -04:00

resubmission_job_resource_parameters_conf.xml

Allow YAML configuration of job_conf.xml.

2019-05-07 08:23:30 -04:00

resubmission_pulsar_job_conf.xml

Allow specifying useful classes of tools for mapping in job conf.

2021-07-14 13:46:56 -04:00

resubmission_runners.py

mypy for test/

2020-12-25 17:38:51 -05:00

resubmission_small_memory_job_conf.xml

Allow YAML configuration of job_conf.xml.

2019-05-07 08:23:30 -04:00

resubmission_small_memory_resubmission_to_large_job_conf.xml

Tool-centric annotation of out of memory errors.

2017-12-22 09:08:18 -05:00

resubmission_tool_detected_always_error_job_conf.xml

Fix resubmission on tool error detection.

2018-11-23 14:32:04 +01:00

resubmission_tool_detected_resubmit_job_conf.xml

Fix resubmission on tool error detection.

2018-11-23 14:32:04 +01:00

sets_tmp_dir_expression_job_conf.xml

Fix another integration test

2021-02-25 13:49:58 +01:00

sets_tmp_dir_to_true_job_conf.xml

Cleanup integration test configuration code.

2019-05-02 08:45:11 -04:00

simple_job_conf.xml

Fix failing integration test.

2019-05-03 08:38:33 -04:00

singularity_job_conf.yml

Support setting per-job-environment container resolvers using the container_resolvers key in the environment config.

2021-08-17 10:28:51 -04:00

test_celery_tasks.py

Allow passing Pydantic models as arguments to Celery tasks.

2021-10-13 22:32:36 -04:00

test_chained_dynamic_destinations.py

Move galaxy testing utilities into more sane package structure.

2019-11-12 09:03:06 -05:00

test_change_datatype_with_store_by_id.py

Move test_assign_column_pja to own class

2020-08-11 14:53:53 +02:00

test_cli_runners.py

Move ssh_util from galaxy_test.base to galaxy.security

2021-11-09 14:37:48 +01:00

test_config_defaults.py

Add vault conditional dependencies

2021-11-18 01:12:23 +05:30

test_config_options_users.py

Move galaxy testing utilities into more sane package structure.

2019-11-12 09:03:06 -05:00

test_config_schema.py

Move schema loading/validating code out of config

2020-03-02 15:55:29 -05:00

test_configuration_decode.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

test_containerized_jobs.py

Check that jobs don't inherit env variables from Galaxy

2021-12-06 17:43:22 +00:00

test_data_manager_refgenie.py

Split run_tool_raw() out of BaseDatasetPopulator.run_tool()

2021-11-27 03:14:52 +00:00

test_data_manager.py

Make tool_evaluation_strategy configurable on app and destination level

2021-11-30 12:27:14 +01:00

test_datatype_upload.py

Clear the cache before fetching a file from irods object store, to verify file is fetched from the object store, not from the cache

2022-01-13 15:19:10 -05:00

test_default_permissions.py

Test cases and fix for config option new_user_dataset_access_role_default_private.

2020-12-01 09:05:57 -05:00

test_dynamic_edam_loading.py

Parse edam operation and topic data from bio.tools if available.

2021-09-07 14:29:38 -04:00

test_edam_toolbox.py

Implement tool panel views - config, toolbox, search, client.

2021-08-11 10:14:43 -04:00

test_extended_metadata_mapping.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

test_extended_metadata_outputs_to_working_directory.py

Run extended_metadata integration tests with outputs_to_working_directory as well

2019-11-14 12:20:48 +01:00

test_extended_metadata.py

Make tool_evaluation_strategy configurable on app and destination level

2021-11-30 12:27:14 +01:00

test_fail_job_tool_unavailable.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

test_fluent_metrics.py

Replace API test with integration test

2021-03-10 12:54:41 +01:00

test_flush_per_n_datasets.py

Add test for paired discovery and fix paired discovery

2021-03-23 10:29:34 +01:00

test_galaxy_interactor.py

Merge API GalaxyInteractorTestCase into integration test

2021-09-23 19:05:30 +02:00

test_genomes.py

Add tests for sequences and indexes endpoints

2021-02-10 15:55:21 -05:00

test_handler_assignment_methods.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

test_history_import_export.py

Disable remote evaluation for JEHA history export jobs

2021-11-30 10:58:40 +01:00

test_interactivetools_api.py

Split run_tool_raw() out of BaseDatasetPopulator.run_tool()

2021-11-27 03:14:52 +00:00

test_job_environments.py

Update pulsar-galaxy-lib to 0.14.13 and enable assert for EmbeddedPulsarDefaultJobEnvironmentIntegrationTestCase

2021-12-06 17:45:58 +00:00

test_job_outputs_to_working_directory.py

Update test class docstring

2021-01-07 17:53:29 +01:00

test_job_recovery.py

Split run_tool_raw() out of BaseDatasetPopulator.run_tool()

2021-11-27 03:14:52 +00:00

test_job_resubmission.py

fix mutable arguments in tests

2021-01-02 18:48:31 +00:00

test_kubernetes_runner.py

Split run_tool_raw() out of BaseDatasetPopulator.run_tool()

2021-11-27 03:14:52 +00:00

test_kubernetes_staging.py

Run kubernetes staging test against uvicorn

2021-04-13 10:13:42 +02:00

test_local_job_cancellation.py

Split run_tool_raw() out of BaseDatasetPopulator.run_tool()

2021-11-27 03:14:52 +00:00

test_max_discovered_files.py

Implement max_discovered_files

2022-01-18 11:49:00 +01:00

test_mules_as_job_handlers.py

Move galaxy testing utilities into more sane package structure.

2019-11-12 09:03:06 -05:00

test_page_revision_json_encoding.py

Fix pages integration test

2021-02-11 16:01:34 +01:00

test_panel_views.py

Allow static panel views without explicit "items" - just start with integrated panel and apply filters.

2021-09-15 10:50:57 -04:00

test_pulsar_embedded_containers.py

try something else

2021-03-31 13:42:17 +02:00

test_pulsar_embedded_copy_working.py

test a tool with from_working_dir and pulsar

2019-12-13 22:58:32 +01:00

test_pulsar_embedded_extended_metadata.py

Fix from work dir glob with extended metadata

2021-10-31 13:06:41 +01:00

test_pulsar_embedded_mq.py

Use remote_metadata in pulsar_embedded_mq test

2021-10-26 17:59:07 +02:00

test_pulsar_embedded_remote_metadata.py

Separate tests for "remote" and "remote + extended" metadata.

2021-04-14 13:21:15 -04:00

test_pulsar_embedded.py

Fix Pulsar's ability to read tool provided metadata when path is overridden.

2021-07-21 15:21:26 -04:00

test_quota.py

Adapt quotas tests to use JSON payload

2021-09-08 18:34:37 +02:00

test_remote_files_histories.py

Allow history export to galaxy.files plugins.

2020-12-26 08:36:48 -05:00

test_remote_files_posix.py

Type fixes: integration_setup.py

2021-10-11 16:32:29 -04:00

test_remote_files.py

Make tool_evaluation_strategy configurable on app and destination level

2021-11-30 12:27:14 +01:00

test_repository_operations.py

Merge branch 'release_21.01' into release_21.05

2021-07-30 16:34:18 +02:00

test_resolvers.py

Remove unnecessary list creations

2021-11-29 16:33:05 +00:00

test_save_job_id_on_datasets.py

Make sure test driver shuts down on failure

2021-10-26 17:59:04 +02:00

test_scripts.py

New pyupgrade fixes

2021-10-24 12:10:34 +01:00

test_shed_tool_tests.py

Fix installation of tools with biotools id

2021-11-15 10:14:56 +01:00

test_tool_data_delete.py

New pyupgrade fixes

2021-10-24 12:10:34 +01:00

test_upload_configuration_options.py

improve type hints for test/integration/test_upload_configuration_options.py.

2021-11-12 19:00:33 +01:00

test_vault_extra_prefs.py

Change vault api test case to integration test case and add missing conditional requirements

2021-12-20 18:23:00 +05:30

test_vault_file_source.py

Add file upload test to vault

2021-12-20 18:00:53 +05:30

test_web_framework_config.py

FastAPI/ASGI CORS handling.

2021-01-27 19:55:48 -05:00

test_webdav.py

More comments for rapid testing optional galaxy.files stuff.

2020-10-22 09:30:50 -04:00

test_work_queue_put_failure.py

Replace usage of mkstemp with NamedTemporaryFile

2020-12-07 22:31:53 +01:00

test_workflow_handler_configuration.py

Don't start workflow scheduler for handler in job pool

2021-06-15 18:23:49 +02:00

test_workflow_refactoring.py

Merge remote-tracking branch 'upstream/release_21.01' into dev

2021-03-01 16:52:02 -05:00

test_workflow_scheduling_options.py

Fix test_workflow_scheduling_options

2022-01-05 13:31:58 +01:00

test_workflow_sync.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

tool_sheds_conf.xml

py3: fix installing and running data managers

2018-08-14 14:56:06 +02:00

user_preferences_extra_conf.yml

Change vault api test case to integration test case and add missing conditional requirements

2021-12-20 18:23:00 +05:30

uses_shed.py

Fix install_repo_request/delete_repo_request url

2022-01-05 13:31:55 +01:00

vault_conf.yml

Make sure filesources can access user level and app level vaults

2021-11-28 06:56:35 +05:30

workflow_handler_configuration_job_conf.xml

[17.01] Restrict workflow scheduling within a history to a fixed, random handler.

2017-03-29 22:20:41 -04:00