pytest.xml

<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="pytest" errors="0" failures="0" skipped="0" tests="117" time="20.306" timestamp="2025-01-31T13:17:40.652615" hostname="MBThornton-M92.local"><testcase classname="tests.test_config" name="test_config" time="0.068" /><testcase classname="tests.test_config" name="test_config_missing" time="0.001" /><testcase classname="tests.test_import_mapper" name="test_import_files_initialized" time="0.057" /><testcase classname="tests.test_import_mapper" name="test_write_minted_id_file" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_get_or_create_minted_id_existing_data_object" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_get_or_create_minted_id_new_data_object" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_get_or_create_minted_id_existing_workflow" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_get_or_create_minted_id_new_workflow" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_get_or_create_minted_id_missing_data_object_type" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_import_specifications_returns_dict" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_import_specifications_loads_yaml_correctly" time="0.004" /><testcase classname="tests.test_import_mapper" name="test_import_specifications_with_invalid_yaml" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_import_specs_by_workflow_type_returns_dict" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_file_mappings_by_data_object_type_returns_dict" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_file_mappings_by_workflow_type_returns_dict" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_workflow_execution_ids_returns_list" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_workflow_execution_types_returns_list" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_update_file_mappings" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_get_nmdc_file_name" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_get_has_input_has_output_for_workflow_type_returns_lists" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_root_directory" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_data_source_url" time="0.002" /><testcase classname="tests.test_import_mapper" name="test_file_mapping_equality" time="0.002" /><testcase classname="tests.test_models" name="test_workflow_process_factory" time="1.841" /><testcase classname="tests.test_models" name="test_workflow_process_factory_incorrect_id" time="1.372" /><testcase classname="tests.test_models" name="test_workflow_process_factory_data_generation_invalid_analyte_category" time="0.001" /><testcase classname="tests.test_models" name="test_workflow_process_factory_metagenome_assembly_with_invalid_execution_resource" time="0.000" /><testcase classname="tests.test_models" name="test_workflow_process_factory_mags_with_mags_list" time="0.001" /><testcase classname="tests.test_models" name="test_process_factory_with_db_record" time="0.000" /><testcase classname="tests.test_models" name="test_workflow_process_node[mags_analysis_record.json-nmdc:MagsAnalysis]" time="0.007" /><testcase classname="tests.test_models" name="test_workflow_process_node[metagenome_annotation_record.json-nmdc:MetagenomeAnnotation]" time="0.006" /><testcase classname="tests.test_models" name="test_workflow_process_node[metagenome_assembly_record.json-nmdc:MetagenomeAssembly]" time="0.006" /><testcase classname="tests.test_models" name="test_workflow_process_node[metatranscriptome_annotation_record.json-nmdc:MetatranscriptomeAnnotation]" time="0.006" /><testcase classname="tests.test_models" name="test_workflow_process_node[metatranscriptome_assembly_record.json-nmdc:MetatranscriptomeAssembly]" time="0.006" /><testcase classname="tests.test_models" name="test_workflow_process_node[metatranscriptome_expression_analysis_record.json-nmdc:MetatranscriptomeExpressionAnalysis]" time="0.006" /><testcase classname="tests.test_models" name="test_workflow_process_node[nucleotide_sequencing_record.json-nmdc:NucleotideSequencing]" time="0.006" /><testcase classname="tests.test_models" name="test_workflow_process_node[read_based_taxonomy_analysis_record.json-nmdc:ReadBasedTaxonomyAnalysis]" time="0.006" /><testcase classname="tests.test_models" name="test_workflow_process_node[read_qc_analysis_record.json-nmdc:ReadQcAnalysis]" time="0.006" /><testcase classname="tests.test_models" name="test_data_object_creation_from_records" time="0.116" /><testcase classname="tests.test_models" name="test_data_object_creation_from_db_records" time="0.127" /><testcase classname="tests.test_models" name="test_data_object_creation_invalid_data_object_type" time="0.000" /><testcase classname="tests.test_models" name="test_data_object_creation_invalid_data_category" time="0.000" /><testcase classname="tests.test_models" name="test_job_output_creation" time="0.000" /><testcase classname="tests.test_models" name="test_job_creation" time="0.000" /><testcase classname="tests.test_nmdcapi" name="test_basics" time="0.007" /><testcase classname="tests.test_nmdcapi" name="test_objects" time="0.009" /><testcase classname="tests.test_nmdcapi" name="test_list_funcs" time="0.004" /><testcase classname="tests.test_nmdcapi" name="test_update_op" time="0.003" /><testcase classname="tests.test_nmdcapi" name="test_jobs" time="0.004" /><testcase classname="tests.test_nmdcapi" name="test_nmdcapi_get_token_with_retry" time="8.014" /><testcase classname="tests.test_sched" name="test_scheduler_cycle[workflows.yaml]" time="0.064" /><testcase classname="tests.test_sched" name="test_scheduler_cycle[workflows-mt.yaml]" time="0.046" /><testcase classname="tests.test_sched" name="test_progress[workflows.yaml]" time="0.253" /><testcase classname="tests.test_sched" name="test_progress[workflows-mt.yaml]" time="0.161" /><testcase classname="tests.test_sched" name="test_multiple_versions" time="0.140" /><testcase classname="tests.test_sched" name="test_out_of_range" time="0.066" /><testcase classname="tests.test_sched" name="test_type_resolving" time="0.077" /><testcase classname="tests.test_sched" name="test_scheduler_add_job_rec[workflows.yaml]" time="0.010" /><testcase classname="tests.test_sched" name="test_scheduler_add_job_rec[workflows-mt.yaml]" time="0.008" /><testcase classname="tests.test_sched" name="test_scheduler_find_new_jobs" time="0.059" /><testcase classname="tests.test_watch_nmdc" name="test_file_handler_init_from_state_file" time="0.001" /><testcase classname="tests.test_watch_nmdc" name="test_file_handler_init_from_config_agent_state" time="0.001" /><testcase classname="tests.test_watch_nmdc" name="test_file_handler_init_default_state" time="0.001" /><testcase classname="tests.test_watch_nmdc" name="test_file_handler_read_state" time="0.001" /><testcase classname="tests.test_watch_nmdc" name="test_file_handler_write_state" time="0.003" /><testcase classname="tests.test_watch_nmdc" name="test_file_handler_get_output_path" time="0.001" /><testcase classname="tests.test_watch_nmdc" name="test_file_handler_write_metadata_if_not_exists" time="0.002" /><testcase classname="tests.test_watch_nmdc" name="test_job_manager_init" time="0.001" /><testcase classname="tests.test_watch_nmdc" name="test_job_manager_restore_from_state" time="0.001" /><testcase classname="tests.test_watch_nmdc" name="test_job_manager_job_checkpoint" time="0.001" 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classname="tests.test_watch_nmdc" name="test_claim_jobs" time="1.938" /><testcase classname="tests.test_watch_nmdc" name="test_runtime_manager_get_unclaimed_jobs" time="0.045" /><testcase classname="tests.test_watch_nmdc" name="test_reclaim_job" time="0.001" /><testcase classname="tests.test_watch_nmdc" name="test_watcher_restore_from_checkpoint" time="0.000" /><testcase classname="tests.test_wfutils" name="test_workflow_job" time="0.001" /><testcase classname="tests.test_wfutils" name="test_cromwell_job_runner" time="0.001" /><testcase classname="tests.test_wfutils" name="test_cromwell_job_runner_get_job_status" time="0.002" /><testcase classname="tests.test_wfutils" name="test_cromwell_job_runner_get_job_metadata" time="0.002" /><testcase classname="tests.test_wfutils" name="test_workflow_job_as_workflow_execution_dict" time="0.001" /><testcase classname="tests.test_wfutils" name="test_workflow_state_manager" time="0.000" /><testcase classname="tests.test_wfutils" name="test_workflow_manager_fetch_release_file_success" time="0.001" /><testcase classname="tests.test_wfutils" name="test_workflow_manager_fetch_release_file_failed_download" time="0.001" /><testcase classname="tests.test_wfutils" name="test_workflow_manager_fetch_release_file_failed_write" time="0.001" /><testcase classname="tests.test_wfutils" name="test_cromwell_runner_setup_inputs_and_labels" time="0.000" /><testcase classname="tests.test_wfutils" name="test_cromwell_runner_generate_submission_files" time="0.002" /><testcase classname="tests.test_wfutils" name="test_cromwell_runner_generate_submission_files_exception" time="0.002" /><testcase classname="tests.test_wfutils" name="test_cromwell_job_runner_submit_job_new_job" time="0.002" /><testcase classname="tests.test_wfutils" name="test_workflow_job_data_objects_and_execution_record_mags" time="0.004" /><testcase classname="tests.test_wfutils" name="test_workflow_execution_record_from_workflow_job" time="0.004" /><testcase classname="tests.test_wfutils" name="test_make_data_objects_includes_workflow_execution_id_and_file_size" time="0.003" /><testcase classname="tests.test_wfutils" name="test_workflow_job_from_database_job_record" time="0.000" /><testcase classname="tests.test_workflow_process" name="test_load_workflow_process_nodes[workflows.yaml]" time="0.024" /><testcase classname="tests.test_workflow_process" name="test_load_workflow_process_nodes[workflows-mt.yaml]" time="0.022" /><testcase classname="tests.test_workflow_process" name="test_load_workflow_process_nodes_with_obsolete_versions" time="0.015" /><testcase classname="tests.test_workflow_process" name="test_resolve_relationships" time="0.016" /><testcase classname="tests.test_workflow_process" name="test_load_workflow_process_nodes_does_not_load_metagenome_sequencing" time="0.011" /><testcase classname="tests.test_workflow_process" name="test_load_workflows[workflows.yaml]" time="0.003" /><testcase classname="tests.test_workflow_process" name="test_load_workflows[workflows-mt.yaml]" time="0.003" /><testcase classname="tests.test_workflow_process" name="test_get_required_data_objects_by_id[workflows.yaml]" time="0.010" /><testcase classname="tests.test_workflow_process" name="test_get_required_data_objects_by_id[workflows-mt.yaml]" time="0.013" /><testcase classname="tests.test_workflow_process" name="test_within_range" time="0.000" /><testcase classname="tests.test_jgi_file_staging.test_file_metadata" name="test_get_access_token" time="0.004" /><testcase classname="tests.test_jgi_file_staging.test_file_metadata" name="test_check_access_token" time="1.010" /><testcase classname="tests.test_jgi_file_staging.test_file_metadata" name="test_check_access_token_invalid" time="1.012" /><testcase classname="tests.test_jgi_file_staging.test_file_metadata" name="test_get_sequence_id" time="2.015" /><testcase classname="tests.test_jgi_file_staging.test_file_metadata" name="test_get_analysis_projects_from_proposal_id" time="1.021" /><testcase classname="tests.test_jgi_file_staging.test_file_metadata" name="test_sample_model_instance_creation" time="0.008" /><testcase classname="tests.test_jgi_file_staging.test_file_metadata" name="test_insert_samples_into_mongodb" time="0.020" /></testsuite></testsuites>