
foursight_core/CheckHandler: Validating check_setup.json file: /Users/dmichaels/repos/cgap/react/foursight-cgap/chalicelib/check_setup.json
xyzzy:check_function decorator 1
()
{'files_per_run': 100, 'first_check_after': 14, 'max_checking_frequency': 14}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function check_file_lifecycle_status at 0x129e58560>
+++++++++++++++++++++++++++++++++++++++++
check_file_lifecycle_status
()
{'files_per_run': 100, 'first_check_after': 14, 'max_checking_frequency': 14}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'files_per_run': 50, 'check_after': 14}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function check_deleted_files_lifecycle_status at 0x129e58440>
+++++++++++++++++++++++++++++++++++++++++
check_deleted_files_lifecycle_status
()
{'files_per_run': 50, 'check_after': 14}
-----------------------------------------
xyzzy:check_function decorator return 2
Found credentials in environment variables.
xyzzy:check_function decorator 1
()
{'file_type': 'File', 'start_date': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function md5runCGAP_status at 0x129b91950>
+++++++++++++++++++++++++++++++++++++++++
md5runCGAP_status
()
{'file_type': 'File', 'start_date': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function metawfrs_to_run at 0x129b91c20>
+++++++++++++++++++++++++++++++++++++++++
metawfrs_to_run
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function metawfrs_to_checkstatus at 0x129b91e60>
+++++++++++++++++++++++++++++++++++++++++
metawfrs_to_checkstatus
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function spot_failed_metawfrs at 0x129bd40e0>
+++++++++++++++++++++++++++++++++++++++++
spot_failed_metawfrs
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'meta_workflow_runs': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function failed_metawfrs at 0x129bd4320>
+++++++++++++++++++++++++++++++++++++++++
failed_metawfrs
()
{'meta_workflow_runs': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'start_date': None, 'file_accessions': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function ingest_vcf_status at 0x129bd4560>
+++++++++++++++++++++++++++++++++++++++++
ingest_vcf_status
()
{'start_date': None, 'file_accessions': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'file_accessions': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function check_vcf_ingestion_errors at 0x129bd47a0>
+++++++++++++++++++++++++++++++++++++++++
check_vcf_ingestion_errors
()
{'file_accessions': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function find_meta_workflow_runs_requiring_output_linktos at 0x129bd49e0>
+++++++++++++++++++++++++++++++++++++++++
find_meta_workflow_runs_requiring_output_linktos
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'meta_workflow_runs': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function find_meta_workflow_runs_with_linkto_errors at 0x129bd4dd0>
+++++++++++++++++++++++++++++++++++++++++
find_meta_workflow_runs_with_linkto_errors
()
{'meta_workflow_runs': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'meta_workflow_runs': None, 'meta_workflows': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function find_meta_workflow_runs_to_kill at 0x129bd7050>
+++++++++++++++++++++++++++++++++++++++++
find_meta_workflow_runs_to_kill
()
{'meta_workflow_runs': None, 'meta_workflows': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'meta_workflow': '', 'cases': None, 'sample_processings': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function find_sample_processing_for_meta_workflow at 0x129bd7290>
+++++++++++++++++++++++++++++++++++++++++
find_sample_processing_for_meta_workflow
()
{'meta_workflow': '', 'cases': None, 'sample_processings': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'meta_workflow': '', 'cases': None, 'sample_processings': None, 'samples': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function find_sample_for_meta_workflow at 0x129bd74d0>
+++++++++++++++++++++++++++++++++++++++++
find_sample_for_meta_workflow
()
{'meta_workflow': '', 'cases': None, 'sample_processings': None, 'samples': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'meta_workflow_runs': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function find_meta_workflow_runs_with_quality_metric_failure at 0x129bd75f0>
+++++++++++++++++++++++++++++++++++++++++
find_meta_workflow_runs_with_quality_metric_failure
()
{'meta_workflow_runs': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'cmp_to_last': False}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function workflow_run_has_deleted_input_file at 0x129becb90>
+++++++++++++++++++++++++++++++++++++++++
workflow_run_has_deleted_input_file
()
{'cmp_to_last': False}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function item_counts_by_type at 0x129bf1440>
+++++++++++++++++++++++++++++++++++++++++
item_counts_by_type
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function change_in_item_counts at 0x129bf1560>
+++++++++++++++++++++++++++++++++++++++++
change_in_item_counts
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'file_type': None, 'status': None, 'file_format': None, 'search_add_on': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function identify_files_without_filesize at 0x129bf1680>
+++++++++++++++++++++++++++++++++++++++++
identify_files_without_filesize
()
{'file_type': None, 'status': None, 'file_format': None, 'search_add_on': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function validate_entrez_geneids at 0x129bf18c0>
+++++++++++++++++++++++++++++++++++++++++
validate_entrez_geneids
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function check_for_ontology_updates at 0x129bf1a70>
+++++++++++++++++++++++++++++++++++++++++
check_for_ontology_updates
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function states_files_without_higlass_defaults at 0x129bf1b90>
+++++++++++++++++++++++++++++++++++++++++
states_files_without_higlass_defaults
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function check_suggested_enum_values at 0x129bf1dd0>
+++++++++++++++++++++++++++++++++++++++++
check_suggested_enum_values
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'days_back': 30}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function check_external_references_uri at 0x129bf6050>
+++++++++++++++++++++++++++++++++++++++++
check_external_references_uri
()
{'days_back': 30}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function grouped_with_file_relation_consistency at 0x129bf6200>
+++++++++++++++++++++++++++++++++++++++++
grouped_with_file_relation_consistency
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'item_type': ['VariantSample']}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function core_project_status at 0x129bf6440>
+++++++++++++++++++++++++++++++++++++++++
core_project_status
()
{'item_type': ['VariantSample']}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'days_back': 1.02}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function update_variant_genelist at 0x129bf6680>
+++++++++++++++++++++++++++++++++++++++++
update_variant_genelist
()
{'days_back': 1.02}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'accessions': [], 'version': '', 'keep_SV_mwfr': False, 'create_SNV_mwfr': True, 'steps_to_rerun': ['all']}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function get_metadata_for_cases_to_clone at 0x129bf6170>
+++++++++++++++++++++++++++++++++++++++++
get_metadata_for_cases_to_clone
()
{'accessions': [], 'version': '', 'keep_SV_mwfr': False, 'create_SNV_mwfr': True, 'steps_to_rerun': ['all']}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'env': 'fourfront-hotseat'}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function indexer_server_status at 0x129e4a320>
+++++++++++++++++++++++++++++++++++++++++
indexer_server_status
()
{'env': 'fourfront-hotseat'}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'env': 'fourfront-hotseat', 'application_version': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function provision_indexer_environment at 0x129e4a5f0>
+++++++++++++++++++++++++++++++++++++++++
provision_indexer_environment
()
{'env': 'fourfront-hotseat', 'application_version': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'env': 'fourfront-cgap', 'branch': 'master', 'application_version_name': None, 'repo': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function deploy_application_to_beanstalk at 0x129e4a7a0>
+++++++++++++++++++++++++++++++++++++++++
deploy_application_to_beanstalk
()
{'env': 'fourfront-cgap', 'branch': 'master', 'application_version_name': None, 'repo': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function deploy_cgap_production at 0x129fec830>
+++++++++++++++++++++++++++++++++++++++++
deploy_cgap_production
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function paired_end_info_consistent at 0x129ff2680>
+++++++++++++++++++++++++++++++++++++++++
paired_end_info_consistent
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function workflow_properties at 0x129ff27a0>
+++++++++++++++++++++++++++++++++++++++++
workflow_properties
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function page_children_routes at 0x129ff28c0>
+++++++++++++++++++++++++++++++++++++++++
page_children_routes
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function check_validation_errors at 0x129ff29e0>
+++++++++++++++++++++++++++++++++++++++++
check_validation_errors
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function elasticsearch_s3_count_diff at 0x129ff2d40>
+++++++++++++++++++++++++++++++++++++++++
elasticsearch_s3_count_diff
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'timeout': 270, 'days': 30, 'to_clean': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function clean_s3_es_checks at 0x129ff2f80>
+++++++++++++++++++++++++++++++++++++++++
clean_s3_es_checks
()
{'timeout': 270, 'days': 30, 'to_clean': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function wipe_cgap_build_indices at 0x12a001cb0>
+++++++++++++++++++++++++++++++++++++++++
wipe_cgap_build_indices
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function elastic_search_space at 0x12a001200>
+++++++++++++++++++++++++++++++++++++++++
elastic_search_space
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function scale_down_elasticsearch_production at 0x12a004200>
+++++++++++++++++++++++++++++++++++++++++
scale_down_elasticsearch_production
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function scale_up_elasticsearch_production at 0x12a004320>
+++++++++++++++++++++++++++++++++++++++++
scale_up_elasticsearch_production
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function elastic_beanstalk_health at 0x12a004440>
+++++++++++++++++++++++++++++++++++++++++
elastic_beanstalk_health
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function status_of_elasticsearch_indices at 0x12a004560>
+++++++++++++++++++++++++++++++++++++++++
status_of_elasticsearch_indices
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function indexing_progress at 0x12a004680>
+++++++++++++++++++++++++++++++++++++++++
indexing_progress
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function indexing_records at 0x12a0047a0>
+++++++++++++++++++++++++++++++++++++++++
indexing_records
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'time_limit': 480}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function secondary_queue_deduplication at 0x12a0048c0>
+++++++++++++++++++++++++++++++++++++++++
secondary_queue_deduplication
()
{'time_limit': 480}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function check_long_running_ec2s at 0x12a0049e0>
+++++++++++++++++++++++++++++++++++++++++
check_long_running_ec2s
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function snapshot_rds at 0x12a004b00>
+++++++++++++++++++++++++++++++++++++++++
snapshot_rds
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function test_check_error at 0x12a00a440>
+++++++++++++++++++++++++++++++++++++++++
test_check_error
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function test_random_nums at 0x12a00a680>
+++++++++++++++++++++++++++++++++++++++++
test_random_nums
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function test_random_nums_2 at 0x12a00a7a0>
+++++++++++++++++++++++++++++++++++++++++
test_random_nums_2
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function ecs_status at 0x12a00add0>
+++++++++++++++++++++++++++++++++++++++++
ecs_status
()
{}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'build_name': None, 'branch': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function trigger_codebuild_run at 0x129e53050>
+++++++++++++++++++++++++++++++++++++++++
trigger_codebuild_run
()
{'build_name': None, 'branch': None}
-----------------------------------------
xyzzy:check_function decorator return 2
xyzzy:check_function decorator 1
()
{'cluster_name': None}
xyzzy:check_function decorator return 1
xyzzy:check_function decorator 2
<function update_ecs_application_versions at 0x129e533b0>
+++++++++++++++++++++++++++++++++++++++++
update_ecs_application_versions
()
{'cluster_name': None}
-----------------------------------------
xyzzy:check_function decorator return 2
