Path	Lines of Code
buildspec.yml	21
extras/agc-minimal-permissions/jest.config.js	7
extras/agc-minimal-permissions/lib/permissions-stack.ts	54
extras/agc-minimal-permissions/lib/policy-statements.ts	679
packages/cdk/apps/context/app.ts	15
packages/cdk/apps/core/app.ts	38
packages/cdk/jest.config.js	8
packages/cdk/lib/common/BucketOperations.ts	26
packages/cdk/lib/constants.ts	100
packages/cdk/lib/constructs/api-proxy.ts	96
packages/cdk/lib/constructs/batch.ts	135
packages/cdk/lib/constructs/engines/engine-job-definition.ts	25
packages/cdk/lib/constructs/engines/engine.ts	14
packages/cdk/lib/constructs/engines/miniwdl/miniwdl-engine.ts	85
packages/cdk/lib/constructs/engines/nextflow/nextflow-engine.ts	31
packages/cdk/lib/constructs/index.ts	3
packages/cdk/lib/constructs/secure-service.ts	38
packages/cdk/lib/env/context-app-parameters.ts	83
packages/cdk/lib/env/core-app-parameters.ts	13
packages/cdk/lib/env/index.ts	42
packages/cdk/lib/roles/cromwell-adapter-role.ts	17
packages/cdk/lib/roles/cromwell-engine-role.ts	48
packages/cdk/lib/roles/nextflow-adapter-role.ts	36
packages/cdk/lib/roles/nextflow-engine-role.ts	39
packages/cdk/lib/roles/policies/batch-policies.ts	8
packages/cdk/lib/roles/policies/cromwell-batch-policy.ts	29
packages/cdk/lib/roles/policies/head-job-batch-policy.ts	18
packages/cdk/lib/roles/policies/nextflow-adapter-batch-policy.ts	18
packages/cdk/lib/roles/policies/nextflow-describe-jobs-batch-policy.ts	15
packages/cdk/lib/roles/policies/nextflow-engine-batch-policy.ts	23
packages/cdk/lib/roles/policies/nextflow-submit-job-batch-policy.ts	19
packages/cdk/lib/stacks/context-stack.ts	112
packages/cdk/lib/stacks/core-stack.ts	142
packages/cdk/lib/stacks/engines/batch-construct.ts	60
packages/cdk/lib/stacks/engines/cromwell-engine-construct.ts	120
packages/cdk/lib/stacks/engines/engine-construct.ts	22
packages/cdk/lib/stacks/engines/miniwdl-engine-construct.ts	122
packages/cdk/lib/stacks/engines/nextflow-engine-construct.ts	77
packages/cdk/lib/stacks/index.ts	4
packages/cdk/lib/types/engine-options.ts	9
packages/cdk/lib/types/index.ts	3
packages/cdk/lib/types/service-container.ts	14
packages/cdk/lib/util/index.ts	123
packages/cdk/lib/util/instance-types.ts	184
packages/cdk/lib/wes_adapter/amazon_genomics/__init__.py	1
packages/cdk/lib/wes_adapter/amazon_genomics/util/__init__.py	1
packages/cdk/lib/wes_adapter/amazon_genomics/util/method_logger.py	41
packages/cdk/lib/wes_adapter/amazon_genomics/wes/__init__.py	1
packages/cdk/lib/wes_adapter/amazon_genomics/wes/adapters/BatchAdapter.py	193
packages/cdk/lib/wes_adapter/amazon_genomics/wes/adapters/CromwellWESAdapter.py	418
packages/cdk/lib/wes_adapter/amazon_genomics/wes/adapters/MiniWdlWESAdapter.py	113
packages/cdk/lib/wes_adapter/amazon_genomics/wes/adapters/NextflowWESAdapter.py	102
packages/cdk/lib/wes_adapter/amazon_genomics/wes/adapters/__init__.py	4
packages/cdk/lib/wes_adapter/amazon_genomics/wes/adapters/config/__init__.py	1
packages/cdk/lib/wes_adapter/index.py	5
packages/cdk/lib/wes_adapter/local-server.py	7
packages/cdk/lib/wes_adapter/rest_api/__init__.py	13
packages/cdk/lib/wes_adapter/rest_api/controllers/__init__.py	1
packages/cdk/lib/wes_adapter/rest_api/encoder.py	16
packages/cdk/lib/wes_adapter/rest_api/error_handling.py	7
packages/cdk/lib/wes_adapter/rest_api/exception/Exceptions.py	5
packages/cdk/lib/wes_adapter/rest_api/exception/__init__.py	1
packages/cdk/lib/wes_adapter/rest_api/models/__init__.py	12
packages/cdk/lib/wes_adapter/rest_api/models/base_model_.py	39
packages/cdk/lib/wes_adapter/rest_api/models/default_workflow_engine_parameter.py	41
packages/cdk/lib/wes_adapter/rest_api/models/error_response.py	32
packages/cdk/lib/wes_adapter/rest_api/models/log.py	77
packages/cdk/lib/wes_adapter/rest_api/models/run_id.py	23
packages/cdk/lib/wes_adapter/rest_api/models/run_list_response.py	34
packages/cdk/lib/wes_adapter/rest_api/models/run_log.py	74
packages/cdk/lib/wes_adapter/rest_api/models/run_request.py	68
packages/cdk/lib/wes_adapter/rest_api/models/run_status.py	36
packages/cdk/lib/wes_adapter/rest_api/models/service_info.py	99
packages/cdk/lib/wes_adapter/rest_api/models/state.py	24
packages/cdk/lib/wes_adapter/rest_api/models/workflow_type_version.py	23
packages/cdk/lib/wes_adapter/rest_api/openapi/openapi.yaml	691
packages/cdk/lib/wes_adapter/rest_api/typing_utils.py	16
packages/cdk/lib/wes_adapter/rest_api/util.py	60
packages/cdk/lib/wes_adapter/rest_api/workflow/sampleWorkFlow.wdl	27
packages/cli/cmd/application/description.go	4
packages/cli/cmd/application/description_windows.go	4
packages/cli/cmd/application/main.go	135
packages/cli/cmd/application/set_format.go	33
packages/cli/cmd/application/template/macro.go	49
packages/cli/cmd/application/template/template.go	42
packages/cli/internal/pkg/aws/batch/client.go	14
packages/cli/internal/pkg/aws/batch/get_jobs.go	43
packages/cli/internal/pkg/aws/batch/interface.go	11
packages/cli/internal/pkg/aws/cdk/append_context_arguments.go	7
packages/cli/internal/pkg/aws/cdk/bootstrap.go	19
packages/cli/internal/pkg/aws/cdk/clear_context.go	22
packages/cli/internal/pkg/aws/cdk/deploy_app.go	21
packages/cli/internal/pkg/aws/cdk/destroy_app.go	19
packages/cli/internal/pkg/aws/cdk/execute_cdk.go	115
packages/cli/internal/pkg/aws/cdk/new_client.go	16
packages/cli/internal/pkg/aws/cdk/progress.go	168
packages/cli/internal/pkg/aws/cfn/client.go	14
packages/cli/internal/pkg/aws/cfn/delete_stack.go	58
packages/cli/internal/pkg/aws/cfn/errors.go	5
packages/cli/internal/pkg/aws/cfn/get_stack_exports.go	6
packages/cli/internal/pkg/aws/cfn/get_stack_info.go	60
packages/cli/internal/pkg/aws/cfn/get_stack_status.go	9
packages/cli/internal/pkg/aws/cfn/get_stack_tags.go	5
packages/cli/internal/pkg/aws/cfn/interface.go	20
packages/cli/internal/pkg/aws/cfn/list_stacks.go	36
packages/cli/internal/pkg/aws/cfn/stack_filters.go	39
packages/cli/internal/pkg/aws/cwl/client.go	14
packages/cli/internal/pkg/aws/cwl/get_logs.go	66
packages/cli/internal/pkg/aws/cwl/interface.go	16
packages/cli/internal/pkg/aws/cwl/stream_logs.go	59
packages/cli/internal/pkg/aws/ddb/client.go	24
packages/cli/internal/pkg/aws/ddb/get_workflow_instance_by_id.go	33
packages/cli/internal/pkg/aws/ddb/interface.go	18
packages/cli/internal/pkg/aws/ddb/list_workflow_instances.go	40
packages/cli/internal/pkg/aws/ddb/list_workflow_instances_by_context.go	41
packages/cli/internal/pkg/aws/ddb/list_workflow_instances_by_name.go	41
packages/cli/internal/pkg/aws/ddb/list_workflows.go	53
packages/cli/internal/pkg/aws/ddb/write_workflow_instance.go	64
packages/cli/internal/pkg/aws/ecr/Interface.go	9
packages/cli/internal/pkg/aws/ecr/ecr_client.go	13
packages/cli/internal/pkg/aws/ecr/image_listable.go	28
packages/cli/internal/pkg/aws/ecr/image_reference.go	33
packages/cli/internal/pkg/aws/provider.go	129
packages/cli/internal/pkg/aws/s3/bucket_exists.go	20
packages/cli/internal/pkg/aws/s3/client.go	13
packages/cli/internal/pkg/aws/s3/interface.go	15
packages/cli/internal/pkg/aws/s3/sync_file.go	47
packages/cli/internal/pkg/aws/s3/upload_file.go	23
packages/cli/internal/pkg/aws/s3/util.go	31
packages/cli/internal/pkg/aws/ssm/client.go	13
packages/cli/internal/pkg/aws/ssm/get_common_parameter.go	29
packages/cli/internal/pkg/aws/ssm/interface.go	12
packages/cli/internal/pkg/aws/sts/get_account.go	17
packages/cli/internal/pkg/aws/sts/new_client.go	21
packages/cli/internal/pkg/aws/util/time.go	20
packages/cli/internal/pkg/cli/account.go	24
packages/cli/internal/pkg/cli/account_activate.go	147
packages/cli/internal/pkg/cli/account_deactivate.go	141
packages/cli/internal/pkg/cli/awsresources/awsresources.go	23
packages/cli/internal/pkg/cli/cli.go	23
packages/cli/internal/pkg/cli/clierror/actionableerror/error.go	33
packages/cli/internal/pkg/cli/clierror/actionableerror/mappings.go	10
packages/cli/internal/pkg/cli/clierror/cli_error.go	42
packages/cli/internal/pkg/cli/config/config.go	12
packages/cli/internal/pkg/cli/config/config_client.go	104
packages/cli/internal/pkg/cli/config/io.go	29
packages/cli/internal/pkg/cli/configure.go	24
packages/cli/internal/pkg/cli/configure_describe.go	51
packages/cli/internal/pkg/cli/configure_email.go	65
packages/cli/internal/pkg/cli/configure_format.go	70
packages/cli/internal/pkg/cli/context.go	28
packages/cli/internal/pkg/cli/context/context_environment.go	52
packages/cli/internal/pkg/cli/context/info.go	34
packages/cli/internal/pkg/cli/context/interface.go	8
packages/cli/internal/pkg/cli/context/manager.go	238
packages/cli/internal/pkg/cli/context/manager_deploy.go	66
packages/cli/internal/pkg/cli/context/manager_destroy.go	50
packages/cli/internal/pkg/cli/context/manager_info.go	64
packages/cli/internal/pkg/cli/context/manager_list.go	23
packages/cli/internal/pkg/cli/context/manager_status.go	35
packages/cli/internal/pkg/cli/context/status.go	58
packages/cli/internal/pkg/cli/context/util.go	24
packages/cli/internal/pkg/cli/context_auto_complete.go	31
packages/cli/internal/pkg/cli/context_deploy.go	148
packages/cli/internal/pkg/cli/context_describe.go	88
packages/cli/internal/pkg/cli/context_destroy.go	140
packages/cli/internal/pkg/cli/context_list.go	76
packages/cli/internal/pkg/cli/context_status.go	53
packages/cli/internal/pkg/cli/describe_output.go	68
packages/cli/internal/pkg/cli/flag.go	20
packages/cli/internal/pkg/cli/format/format.go	44
packages/cli/internal/pkg/cli/format/table.go	193
packages/cli/internal/pkg/cli/format/text.go	81
packages/cli/internal/pkg/cli/group/group.go	9
packages/cli/internal/pkg/cli/group/group_windows.go	10
packages/cli/internal/pkg/cli/group/key.go	2
packages/cli/internal/pkg/cli/logs.go	27
packages/cli/internal/pkg/cli/logs_access.go	72
packages/cli/internal/pkg/cli/logs_adapter.go	72
packages/cli/internal/pkg/cli/logs_core.go	204
packages/cli/internal/pkg/cli/logs_engine.go	72
packages/cli/internal/pkg/cli/logs_workflow.go	219
packages/cli/internal/pkg/cli/project.go	40
packages/cli/internal/pkg/cli/project_describe.go	88
packages/cli/internal/pkg/cli/project_init.go	132
packages/cli/internal/pkg/cli/project_validate.go	50
packages/cli/internal/pkg/cli/spec/context.go	21
packages/cli/internal/pkg/cli/spec/data.go	5
packages/cli/internal/pkg/cli/spec/io.go	86
packages/cli/internal/pkg/cli/spec/manifest.go	7
packages/cli/internal/pkg/cli/spec/project.go	23
packages/cli/internal/pkg/cli/spec/workflow.go	9
packages/cli/internal/pkg/cli/types/context.go	33
packages/cli/internal/pkg/cli/types/data_ref.go	5
packages/cli/internal/pkg/cli/types/engine.go	20
packages/cli/internal/pkg/cli/types/project.go	5
packages/cli/internal/pkg/cli/types/workflow.go	22
packages/cli/internal/pkg/cli/workflow.go	31
packages/cli/internal/pkg/cli/workflow/input.go	16
packages/cli/internal/pkg/cli/workflow/interface.go	11
packages/cli/internal/pkg/cli/workflow/manager.go	607
packages/cli/internal/pkg/cli/workflow/workflow_describe.go	7
packages/cli/internal/pkg/cli/workflow/workflow_details.go	19
packages/cli/internal/pkg/cli/workflow/workflow_list.go	8
packages/cli/internal/pkg/cli/workflow/workflow_output.go	16
packages/cli/internal/pkg/cli/workflow/workflow_run.go	34
packages/cli/internal/pkg/cli/workflow/workflow_status.go	63
packages/cli/internal/pkg/cli/workflow/workflow_stop.go	12
packages/cli/internal/pkg/cli/workflow/workflow_summary.go	4
packages/cli/internal/pkg/cli/workflow/workflow_tasks.go	95
packages/cli/internal/pkg/cli/workflow_auto_complete.go	31
packages/cli/internal/pkg/cli/workflow_describe.go	69
packages/cli/internal/pkg/cli/workflow_list.go	69
packages/cli/internal/pkg/cli/workflow_output.go	86
packages/cli/internal/pkg/cli/workflow_run.go	72
packages/cli/internal/pkg/cli/workflow_status.go	95
packages/cli/internal/pkg/cli/workflow_stop.go	52
packages/cli/internal/pkg/cli/zipfile/compress_to_tmp.go	56
packages/cli/internal/pkg/constants/product.go	6
packages/cli/internal/pkg/environment/environment.go	47
packages/cli/internal/pkg/logging/logging.go	67
packages/cli/internal/pkg/logging/prefix.go	11
packages/cli/internal/pkg/logging/prefix_windows.go	11
packages/cli/internal/pkg/mocks/aws/interfaces.go	44
packages/cli/internal/pkg/mocks/aws/mock_interfaces.go	500
packages/cli/internal/pkg/mocks/context/interfaces.go	7
packages/cli/internal/pkg/mocks/context/mock_interfaces.go	74
packages/cli/internal/pkg/mocks/io/interfaces.go	40
packages/cli/internal/pkg/mocks/io/mock_interfaces.go	314
packages/cli/internal/pkg/mocks/manager/interfaces.go	9
packages/cli/internal/pkg/mocks/manager/mock_interfaces.go	98
packages/cli/internal/pkg/mocks/storage/interfaces.go	14
packages/cli/internal/pkg/mocks/storage/mock_interfaces.go	236
packages/cli/internal/pkg/mocks/wes/interfaces.go	7
packages/cli/internal/pkg/mocks/wes/mock_interfaces.go	71
packages/cli/internal/pkg/mocks/workflow/interfaces.go	5
packages/cli/internal/pkg/mocks/workflow/mock_interfaces.go	106
packages/cli/internal/pkg/osutils/utils.go	75
packages/cli/internal/pkg/slices/slice_utils.go	23
packages/cli/internal/pkg/storage/input_client.go	119
packages/cli/internal/pkg/storage/interfaces.go	29
packages/cli/internal/pkg/storage/manifest_client.go	21
packages/cli/internal/pkg/storage/project_client.go	103
packages/cli/internal/pkg/storage/storage_client.go	51
packages/cli/internal/pkg/term/color/color.go	53
packages/cli/internal/pkg/version/cache.go	57
packages/cli/internal/pkg/version/check_func.go	57
packages/cli/internal/pkg/version/checker.go	41
packages/cli/internal/pkg/version/info.go	7
packages/cli/internal/pkg/version/interfaces.go	13
packages/cli/internal/pkg/version/mock_interfaces.go	81
packages/cli/internal/pkg/version/replenish_func.go	118
packages/cli/internal/pkg/version/store.go	23
packages/cli/internal/pkg/version/version.go	2
packages/cli/internal/pkg/version/version_check_result.go	8
packages/cli/internal/pkg/wes/Client.go	45
packages/cli/internal/pkg/wes/interface.go	12
packages/cli/internal/pkg/wes/option/option_func.go	3
packages/cli/internal/pkg/wes/option/workflow_attachment.go	20
packages/cli/internal/pkg/wes/option/workflow_params.go	16
packages/cli/internal/pkg/wes/option/workflow_type.go	12
packages/cli/internal/pkg/wes/option/workflow_type_version.go	11
packages/cli/internal/pkg/wes/option/workflow_url.go	11
packages/cli/internal/pkg/wes/wes.go	60
packages/engines/cromwell/buildspec.yml	37
packages/engines/miniwdl/buildspec.yml	19
packages/engines/new-engine-template/DEVELOPMENT.MD	15
packages/engines/new-engine-template/buildspec.yml	18
packages/engines/nextflow/buildspec.yml	19
packages/engines/snakemake/buildspec.yml	21
packages/wes_api/client/api/openapi.yaml	684
packages/wes_api/client/client.go	421
packages/wes_api/client/configuration.go	86
packages/wes_api/client/model_default_workflow_engine_parameter.go	6
packages/wes_api/client/model_error_response.go	5
packages/wes_api/client/model_log.go	10
packages/wes_api/client/model_run_id.go	4
packages/wes_api/client/model_run_list_response.go	5
packages/wes_api/client/model_run_log.go	9
packages/wes_api/client/model_run_request.go	9
packages/wes_api/client/model_run_status.go	5
packages/wes_api/client/model_service_info.go	12
packages/wes_api/client/model_workflow_type_version.go	4
packages/wes_api/client/response.go	20
packages/wes_api/client/sigv4_client.go	68
scripts/context-deploy-benchmark/cromwell/agc-project.yaml	24
scripts/context-deploy-benchmark/nextflow/agc-project.yaml	24
site/assets/scss/_variables_project.scss	1
site/config.toml	169
site/content/en/_index.html	30
site/content/en/about/_index.html	14
site/layouts/404.html	8
site/static/favicons/site.webmanifest	1