arctrl 3.0.0__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- arctrl/__init__.py +23 -0
- arctrl/cwl.py +12 -0
- arctrl/py/CWL/__init__.py +0 -0
- arctrl/py/CWL/cwlprocessing_unit.py +221 -0
- arctrl/py/CWL/cwltypes.py +364 -0
- arctrl/py/CWL/decode.py +3532 -0
- arctrl/py/CWL/encode.py +1905 -0
- arctrl/py/CWL/expression_tool_description.py +192 -0
- arctrl/py/CWL/hash_helpers.py +60 -0
- arctrl/py/CWL/inputs.py +122 -0
- arctrl/py/CWL/operation_description.py +169 -0
- arctrl/py/CWL/outputs.py +171 -0
- arctrl/py/CWL/parameter_reference.py +74 -0
- arctrl/py/CWL/requirements.py +350 -0
- arctrl/py/CWL/tool_description.py +192 -0
- arctrl/py/CWL/workflow_description.py +181 -0
- arctrl/py/CWL/workflow_steps.py +354 -0
- arctrl/py/Contract/__init__.py +0 -0
- arctrl/py/Contract/arc.py +89 -0
- arctrl/py/Contract/arc_assay.py +125 -0
- arctrl/py/Contract/arc_investigation.py +88 -0
- arctrl/py/Contract/arc_run.py +291 -0
- arctrl/py/Contract/arc_study.py +126 -0
- arctrl/py/Contract/arc_workflow.py +213 -0
- arctrl/py/Contract/contract.py +153 -0
- arctrl/py/Contract/datamap.py +396 -0
- arctrl/py/Contract/git.py +116 -0
- arctrl/py/Contract/license.py +58 -0
- arctrl/py/Contract/validation_packages_config.py +107 -0
- arctrl/py/ContractIO/__init__.py +0 -0
- arctrl/py/ContractIO/contract_io.py +350 -0
- arctrl/py/ContractIO/file_system_helper.py +264 -0
- arctrl/py/Conversion/__init__.py +0 -0
- arctrl/py/Conversion/assay.py +151 -0
- arctrl/py/Conversion/basic.py +559 -0
- arctrl/py/Conversion/column_index.py +91 -0
- arctrl/py/Conversion/datamap.py +36 -0
- arctrl/py/Conversion/date_time.py +32 -0
- arctrl/py/Conversion/investigation.py +171 -0
- arctrl/py/Conversion/person.py +148 -0
- arctrl/py/Conversion/process.py +828 -0
- arctrl/py/Conversion/run.py +367 -0
- arctrl/py/Conversion/scholarly_article.py +163 -0
- arctrl/py/Conversion/study.py +99 -0
- arctrl/py/Conversion/table.py +229 -0
- arctrl/py/Conversion/workflow.py +680 -0
- arctrl/py/Core/Helper/__init__.py +0 -0
- arctrl/py/Core/Helper/collections_.py +512 -0
- arctrl/py/Core/Helper/date_time.py +26 -0
- arctrl/py/Core/Helper/hash_codes.py +60 -0
- arctrl/py/Core/Helper/identifier.py +290 -0
- arctrl/py/Core/Helper/orcid.py +42 -0
- arctrl/py/Core/Helper/printer.py +13 -0
- arctrl/py/Core/Helper/regex.py +554 -0
- arctrl/py/Core/Helper/sem_ver.py +71 -0
- arctrl/py/Core/Helper/url.py +148 -0
- arctrl/py/Core/Process/__init__.py +0 -0
- arctrl/py/Core/Process/column_index.py +280 -0
- arctrl/py/Core/Process/component.py +200 -0
- arctrl/py/Core/Process/factor.py +151 -0
- arctrl/py/Core/Process/factor_value.py +182 -0
- arctrl/py/Core/Process/material.py +74 -0
- arctrl/py/Core/Process/material_attribute.py +95 -0
- arctrl/py/Core/Process/material_attribute_value.py +184 -0
- arctrl/py/Core/Process/material_type.py +45 -0
- arctrl/py/Core/Process/process.py +477 -0
- arctrl/py/Core/Process/process_input.py +265 -0
- arctrl/py/Core/Process/process_output.py +235 -0
- arctrl/py/Core/Process/process_parameter_value.py +200 -0
- arctrl/py/Core/Process/process_sequence.py +435 -0
- arctrl/py/Core/Process/protocol.py +175 -0
- arctrl/py/Core/Process/protocol_parameter.py +98 -0
- arctrl/py/Core/Process/sample.py +82 -0
- arctrl/py/Core/Process/source.py +62 -0
- arctrl/py/Core/Table/__init__.py +0 -0
- arctrl/py/Core/Table/arc_table.py +1206 -0
- arctrl/py/Core/Table/arc_table_aux.py +1308 -0
- arctrl/py/Core/Table/arc_tables.py +574 -0
- arctrl/py/Core/Table/composite_cell.py +319 -0
- arctrl/py/Core/Table/composite_column.py +73 -0
- arctrl/py/Core/Table/composite_header.py +739 -0
- arctrl/py/Core/__init__.py +0 -0
- arctrl/py/Core/arc_types.py +5312 -0
- arctrl/py/Core/comment.py +128 -0
- arctrl/py/Core/comment_list.py +127 -0
- arctrl/py/Core/conversion.py +1375 -0
- arctrl/py/Core/data.py +247 -0
- arctrl/py/Core/data_context.py +157 -0
- arctrl/py/Core/data_file.py +112 -0
- arctrl/py/Core/datamap.py +217 -0
- arctrl/py/Core/identifier_setters.py +43 -0
- arctrl/py/Core/iproperty_value.py +36 -0
- arctrl/py/Core/ontology_annotation.py +298 -0
- arctrl/py/Core/ontology_source_reference.py +114 -0
- arctrl/py/Core/person.py +259 -0
- arctrl/py/Core/publication.py +161 -0
- arctrl/py/Core/template.py +231 -0
- arctrl/py/Core/templates.py +148 -0
- arctrl/py/Core/uri.py +11 -0
- arctrl/py/Core/value.py +188 -0
- arctrl/py/FileSystem/__init__.py +0 -0
- arctrl/py/FileSystem/commit.py +21 -0
- arctrl/py/FileSystem/default_gitattributes.py +1 -0
- arctrl/py/FileSystem/default_gitignore.py +1 -0
- arctrl/py/FileSystem/default_license.py +1 -0
- arctrl/py/FileSystem/file_system.py +58 -0
- arctrl/py/FileSystem/file_system_tree.py +483 -0
- arctrl/py/FileSystem/path.py +266 -0
- arctrl/py/Json/Datamap/__init__.py +0 -0
- arctrl/py/Json/Datamap/data_context.py +101 -0
- arctrl/py/Json/Datamap/datamap.py +53 -0
- arctrl/py/Json/Process/__init__.py +0 -0
- arctrl/py/Json/Process/assay_materials.py +46 -0
- arctrl/py/Json/Process/component.py +125 -0
- arctrl/py/Json/Process/factor.py +107 -0
- arctrl/py/Json/Process/factor_value.py +101 -0
- arctrl/py/Json/Process/material.py +226 -0
- arctrl/py/Json/Process/material_attribute.py +79 -0
- arctrl/py/Json/Process/material_attribute_value.py +101 -0
- arctrl/py/Json/Process/material_type.py +53 -0
- arctrl/py/Json/Process/process.py +296 -0
- arctrl/py/Json/Process/process_input.py +83 -0
- arctrl/py/Json/Process/process_output.py +67 -0
- arctrl/py/Json/Process/process_parameter_value.py +81 -0
- arctrl/py/Json/Process/protocol.py +354 -0
- arctrl/py/Json/Process/protocol_parameter.py +91 -0
- arctrl/py/Json/Process/sample.py +277 -0
- arctrl/py/Json/Process/source.py +214 -0
- arctrl/py/Json/Process/study_materials.py +52 -0
- arctrl/py/Json/Process/value.py +56 -0
- arctrl/py/Json/ROCrate/__init__.py +0 -0
- arctrl/py/Json/ROCrate/ldcontext.py +143 -0
- arctrl/py/Json/ROCrate/ldgraph.py +117 -0
- arctrl/py/Json/ROCrate/ldnode.py +304 -0
- arctrl/py/Json/ROCrate/ldref.py +44 -0
- arctrl/py/Json/ROCrate/ldvalue.py +102 -0
- arctrl/py/Json/Table/__init__.py +0 -0
- arctrl/py/Json/Table/arc_table.py +375 -0
- arctrl/py/Json/Table/cell_table.py +83 -0
- arctrl/py/Json/Table/composite_cell.py +136 -0
- arctrl/py/Json/Table/composite_header.py +67 -0
- arctrl/py/Json/Table/iotype.py +24 -0
- arctrl/py/Json/Table/oatable.py +82 -0
- arctrl/py/Json/Table/templates.py +281 -0
- arctrl/py/Json/__init__.py +0 -0
- arctrl/py/Json/assay.py +600 -0
- arctrl/py/Json/comment.py +206 -0
- arctrl/py/Json/context/rocrate/__init__.py +0 -0
- arctrl/py/Json/context/rocrate/isa_assay_context.py +101 -0
- arctrl/py/Json/context/rocrate/isa_comment_context.py +60 -0
- arctrl/py/Json/context/rocrate/isa_component_context.py +77 -0
- arctrl/py/Json/context/rocrate/isa_data_context.py +74 -0
- arctrl/py/Json/context/rocrate/isa_factor_context.py +74 -0
- arctrl/py/Json/context/rocrate/isa_factor_value_context.py +84 -0
- arctrl/py/Json/context/rocrate/isa_investigation_context.py +110 -0
- arctrl/py/Json/context/rocrate/isa_material_attribute_context.py +64 -0
- arctrl/py/Json/context/rocrate/isa_material_attribute_value_context.py +80 -0
- arctrl/py/Json/context/rocrate/isa_material_context.py +71 -0
- arctrl/py/Json/context/rocrate/isa_ontology_annotation_context.py +68 -0
- arctrl/py/Json/context/rocrate/isa_ontology_source_reference_context.py +75 -0
- arctrl/py/Json/context/rocrate/isa_organization_context.py +55 -0
- arctrl/py/Json/context/rocrate/isa_person_context.py +131 -0
- arctrl/py/Json/context/rocrate/isa_process_context.py +94 -0
- arctrl/py/Json/context/rocrate/isa_process_parameter_value_context.py +80 -0
- arctrl/py/Json/context/rocrate/isa_protocol_context.py +97 -0
- arctrl/py/Json/context/rocrate/isa_protocol_parameter_context.py +64 -0
- arctrl/py/Json/context/rocrate/isa_publication_context.py +78 -0
- arctrl/py/Json/context/rocrate/isa_sample_context.py +65 -0
- arctrl/py/Json/context/rocrate/isa_source_context.py +66 -0
- arctrl/py/Json/context/rocrate/isa_study_context.py +125 -0
- arctrl/py/Json/context/rocrate/property_value_context.py +73 -0
- arctrl/py/Json/context/rocrate/rocrate_context.py +81 -0
- arctrl/py/Json/converter_options.py +23 -0
- arctrl/py/Json/data.py +356 -0
- arctrl/py/Json/data_file.py +63 -0
- arctrl/py/Json/decode.py +271 -0
- arctrl/py/Json/encode.py +140 -0
- arctrl/py/Json/idtable.py +44 -0
- arctrl/py/Json/investigation.py +695 -0
- arctrl/py/Json/ontology_annotation.py +404 -0
- arctrl/py/Json/ontology_source_reference.py +255 -0
- arctrl/py/Json/person.py +658 -0
- arctrl/py/Json/property_value.py +359 -0
- arctrl/py/Json/publication.py +279 -0
- arctrl/py/Json/run.py +275 -0
- arctrl/py/Json/string_table.py +87 -0
- arctrl/py/Json/study.py +793 -0
- arctrl/py/Json/workflow.py +307 -0
- arctrl/py/JsonIO/Process/__init__.py +0 -0
- arctrl/py/JsonIO/Process/component.py +60 -0
- arctrl/py/JsonIO/Process/factor.py +36 -0
- arctrl/py/JsonIO/Process/factor_value.py +38 -0
- arctrl/py/JsonIO/Process/material.py +60 -0
- arctrl/py/JsonIO/Process/material_attribute.py +38 -0
- arctrl/py/JsonIO/Process/material_attribute_value.py +60 -0
- arctrl/py/JsonIO/Process/material_type.py +36 -0
- arctrl/py/JsonIO/Process/process.py +60 -0
- arctrl/py/JsonIO/Process/process_input.py +38 -0
- arctrl/py/JsonIO/Process/process_output.py +60 -0
- arctrl/py/JsonIO/Process/process_parameter_value.py +60 -0
- arctrl/py/JsonIO/Process/process_sequence.py +71 -0
- arctrl/py/JsonIO/Process/protocol.py +60 -0
- arctrl/py/JsonIO/Process/protocol_parameter.py +36 -0
- arctrl/py/JsonIO/Process/sample.py +60 -0
- arctrl/py/JsonIO/Process/source.py +60 -0
- arctrl/py/JsonIO/Process/study_materials.py +52 -0
- arctrl/py/JsonIO/Process/value.py +32 -0
- arctrl/py/JsonIO/Table/__init__.py +0 -0
- arctrl/py/JsonIO/Table/arc_table.py +103 -0
- arctrl/py/JsonIO/Table/composite_cell.py +36 -0
- arctrl/py/JsonIO/Table/composite_header.py +36 -0
- arctrl/py/JsonIO/Table/compression.py +67 -0
- arctrl/py/JsonIO/Table/iotype.py +36 -0
- arctrl/py/JsonIO/Table/templates.py +113 -0
- arctrl/py/JsonIO/__init__.py +0 -0
- arctrl/py/JsonIO/assay.py +113 -0
- arctrl/py/JsonIO/comment.py +80 -0
- arctrl/py/JsonIO/data.py +60 -0
- arctrl/py/JsonIO/data_file.py +58 -0
- arctrl/py/JsonIO/datamap.py +36 -0
- arctrl/py/JsonIO/decode.py +9 -0
- arctrl/py/JsonIO/encode.py +1 -0
- arctrl/py/JsonIO/investigation.py +91 -0
- arctrl/py/JsonIO/ldobject.py +106 -0
- arctrl/py/JsonIO/ontology_annotation.py +80 -0
- arctrl/py/JsonIO/ontology_source_reference.py +80 -0
- arctrl/py/JsonIO/person.py +82 -0
- arctrl/py/JsonIO/publication.py +82 -0
- arctrl/py/JsonIO/run.py +68 -0
- arctrl/py/JsonIO/study.py +114 -0
- arctrl/py/JsonIO/workflow.py +68 -0
- arctrl/py/ROCrate/ISAProfile/__init__.py +0 -0
- arctrl/py/ROCrate/ISAProfile/assay.py +70 -0
- arctrl/py/ROCrate/ISAProfile/data.py +65 -0
- arctrl/py/ROCrate/ISAProfile/dataset.py +24 -0
- arctrl/py/ROCrate/ISAProfile/investigation.py +73 -0
- arctrl/py/ROCrate/ISAProfile/lab_process.py +162 -0
- arctrl/py/ROCrate/ISAProfile/lab_protocol.py +37 -0
- arctrl/py/ROCrate/ISAProfile/person.py +72 -0
- arctrl/py/ROCrate/ISAProfile/property_value.py +98 -0
- arctrl/py/ROCrate/ISAProfile/sample.py +64 -0
- arctrl/py/ROCrate/ISAProfile/scholarly_article.py +98 -0
- arctrl/py/ROCrate/ISAProfile/study.py +74 -0
- arctrl/py/ROCrate/LDTypes/__init__.py +0 -0
- arctrl/py/ROCrate/LDTypes/comment.py +131 -0
- arctrl/py/ROCrate/LDTypes/computational_workflow.py +455 -0
- arctrl/py/ROCrate/LDTypes/computer_language.py +269 -0
- arctrl/py/ROCrate/LDTypes/create_action.py +303 -0
- arctrl/py/ROCrate/LDTypes/creative_work.py +566 -0
- arctrl/py/ROCrate/LDTypes/dataset.py +943 -0
- arctrl/py/ROCrate/LDTypes/defined_term.py +131 -0
- arctrl/py/ROCrate/LDTypes/file.py +281 -0
- arctrl/py/ROCrate/LDTypes/formal_parameter.py +431 -0
- arctrl/py/ROCrate/LDTypes/lab_process.py +352 -0
- arctrl/py/ROCrate/LDTypes/lab_protocol.py +395 -0
- arctrl/py/ROCrate/LDTypes/organization.py +83 -0
- arctrl/py/ROCrate/LDTypes/person.py +484 -0
- arctrl/py/ROCrate/LDTypes/postal_address.py +195 -0
- arctrl/py/ROCrate/LDTypes/property_value.py +952 -0
- arctrl/py/ROCrate/LDTypes/sample.py +202 -0
- arctrl/py/ROCrate/LDTypes/scholarly_article.py +229 -0
- arctrl/py/ROCrate/LDTypes/software_source_code.py +310 -0
- arctrl/py/ROCrate/LDTypes/workflow_invocation.py +48 -0
- arctrl/py/ROCrate/LDTypes/workflow_protocol.py +52 -0
- arctrl/py/ROCrate/__init__.py +0 -0
- arctrl/py/ROCrate/arc_rocrate_metadata.py +39 -0
- arctrl/py/ROCrate/dyn_obj_extensions.py +1 -0
- arctrl/py/ROCrate/helper.py +8 -0
- arctrl/py/ROCrate/ldcontext.py +406 -0
- arctrl/py/ROCrate/ldobject.py +1247 -0
- arctrl/py/ROCrate/rocrate_context.py +51 -0
- arctrl/py/Spreadsheet/AnnotationTable/__init__.py +0 -0
- arctrl/py/Spreadsheet/AnnotationTable/arc_table.py +203 -0
- arctrl/py/Spreadsheet/AnnotationTable/composite_cell.py +78 -0
- arctrl/py/Spreadsheet/AnnotationTable/composite_column.py +305 -0
- arctrl/py/Spreadsheet/AnnotationTable/composite_header.py +623 -0
- arctrl/py/Spreadsheet/DatamapTable/__init__.py +0 -0
- arctrl/py/Spreadsheet/DatamapTable/datamap_column.py +114 -0
- arctrl/py/Spreadsheet/DatamapTable/datamap_header.py +621 -0
- arctrl/py/Spreadsheet/DatamapTable/datamap_table.py +118 -0
- arctrl/py/Spreadsheet/Metadata/__init__.py +0 -0
- arctrl/py/Spreadsheet/Metadata/assays.py +125 -0
- arctrl/py/Spreadsheet/Metadata/comment.py +77 -0
- arctrl/py/Spreadsheet/Metadata/contacts.py +134 -0
- arctrl/py/Spreadsheet/Metadata/conversions.py +190 -0
- arctrl/py/Spreadsheet/Metadata/design_descriptors.py +34 -0
- arctrl/py/Spreadsheet/Metadata/factors.py +107 -0
- arctrl/py/Spreadsheet/Metadata/ontology_annotation.py +88 -0
- arctrl/py/Spreadsheet/Metadata/ontology_source_reference.py +96 -0
- arctrl/py/Spreadsheet/Metadata/protocols.py +146 -0
- arctrl/py/Spreadsheet/Metadata/publication.py +122 -0
- arctrl/py/Spreadsheet/Metadata/run.py +122 -0
- arctrl/py/Spreadsheet/Metadata/sparse_table.py +499 -0
- arctrl/py/Spreadsheet/Metadata/study.py +312 -0
- arctrl/py/Spreadsheet/Metadata/workflow.py +159 -0
- arctrl/py/Spreadsheet/__init__.py +0 -0
- arctrl/py/Spreadsheet/arc_assay.py +233 -0
- arctrl/py/Spreadsheet/arc_investigation.py +435 -0
- arctrl/py/Spreadsheet/arc_run.py +190 -0
- arctrl/py/Spreadsheet/arc_study.py +144 -0
- arctrl/py/Spreadsheet/arc_workflow.py +177 -0
- arctrl/py/Spreadsheet/assembly_info.py +1 -0
- arctrl/py/Spreadsheet/collection_aux.py +167 -0
- arctrl/py/Spreadsheet/datamap.py +43 -0
- arctrl/py/Spreadsheet/template.py +460 -0
- arctrl/py/ValidationPackages/__init__.py +0 -0
- arctrl/py/ValidationPackages/validation_package.py +82 -0
- arctrl/py/ValidationPackages/validation_packages_config.py +132 -0
- arctrl/py/WebRequest/__init__.py +0 -0
- arctrl/py/WebRequest/web_request.py +9 -0
- arctrl/py/WebRequest/web_request_py.py +135 -0
- arctrl/py/WorkflowGraph/__init__.py +0 -0
- arctrl/py/WorkflowGraph/adapters.py +141 -0
- arctrl/py/WorkflowGraph/build_options.py +45 -0
- arctrl/py/WorkflowGraph/builder.py +720 -0
- arctrl/py/WorkflowGraph/graph_types.py +260 -0
- arctrl/py/WorkflowGraph/query_helpers.py +76 -0
- arctrl/py/WorkflowGraph/reference_parsing.py +59 -0
- arctrl/py/WorkflowGraph/visualization_siren.py +574 -0
- arctrl/py/WorkflowGraph/workflow_graph.py +119 -0
- arctrl/py/Yaml/__init__.py +0 -0
- arctrl/py/Yaml/decode.py +1 -0
- arctrl/py/Yaml/encode.py +10 -0
- arctrl/py/Yaml/validation_package.py +77 -0
- arctrl/py/Yaml/validation_packages_config.py +86 -0
- arctrl/py/__init__.py +0 -0
- arctrl/py/arc.py +1891 -0
- arctrl/py/column_index.py +280 -0
- arctrl/py/conversion.py +142 -0
- arctrl/py/cross_async.py +76 -0
- arctrl/py/cwlrun_resolver.py +228 -0
- arctrl/py/fable_modules/dynamic_obj/__init__.py +0 -0
- arctrl/py/fable_modules/dynamic_obj/dyn_obj.py +136 -0
- arctrl/py/fable_modules/dynamic_obj/dynamic_obj.py +415 -0
- arctrl/py/fable_modules/dynamic_obj/fable_js.py +1 -0
- arctrl/py/fable_modules/dynamic_obj/fable_py.py +288 -0
- arctrl/py/fable_modules/dynamic_obj/hash_codes.py +82 -0
- arctrl/py/fable_modules/dynamic_obj/property_helper.py +25 -0
- arctrl/py/fable_modules/dynamic_obj/reflection_utils.py +87 -0
- arctrl/py/fable_modules/fable_library/__init__.py +0 -0
- arctrl/py/fable_modules/fable_library/array_.py +1528 -0
- arctrl/py/fable_modules/fable_library/async_.py +377 -0
- arctrl/py/fable_modules/fable_library/async_builder.py +379 -0
- arctrl/py/fable_modules/fable_library/big_int.py +330 -0
- arctrl/py/fable_modules/fable_library/bit_converter.py +131 -0
- arctrl/py/fable_modules/fable_library/boolean.py +26 -0
- arctrl/py/fable_modules/fable_library/char.py +237 -0
- arctrl/py/fable_modules/fable_library/choice.py +212 -0
- arctrl/py/fable_modules/fable_library/date.py +779 -0
- arctrl/py/fable_modules/fable_library/date_offset.py +79 -0
- arctrl/py/fable_modules/fable_library/decimal_.py +190 -0
- arctrl/py/fable_modules/fable_library/diagnostics.py +54 -0
- arctrl/py/fable_modules/fable_library/double.py +87 -0
- arctrl/py/fable_modules/fable_library/encoding.py +41 -0
- arctrl/py/fable_modules/fable_library/event.py +206 -0
- arctrl/py/fable_modules/fable_library/file.py +107 -0
- arctrl/py/fable_modules/fable_library/fsharp_collections.py +52 -0
- arctrl/py/fable_modules/fable_library/fsharp_core.py +123 -0
- arctrl/py/fable_modules/fable_library/global_.py +63 -0
- arctrl/py/fable_modules/fable_library/guid.py +41 -0
- arctrl/py/fable_modules/fable_library/int32.py +73 -0
- arctrl/py/fable_modules/fable_library/list.py +1788 -0
- arctrl/py/fable_modules/fable_library/long.py +240 -0
- arctrl/py/fable_modules/fable_library/mailbox_processor.py +179 -0
- arctrl/py/fable_modules/fable_library/map.py +1854 -0
- arctrl/py/fable_modules/fable_library/map_util.py +148 -0
- arctrl/py/fable_modules/fable_library/mutable_map.py +397 -0
- arctrl/py/fable_modules/fable_library/mutable_set.py +279 -0
- arctrl/py/fable_modules/fable_library/native.py +45 -0
- arctrl/py/fable_modules/fable_library/numeric.py +46 -0
- arctrl/py/fable_modules/fable_library/observable.py +222 -0
- arctrl/py/fable_modules/fable_library/option.py +128 -0
- arctrl/py/fable_modules/fable_library/path.py +62 -0
- arctrl/py/fable_modules/fable_library/range.py +117 -0
- arctrl/py/fable_modules/fable_library/reflection.py +463 -0
- arctrl/py/fable_modules/fable_library/reg_exp.py +137 -0
- arctrl/py/fable_modules/fable_library/resize_array.py +31 -0
- arctrl/py/fable_modules/fable_library/result.py +212 -0
- arctrl/py/fable_modules/fable_library/seq.py +1979 -0
- arctrl/py/fable_modules/fable_library/seq2.py +221 -0
- arctrl/py/fable_modules/fable_library/set.py +2414 -0
- arctrl/py/fable_modules/fable_library/singleton_local_time_zone.py +36 -0
- arctrl/py/fable_modules/fable_library/string_.py +573 -0
- arctrl/py/fable_modules/fable_library/system_collections_generic.py +462 -0
- arctrl/py/fable_modules/fable_library/system_text.py +237 -0
- arctrl/py/fable_modules/fable_library/task.py +116 -0
- arctrl/py/fable_modules/fable_library/task_builder.py +122 -0
- arctrl/py/fable_modules/fable_library/thread.py +5 -0
- arctrl/py/fable_modules/fable_library/time_span.py +283 -0
- arctrl/py/fable_modules/fable_library/timer.py +24 -0
- arctrl/py/fable_modules/fable_library/types.py +401 -0
- arctrl/py/fable_modules/fable_library/uri.py +109 -0
- arctrl/py/fable_modules/fable_library/util.py +2735 -0
- arctrl/py/fable_modules/fable_openpyxl/__init__.py +0 -0
- arctrl/py/fable_modules/fable_openpyxl/openpyxl.py +362 -0
- arctrl/py/fable_modules/fable_python/cognite-sdk/__init__.py +0 -0
- arctrl/py/fable_modules/fable_python/cognite-sdk/cognite_sdk.py +22 -0
- arctrl/py/fable_modules/fable_python/flask/__init__.py +0 -0
- arctrl/py/fable_modules/fable_python/flask/flask.py +34 -0
- arctrl/py/fable_modules/fable_python/jupyter/__init__.py +0 -0
- arctrl/py/fable_modules/fable_python/jupyter/ipy_widgets.py +47 -0
- arctrl/py/fable_modules/fable_python/jupyter/ipython.py +13 -0
- arctrl/py/fable_modules/fable_python/stdlib/__init__.py +0 -0
- arctrl/py/fable_modules/fable_python/stdlib/ast.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/asyncio/__init__.py +0 -0
- arctrl/py/fable_modules/fable_python/stdlib/asyncio/events.py +17 -0
- arctrl/py/fable_modules/fable_python/stdlib/asyncio/futures.py +52 -0
- arctrl/py/fable_modules/fable_python/stdlib/asyncio/tasks.py +38 -0
- arctrl/py/fable_modules/fable_python/stdlib/base64_.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/builtins_.py +38 -0
- arctrl/py/fable_modules/fable_python/stdlib/html.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/json.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/math_.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/os_.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/queue_.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/string_.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/sys_.py +30 -0
- arctrl/py/fable_modules/fable_python/stdlib/time_.py +1 -0
- arctrl/py/fable_modules/fable_python/stdlib/tk_inter.py +1 -0
- arctrl/py/fable_modules/fs_spreadsheet/Cells/__init__.py +0 -0
- arctrl/py/fable_modules/fs_spreadsheet/Cells/fs_cell.py +340 -0
- arctrl/py/fable_modules/fs_spreadsheet/Cells/fs_cells_collection.py +466 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/__init__.py +0 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/cell_builder.py +214 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/column_builder.py +139 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/dsl.py +50 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/expression.py +65 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/operators.py +9 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/row_builder.py +139 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/sheet_builder.py +118 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/table_builder.py +122 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/transform.py +463 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/types.py +314 -0
- arctrl/py/fable_modules/fs_spreadsheet/DSL/workbook_builder.py +106 -0
- arctrl/py/fable_modules/fs_spreadsheet/Json/__init__.py +0 -0
- arctrl/py/fable_modules/fs_spreadsheet/Json/cell.py +103 -0
- arctrl/py/fable_modules/fs_spreadsheet/Json/column.py +70 -0
- arctrl/py/fable_modules/fs_spreadsheet/Json/row.py +70 -0
- arctrl/py/fable_modules/fs_spreadsheet/Json/table.py +54 -0
- arctrl/py/fable_modules/fs_spreadsheet/Json/value.py +93 -0
- arctrl/py/fable_modules/fs_spreadsheet/Json/workbook.py +71 -0
- arctrl/py/fable_modules/fs_spreadsheet/Json/worksheet.py +216 -0
- arctrl/py/fable_modules/fs_spreadsheet/Ranges/__init__.py +0 -0
- arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range.py +43 -0
- arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range_address.py +190 -0
- arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range_base.py +92 -0
- arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range_column.py +77 -0
- arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range_row.py +48 -0
- arctrl/py/fable_modules/fs_spreadsheet/Tables/__init__.py +0 -0
- arctrl/py/fable_modules/fs_spreadsheet/Tables/fs_table.py +461 -0
- arctrl/py/fable_modules/fs_spreadsheet/Tables/fs_table_field.py +117 -0
- arctrl/py/fable_modules/fs_spreadsheet/Tables/fs_table_row.py +23 -0
- arctrl/py/fable_modules/fs_spreadsheet/__init__.py +0 -0
- arctrl/py/fable_modules/fs_spreadsheet/fs_address.py +236 -0
- arctrl/py/fable_modules/fs_spreadsheet/fs_column.py +172 -0
- arctrl/py/fable_modules/fs_spreadsheet/fs_row.py +183 -0
- arctrl/py/fable_modules/fs_spreadsheet/fs_workbook.py +192 -0
- arctrl/py/fable_modules/fs_spreadsheet/fs_worksheet.py +610 -0
- arctrl/py/fable_modules/fs_spreadsheet/hash_codes.py +60 -0
- arctrl/py/fable_modules/fs_spreadsheet/sheet_builder.py +329 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/__init__.py +0 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/cell.py +60 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/cell_type.py +50 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/fs_extension.py +60 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/json.py +47 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/table.py +54 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/workbook.py +41 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/worksheet.py +52 -0
- arctrl/py/fable_modules/fs_spreadsheet_py/xlsx.py +37 -0
- arctrl/py/fable_modules/siren/__init__.py +0 -0
- arctrl/py/fable_modules/siren/config.py +1038 -0
- arctrl/py/fable_modules/siren/formatting.py +1121 -0
- arctrl/py/fable_modules/siren/siren.py +1941 -0
- arctrl/py/fable_modules/siren/siren_types.py +1229 -0
- arctrl/py/fable_modules/siren/theme_variables.py +517 -0
- arctrl/py/fable_modules/siren/util.py +37 -0
- arctrl/py/fable_modules/siren/yaml.py +101 -0
- arctrl/py/fable_modules/thoth_json_core/__init__.py +0 -0
- arctrl/py/fable_modules/thoth_json_core/decode.py +1614 -0
- arctrl/py/fable_modules/thoth_json_core/encode.py +305 -0
- arctrl/py/fable_modules/thoth_json_core/types.py +181 -0
- arctrl/py/fable_modules/thoth_json_python/__init__.py +0 -0
- arctrl/py/fable_modules/thoth_json_python/decode.py +112 -0
- arctrl/py/fable_modules/thoth_json_python/encode.py +72 -0
- arctrl/py/fable_modules/thoth_json_python/python.py +1 -0
- arctrl/py/fable_modules/yamlicious/Interop/__init__.py +0 -0
- arctrl/py/fable_modules/yamlicious/Interop/js_interop.py +1 -0
- arctrl/py/fable_modules/yamlicious/Interop/py_interop.py +7 -0
- arctrl/py/fable_modules/yamlicious/__init__.py +0 -0
- arctrl/py/fable_modules/yamlicious/decode.py +1784 -0
- arctrl/py/fable_modules/yamlicious/encode.py +84 -0
- arctrl/py/fable_modules/yamlicious/flow_to_block.py +994 -0
- arctrl/py/fable_modules/yamlicious/library.py +10 -0
- arctrl/py/fable_modules/yamlicious/persil.py +57 -0
- arctrl/py/fable_modules/yamlicious/preprocessing.py +99 -0
- arctrl/py/fable_modules/yamlicious/reader.py +739 -0
- arctrl/py/fable_modules/yamlicious/regex.py +29 -0
- arctrl/py/fable_modules/yamlicious/regex_active_patterns.py +265 -0
- arctrl/py/fable_modules/yamlicious/writer.py +175 -0
- arctrl/py/fable_modules/yamlicious/yamlicious_types.py +128 -0
- arctrl/py/json.py +389 -0
- arctrl/py/license.py +169 -0
- arctrl/py/rocrate_io.py +242 -0
- arctrl/py/template_web.py +23 -0
- arctrl/py/xlsx.py +212 -0
- arctrl/py/yaml.py +79 -0
- arctrl/rocrate.py +21 -0
- arctrl-3.0.0.dist-info/METADATA +157 -0
- arctrl-3.0.0.dist-info/RECORD +511 -0
- arctrl-3.0.0.dist-info/WHEEL +4 -0
- arctrl-3.0.0.dist-info/licenses/LICENSE +21 -0
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from __future__ import annotations
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from collections.abc import Callable
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from dataclasses import dataclass
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from typing import Any
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from ..fable_modules.dynamic_obj.dynamic_obj import (DynamicObj, DynamicObj_reflection)
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from ..fable_modules.fable_library.option import to_array
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from ..fable_modules.fable_library.reflection import (TypeInfo, union_type, string_type, array_type, option_type, bool_type, record_type, obj_type, class_type)
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from ..fable_modules.fable_library.seq import (filter, iterate, try_find_index)
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from ..fable_modules.fable_library.types import (Array, Union, Record)
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from ..fable_modules.yamlicious.yamlicious_types import (YAMLElement, YAMLElement_reflection)
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from .requirements import (Requirement, HintEntry)
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def _expr760() -> TypeInfo:
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return union_type("ARCtrl.CWL.LinkMergeMethod", [], LinkMergeMethod, lambda: [[], []])
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@property
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def AsCwlString(self, __unit: None=None) -> str:
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this: LinkMergeMethod = self
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return "merge_flattened" if (this.tag == 1) else "merge_nested"
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def try_parse(value: str) -> LinkMergeMethod | None:
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LinkMergeMethod_reflection = _expr760
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def try_parse(value: str) -> PickValueMethod | None:
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return ScatterMethod(0) if (value == "dotproduct") else (ScatterMethod(1) if (value == "nested_crossproduct") else (ScatterMethod(2) if (value == "flat_crossproduct") else None))
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return record_type("ARCtrl.CWL.StepInput", [], StepInput, lambda: [("Id", string_type), ("Source", option_type(array_type(string_type))), ("DefaultValue", option_type(YAMLElement_reflection())), ("ValueFrom", option_type(string_type)), ("LinkMerge", option_type(LinkMergeMethod_reflection())), ("PickValue", option_type(PickValueMethod_reflection())), ("Doc", option_type(string_type)), ("LoadContents", option_type(bool_type)), ("LoadListing", option_type(string_type)), ("Label", option_type(string_type))])
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Id: str
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DefaultValue: YAMLElement | None
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ValueFrom: str | None
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LinkMerge: LinkMergeMethod | None
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PickValue: PickValueMethod | None
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Doc: str | None
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LoadContents: bool | None
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LoadListing: str | None
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Label: str | None
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@staticmethod
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def create(id: str, source: Array[str] | None=None, default_value: YAMLElement | None=None, value_from: str | None=None, link_merge: LinkMergeMethod | None=None, pick_value: PickValueMethod | None=None, doc: str | None=None, load_contents: bool | None=None, load_listing: str | None=None, label: str | None=None) -> StepInput:
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return StepInput(id, source, default_value, value_from, link_merge, pick_value, doc, load_contents, load_listing, label)
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def update_at(index: int, f: Callable[[StepInput], StepInput], inputs: Array[StepInput]) -> None:
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if True if (index < 0) else (index >= len(inputs)):
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raise Exception(((("StepInput index " + str(index)) + " is out of range.") + "\\nParameter name: ") + "index")
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inputs[index] = f(inputs[index])
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StepInput_reflection = _expr763
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def _expr764() -> TypeInfo:
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return record_type("ARCtrl.CWL.StepOutputParameter", [], StepOutputParameter, lambda: [("Id", string_type)])
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class StepOutputParameter(Record):
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Id: str
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@staticmethod
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def create(id: str) -> StepOutputParameter:
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return StepOutputParameter(id)
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StepOutputParameter_reflection = _expr764
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def _expr765() -> TypeInfo:
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return union_type("ARCtrl.CWL.StepOutput", [], StepOutput, lambda: [[("Item", string_type)], [("Item", StepOutputParameter_reflection())]])
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class StepOutput(Union):
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def __init__(self, tag: int, *fields: Any) -> None:
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super().__init__()
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self.tag: int = tag or 0
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self.fields: Array[Any] = list(fields)
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@staticmethod
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def cases() -> list[str]:
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return ["StepOutputString", "StepOutputRecord"]
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|
|
166
|
+
StepOutput_reflection = _expr765
|
|
167
|
+
|
|
168
|
+
def _expr766() -> TypeInfo:
|
|
169
|
+
return union_type("ARCtrl.CWL.WorkflowStepRun", [], WorkflowStepRun, lambda: [[("Item", string_type)], [("Item", obj_type)], [("Item", obj_type)], [("Item", obj_type)], [("Item", obj_type)]])
|
|
170
|
+
|
|
171
|
+
|
|
172
|
+
class WorkflowStepRun(Union):
|
|
173
|
+
def __init__(self, tag: int, *fields: Any) -> None:
|
|
174
|
+
super().__init__()
|
|
175
|
+
self.tag: int = tag or 0
|
|
176
|
+
self.fields: Array[Any] = list(fields)
|
|
177
|
+
|
|
178
|
+
@staticmethod
|
|
179
|
+
def cases() -> list[str]:
|
|
180
|
+
return ["RunString", "RunCommandLineTool", "RunWorkflow", "RunExpressionTool", "RunOperation"]
|
|
181
|
+
|
|
182
|
+
|
|
183
|
+
WorkflowStepRun_reflection = _expr766
|
|
184
|
+
|
|
185
|
+
def _expr767() -> TypeInfo:
|
|
186
|
+
return class_type("ARCtrl.CWL.WorkflowStep", None, WorkflowStep, DynamicObj_reflection())
|
|
187
|
+
|
|
188
|
+
|
|
189
|
+
class WorkflowStep(DynamicObj):
|
|
190
|
+
def __init__(self, id: str, in_: Array[StepInput], out_: Array[StepOutput], run: WorkflowStepRun, label: str | None=None, doc: str | None=None, scatter: Array[str] | None=None, scatter_method: ScatterMethod | None=None, when_: str | None=None, requirements: Array[Requirement] | None=None, hints: Array[HintEntry] | None=None) -> None:
|
|
191
|
+
super().__init__()
|
|
192
|
+
self._id: str = id
|
|
193
|
+
self._in: Array[StepInput] = in_
|
|
194
|
+
self._out: Array[StepOutput] = out_
|
|
195
|
+
self._run: WorkflowStepRun = run
|
|
196
|
+
self._label: str | None = label
|
|
197
|
+
self._doc: str | None = doc
|
|
198
|
+
self._scatter: Array[str] | None = scatter
|
|
199
|
+
self._scatterMethod: ScatterMethod | None = scatter_method
|
|
200
|
+
self._when: str | None = when_
|
|
201
|
+
self._requirements: Array[Requirement] | None = requirements
|
|
202
|
+
self._hints: Array[HintEntry] | None = hints
|
|
203
|
+
|
|
204
|
+
@property
|
|
205
|
+
def Id(self, __unit: None=None) -> str:
|
|
206
|
+
this: WorkflowStep = self
|
|
207
|
+
return this._id
|
|
208
|
+
|
|
209
|
+
@Id.setter
|
|
210
|
+
def Id(self, id: str) -> None:
|
|
211
|
+
this: WorkflowStep = self
|
|
212
|
+
this._id = id
|
|
213
|
+
|
|
214
|
+
@property
|
|
215
|
+
def In(self, __unit: None=None) -> Array[StepInput]:
|
|
216
|
+
this: WorkflowStep = self
|
|
217
|
+
return this._in
|
|
218
|
+
|
|
219
|
+
@In.setter
|
|
220
|
+
def In(self, in_: Array[StepInput]) -> None:
|
|
221
|
+
this: WorkflowStep = self
|
|
222
|
+
this._in = in_
|
|
223
|
+
|
|
224
|
+
@property
|
|
225
|
+
def Out(self, __unit: None=None) -> Array[StepOutput]:
|
|
226
|
+
this: WorkflowStep = self
|
|
227
|
+
return this._out
|
|
228
|
+
|
|
229
|
+
@Out.setter
|
|
230
|
+
def Out(self, out_: Array[StepOutput]) -> None:
|
|
231
|
+
this: WorkflowStep = self
|
|
232
|
+
this._out = out_
|
|
233
|
+
|
|
234
|
+
@property
|
|
235
|
+
def Run(self, __unit: None=None) -> WorkflowStepRun:
|
|
236
|
+
this: WorkflowStep = self
|
|
237
|
+
return this._run
|
|
238
|
+
|
|
239
|
+
@Run.setter
|
|
240
|
+
def Run(self, run: WorkflowStepRun) -> None:
|
|
241
|
+
this: WorkflowStep = self
|
|
242
|
+
this._run = run
|
|
243
|
+
|
|
244
|
+
@property
|
|
245
|
+
def Label(self, __unit: None=None) -> str | None:
|
|
246
|
+
this: WorkflowStep = self
|
|
247
|
+
return this._label
|
|
248
|
+
|
|
249
|
+
@Label.setter
|
|
250
|
+
def Label(self, label: str | None=None) -> None:
|
|
251
|
+
this: WorkflowStep = self
|
|
252
|
+
this._label = label
|
|
253
|
+
|
|
254
|
+
@property
|
|
255
|
+
def Doc(self, __unit: None=None) -> str | None:
|
|
256
|
+
this: WorkflowStep = self
|
|
257
|
+
return this._doc
|
|
258
|
+
|
|
259
|
+
@Doc.setter
|
|
260
|
+
def Doc(self, doc: str | None=None) -> None:
|
|
261
|
+
this: WorkflowStep = self
|
|
262
|
+
this._doc = doc
|
|
263
|
+
|
|
264
|
+
@property
|
|
265
|
+
def Scatter(self, __unit: None=None) -> Array[str] | None:
|
|
266
|
+
this: WorkflowStep = self
|
|
267
|
+
return this._scatter
|
|
268
|
+
|
|
269
|
+
@Scatter.setter
|
|
270
|
+
def Scatter(self, scatter: Array[str] | None=None) -> None:
|
|
271
|
+
this: WorkflowStep = self
|
|
272
|
+
this._scatter = scatter
|
|
273
|
+
|
|
274
|
+
@property
|
|
275
|
+
def ScatterMethod(self, __unit: None=None) -> ScatterMethod | None:
|
|
276
|
+
this: WorkflowStep = self
|
|
277
|
+
return this._scatterMethod
|
|
278
|
+
|
|
279
|
+
@ScatterMethod.setter
|
|
280
|
+
def ScatterMethod(self, scatter_method: ScatterMethod | None=None) -> None:
|
|
281
|
+
this: WorkflowStep = self
|
|
282
|
+
this._scatterMethod = scatter_method
|
|
283
|
+
|
|
284
|
+
@property
|
|
285
|
+
def When_(self, __unit: None=None) -> str | None:
|
|
286
|
+
this: WorkflowStep = self
|
|
287
|
+
return this._when
|
|
288
|
+
|
|
289
|
+
@When_.setter
|
|
290
|
+
def When_(self, when_: str | None=None) -> None:
|
|
291
|
+
this: WorkflowStep = self
|
|
292
|
+
this._when = when_
|
|
293
|
+
|
|
294
|
+
@property
|
|
295
|
+
def Requirements(self, __unit: None=None) -> Array[Requirement] | None:
|
|
296
|
+
this: WorkflowStep = self
|
|
297
|
+
return this._requirements
|
|
298
|
+
|
|
299
|
+
@Requirements.setter
|
|
300
|
+
def Requirements(self, requirements: Array[Requirement] | None=None) -> None:
|
|
301
|
+
this: WorkflowStep = self
|
|
302
|
+
this._requirements = requirements
|
|
303
|
+
|
|
304
|
+
@property
|
|
305
|
+
def Hints(self, __unit: None=None) -> Array[HintEntry] | None:
|
|
306
|
+
this: WorkflowStep = self
|
|
307
|
+
return this._hints
|
|
308
|
+
|
|
309
|
+
@Hints.setter
|
|
310
|
+
def Hints(self, hints: Array[HintEntry] | None=None) -> None:
|
|
311
|
+
this: WorkflowStep = self
|
|
312
|
+
this._hints = hints
|
|
313
|
+
|
|
314
|
+
@staticmethod
|
|
315
|
+
def from_run_path(id: str, in_: Array[StepInput], out_: Array[StepOutput], run_path: str, label: str | None=None, doc: str | None=None, scatter: Array[str] | None=None, scatter_method: ScatterMethod | None=None, when_: str | None=None, requirements: Array[Requirement] | None=None, hints: Array[HintEntry] | None=None) -> WorkflowStep:
|
|
316
|
+
return WorkflowStep(id, in_, out_, WorkflowStepRun(0, run_path), label, doc, scatter, scatter_method, when_, requirements, hints)
|
|
317
|
+
|
|
318
|
+
@staticmethod
|
|
319
|
+
def update_input_at(index: int, f: Callable[[StepInput], StepInput], step: WorkflowStep) -> None:
|
|
320
|
+
inputs: Array[StepInput] = step.In
|
|
321
|
+
StepInput.update_at(index, f, inputs)
|
|
322
|
+
|
|
323
|
+
@staticmethod
|
|
324
|
+
def add_input(input: StepInput, step: WorkflowStep) -> None:
|
|
325
|
+
(step.In.append(input))
|
|
326
|
+
|
|
327
|
+
@staticmethod
|
|
328
|
+
def remove_inputs_by_id(id: str, step: WorkflowStep) -> None:
|
|
329
|
+
def predicate(i: StepInput) -> bool:
|
|
330
|
+
return i.Id != id
|
|
331
|
+
|
|
332
|
+
remaining: Array[StepInput] = list(filter(predicate, step.In))
|
|
333
|
+
step.In = remaining
|
|
334
|
+
|
|
335
|
+
@staticmethod
|
|
336
|
+
def update_input_by_id(id: str, f: Callable[[StepInput], StepInput], step: WorkflowStep) -> None:
|
|
337
|
+
def action(i_1: int) -> None:
|
|
338
|
+
inputs: Array[StepInput] = step.In
|
|
339
|
+
StepInput.update_at(i_1, f, inputs)
|
|
340
|
+
|
|
341
|
+
def predicate(i: StepInput) -> bool:
|
|
342
|
+
return i.Id == id
|
|
343
|
+
|
|
344
|
+
iterate(action, to_array(try_find_index(predicate, step.In)))
|
|
345
|
+
|
|
346
|
+
|
|
347
|
+
WorkflowStep_reflection = _expr767
|
|
348
|
+
|
|
349
|
+
def WorkflowStep__ctor_Z76380C57(id: str, in_: Array[StepInput], out_: Array[StepOutput], run: WorkflowStepRun, label: str | None=None, doc: str | None=None, scatter: Array[str] | None=None, scatter_method: ScatterMethod | None=None, when_: str | None=None, requirements: Array[Requirement] | None=None, hints: Array[HintEntry] | None=None) -> WorkflowStep:
|
|
350
|
+
return WorkflowStep(id, in_, out_, run, label, doc, scatter, scatter_method, when_, requirements, hints)
|
|
351
|
+
|
|
352
|
+
|
|
353
|
+
__all__ = ["LinkMergeMethod_reflection", "PickValueMethod_reflection", "ScatterMethod_reflection", "StepInput_reflection", "StepOutputParameter_reflection", "StepOutput_reflection", "WorkflowStepRun_reflection", "WorkflowStep_reflection"]
|
|
354
|
+
|
|
File without changes
|
|
@@ -0,0 +1,89 @@
|
|
|
1
|
+
from __future__ import annotations
|
|
2
|
+
from ..fable_modules.fable_library.types import Array
|
|
3
|
+
from ..FileSystem.path import split as split_1
|
|
4
|
+
from .arc_assay import _007CAssayPath_007C__007C
|
|
5
|
+
from .arc_investigation import _007CInvestigationPath_007C__007C
|
|
6
|
+
from .arc_run import (_007CRunPath_007C__007C, _007CRunCWLPath_007C__007C, _007CRunYMLPath_007C__007C)
|
|
7
|
+
from .arc_study import _007CStudyPath_007C__007C
|
|
8
|
+
from .arc_workflow import (_007CWorkflowPath_007C__007C, _007CWorkflowCWLPath_007C__007C)
|
|
9
|
+
from .contract import (Contract, DTOType)
|
|
10
|
+
from .datamap import _007CDatamapPath_007C__007C
|
|
11
|
+
from .license import LicenseContractExtensions__007CLicensePath_007C__007C
|
|
12
|
+
|
|
13
|
+
def try_isaread_contract_from_path(path: str) -> Contract | None:
|
|
14
|
+
split: Array[str] = split_1(path)
|
|
15
|
+
active_pattern_result: str | None = _007CInvestigationPath_007C__007C(split)
|
|
16
|
+
if active_pattern_result is not None:
|
|
17
|
+
p: str = active_pattern_result
|
|
18
|
+
return Contract.create_read(p, DTOType(4))
|
|
19
|
+
|
|
20
|
+
else:
|
|
21
|
+
active_pattern_result_1: str | None = _007CAssayPath_007C__007C(split)
|
|
22
|
+
if active_pattern_result_1 is not None:
|
|
23
|
+
p_1: str = active_pattern_result_1
|
|
24
|
+
return Contract.create_read(p_1, DTOType(0))
|
|
25
|
+
|
|
26
|
+
else:
|
|
27
|
+
active_pattern_result_2: str | None = _007CStudyPath_007C__007C(split)
|
|
28
|
+
if active_pattern_result_2 is not None:
|
|
29
|
+
p_2: str = active_pattern_result_2
|
|
30
|
+
return Contract.create_read(p_2, DTOType(1))
|
|
31
|
+
|
|
32
|
+
else:
|
|
33
|
+
active_pattern_result_3: str | None = _007CWorkflowPath_007C__007C(split)
|
|
34
|
+
if active_pattern_result_3 is not None:
|
|
35
|
+
p_3: str = active_pattern_result_3
|
|
36
|
+
return Contract.create_read(p_3, DTOType(2))
|
|
37
|
+
|
|
38
|
+
else:
|
|
39
|
+
active_pattern_result_4: str | None = _007CWorkflowCWLPath_007C__007C(split)
|
|
40
|
+
if active_pattern_result_4 is not None:
|
|
41
|
+
p_4: str = active_pattern_result_4
|
|
42
|
+
return Contract.create_read(p_4, DTOType(8))
|
|
43
|
+
|
|
44
|
+
else:
|
|
45
|
+
active_pattern_result_5: str | None = _007CRunPath_007C__007C(split)
|
|
46
|
+
if active_pattern_result_5 is not None:
|
|
47
|
+
p_5: str = active_pattern_result_5
|
|
48
|
+
return Contract.create_read(p_5, DTOType(3))
|
|
49
|
+
|
|
50
|
+
else:
|
|
51
|
+
active_pattern_result_6: str | None = _007CRunCWLPath_007C__007C(split)
|
|
52
|
+
if active_pattern_result_6 is not None:
|
|
53
|
+
p_6: str = active_pattern_result_6
|
|
54
|
+
return Contract.create_read(p_6, DTOType(8))
|
|
55
|
+
|
|
56
|
+
else:
|
|
57
|
+
active_pattern_result_7: str | None = _007CRunYMLPath_007C__007C(split)
|
|
58
|
+
if active_pattern_result_7 is not None:
|
|
59
|
+
p_7: str = active_pattern_result_7
|
|
60
|
+
return Contract.create_read(p_7, DTOType(9))
|
|
61
|
+
|
|
62
|
+
else:
|
|
63
|
+
active_pattern_result_8: str | None = _007CDatamapPath_007C__007C(split)
|
|
64
|
+
if active_pattern_result_8 is not None:
|
|
65
|
+
p_8: str = active_pattern_result_8
|
|
66
|
+
return Contract.create_read(p_8, DTOType(5))
|
|
67
|
+
|
|
68
|
+
else:
|
|
69
|
+
active_pattern_result_9: str | None = LicenseContractExtensions__007CLicensePath_007C__007C(split)
|
|
70
|
+
if active_pattern_result_9 is not None:
|
|
71
|
+
p_9: str = active_pattern_result_9
|
|
72
|
+
return Contract.create_read(p_9, DTOType(10))
|
|
73
|
+
|
|
74
|
+
else:
|
|
75
|
+
return None
|
|
76
|
+
|
|
77
|
+
|
|
78
|
+
|
|
79
|
+
|
|
80
|
+
|
|
81
|
+
|
|
82
|
+
|
|
83
|
+
|
|
84
|
+
|
|
85
|
+
|
|
86
|
+
|
|
87
|
+
|
|
88
|
+
__all__ = ["try_isaread_contract_from_path"]
|
|
89
|
+
|
|
@@ -0,0 +1,125 @@
|
|
|
1
|
+
from __future__ import annotations
|
|
2
|
+
from typing import Any
|
|
3
|
+
from ..fable_modules.fable_library.array_ import equals_with
|
|
4
|
+
from ..fable_modules.fable_library.option import default_arg
|
|
5
|
+
from ..fable_modules.fable_library.seq import (to_array, delay, append, collect, singleton, empty)
|
|
6
|
+
from ..fable_modules.fable_library.types import Array
|
|
7
|
+
from ..fable_modules.fable_library.util import IEnumerable_1
|
|
8
|
+
from ..Core.arc_types import ArcAssay
|
|
9
|
+
from ..Core.Helper.identifier import Assay_fileNameFromIdentifier
|
|
10
|
+
from ..FileSystem.file_system_tree import FileSystemTree
|
|
11
|
+
from ..FileSystem.path import (combine_many, get_assay_folder_path)
|
|
12
|
+
from ..Spreadsheet.arc_assay import (ARCtrl_ArcAssay__ArcAssay_toFsWorkbook_Static_Z2508BE4F, ARCtrl_ArcAssay__ArcAssay_fromFsWorkbook_Static_32154C9D)
|
|
13
|
+
from .contract import (Contract, DTOType, DTO)
|
|
14
|
+
|
|
15
|
+
def _007CAssayPath_007C__007C(input: Array[str]) -> str | None:
|
|
16
|
+
(pattern_matching_result,) = (None,)
|
|
17
|
+
def _arrow4139(x: str, y: str, input: Any=input) -> bool:
|
|
18
|
+
return x == y
|
|
19
|
+
|
|
20
|
+
if (len(input) == 3) if (not equals_with(_arrow4139, input, None)) else False:
|
|
21
|
+
if input[0] == "assays":
|
|
22
|
+
if input[2] == "isa.assay.xlsx":
|
|
23
|
+
pattern_matching_result = 0
|
|
24
|
+
|
|
25
|
+
else:
|
|
26
|
+
pattern_matching_result = 1
|
|
27
|
+
|
|
28
|
+
|
|
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|
+
else:
|
|
30
|
+
pattern_matching_result = 1
|
|
31
|
+
|
|
32
|
+
|
|
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|
+
else:
|
|
34
|
+
pattern_matching_result = 1
|
|
35
|
+
|
|
36
|
+
if pattern_matching_result == 0:
|
|
37
|
+
any_assay_name: str = input[1]
|
|
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|
+
return combine_many(input)
|
|
39
|
+
|
|
40
|
+
elif pattern_matching_result == 1:
|
|
41
|
+
return None
|
|
42
|
+
|
|
43
|
+
|
|
44
|
+
|
|
45
|
+
def ARCtrl_ArcAssay__ArcAssay_ToCreateContract_6FCE9E49(this: ArcAssay, WithFolder: bool | None=None) -> Array[Contract]:
|
|
46
|
+
with_folder: bool = default_arg(WithFolder, False)
|
|
47
|
+
path: str = Assay_fileNameFromIdentifier(this.Identifier)
|
|
48
|
+
c: Contract = Contract.create_create(path, DTOType(0), DTO(0, ARCtrl_ArcAssay__ArcAssay_toFsWorkbook_Static_Z2508BE4F(this)))
|
|
49
|
+
def _arrow4143(__unit: None=None, this: Any=this, WithFolder: Any=WithFolder) -> IEnumerable_1[Contract]:
|
|
50
|
+
def _arrow4141(__unit: None=None) -> IEnumerable_1[Contract]:
|
|
51
|
+
folder_fs: FileSystemTree = FileSystemTree.create_assays_folder([FileSystemTree.create_assay_folder(this.Identifier)])
|
|
52
|
+
def _arrow4140(p: str) -> IEnumerable_1[Contract]:
|
|
53
|
+
return singleton(Contract.create_create(p, DTOType(10))) if ((p != "assays/.gitkeep") if (p != path) else False) else empty()
|
|
54
|
+
|
|
55
|
+
return collect(_arrow4140, folder_fs.ToFilePaths(False))
|
|
56
|
+
|
|
57
|
+
def _arrow4142(__unit: None=None) -> IEnumerable_1[Contract]:
|
|
58
|
+
return singleton(c)
|
|
59
|
+
|
|
60
|
+
return append(_arrow4141() if with_folder else empty(), delay(_arrow4142))
|
|
61
|
+
|
|
62
|
+
return to_array(delay(_arrow4143))
|
|
63
|
+
|
|
64
|
+
|
|
65
|
+
def ARCtrl_ArcAssay__ArcAssay_ToUpdateContract(this: ArcAssay) -> Contract:
|
|
66
|
+
path: str = Assay_fileNameFromIdentifier(this.Identifier)
|
|
67
|
+
return Contract.create_update(path, DTOType(0), DTO(0, ARCtrl_ArcAssay__ArcAssay_toFsWorkbook_Static_Z2508BE4F(this)))
|
|
68
|
+
|
|
69
|
+
|
|
70
|
+
def ARCtrl_ArcAssay__ArcAssay_ToDeleteContract(this: ArcAssay) -> Contract:
|
|
71
|
+
path: str = get_assay_folder_path(this.Identifier)
|
|
72
|
+
return Contract.create_delete(path)
|
|
73
|
+
|
|
74
|
+
|
|
75
|
+
def ARCtrl_ArcAssay__ArcAssay_toDeleteContract_Static_1501C0F8(assay: ArcAssay) -> Contract:
|
|
76
|
+
return ARCtrl_ArcAssay__ArcAssay_ToDeleteContract(assay)
|
|
77
|
+
|
|
78
|
+
|
|
79
|
+
def ARCtrl_ArcAssay__ArcAssay_toCreateContract_Static_Z2508BE4F(assay: ArcAssay, WithFolder: bool | None=None) -> Array[Contract]:
|
|
80
|
+
return ARCtrl_ArcAssay__ArcAssay_ToCreateContract_6FCE9E49(assay, WithFolder)
|
|
81
|
+
|
|
82
|
+
|
|
83
|
+
def ARCtrl_ArcAssay__ArcAssay_toUpdateContract_Static_1501C0F8(assay: ArcAssay) -> Contract:
|
|
84
|
+
return ARCtrl_ArcAssay__ArcAssay_ToUpdateContract(assay)
|
|
85
|
+
|
|
86
|
+
|
|
87
|
+
def ARCtrl_ArcAssay__ArcAssay_tryFromReadContract_Static_7570923F(c: Contract) -> ArcAssay | None:
|
|
88
|
+
(pattern_matching_result, fsworkbook) = (None, None)
|
|
89
|
+
if c.Operation == "READ":
|
|
90
|
+
if c.DTOType is not None:
|
|
91
|
+
if c.DTOType.tag == 0:
|
|
92
|
+
if c.DTO is not None:
|
|
93
|
+
if c.DTO.tag == 0:
|
|
94
|
+
pattern_matching_result = 0
|
|
95
|
+
fsworkbook = c.DTO.fields[0]
|
|
96
|
+
|
|
97
|
+
else:
|
|
98
|
+
pattern_matching_result = 1
|
|
99
|
+
|
|
100
|
+
|
|
101
|
+
else:
|
|
102
|
+
pattern_matching_result = 1
|
|
103
|
+
|
|
104
|
+
|
|
105
|
+
else:
|
|
106
|
+
pattern_matching_result = 1
|
|
107
|
+
|
|
108
|
+
|
|
109
|
+
else:
|
|
110
|
+
pattern_matching_result = 1
|
|
111
|
+
|
|
112
|
+
|
|
113
|
+
else:
|
|
114
|
+
pattern_matching_result = 1
|
|
115
|
+
|
|
116
|
+
if pattern_matching_result == 0:
|
|
117
|
+
return ARCtrl_ArcAssay__ArcAssay_fromFsWorkbook_Static_32154C9D(fsworkbook)
|
|
118
|
+
|
|
119
|
+
elif pattern_matching_result == 1:
|
|
120
|
+
return None
|
|
121
|
+
|
|
122
|
+
|
|
123
|
+
|
|
124
|
+
__all__ = ["_007CAssayPath_007C__007C", "ARCtrl_ArcAssay__ArcAssay_ToCreateContract_6FCE9E49", "ARCtrl_ArcAssay__ArcAssay_ToUpdateContract", "ARCtrl_ArcAssay__ArcAssay_ToDeleteContract", "ARCtrl_ArcAssay__ArcAssay_toDeleteContract_Static_1501C0F8", "ARCtrl_ArcAssay__ArcAssay_toCreateContract_Static_Z2508BE4F", "ARCtrl_ArcAssay__ArcAssay_toUpdateContract_Static_1501C0F8", "ARCtrl_ArcAssay__ArcAssay_tryFromReadContract_Static_7570923F"]
|
|
125
|
+
|
|
@@ -0,0 +1,88 @@
|
|
|
1
|
+
from __future__ import annotations
|
|
2
|
+
from typing import Any
|
|
3
|
+
from ..fable_modules.fable_library.array_ import equals_with
|
|
4
|
+
from ..fable_modules.fable_library.types import Array
|
|
5
|
+
from ..Core.arc_types import ArcInvestigation
|
|
6
|
+
from ..FileSystem.path import combine_many
|
|
7
|
+
from ..Spreadsheet.arc_investigation import (ARCtrl_ArcInvestigation__ArcInvestigation_toFsWorkbook_Static_Z720BD3FF, ARCtrl_ArcInvestigation__ArcInvestigation_fromFsWorkbook_Static_32154C9D)
|
|
8
|
+
from .contract import (Contract, DTOType, DTO)
|
|
9
|
+
|
|
10
|
+
def _007CInvestigationPath_007C__007C(input: Array[str]) -> str | None:
|
|
11
|
+
(pattern_matching_result,) = (None,)
|
|
12
|
+
def _arrow4169(x: str, y: str, input: Any=input) -> bool:
|
|
13
|
+
return x == y
|
|
14
|
+
|
|
15
|
+
if (len(input) == 1) if (not equals_with(_arrow4169, input, None)) else False:
|
|
16
|
+
if input[0] == "isa.investigation.xlsx":
|
|
17
|
+
pattern_matching_result = 0
|
|
18
|
+
|
|
19
|
+
else:
|
|
20
|
+
pattern_matching_result = 1
|
|
21
|
+
|
|
22
|
+
|
|
23
|
+
else:
|
|
24
|
+
pattern_matching_result = 1
|
|
25
|
+
|
|
26
|
+
if pattern_matching_result == 0:
|
|
27
|
+
return combine_many(input)
|
|
28
|
+
|
|
29
|
+
elif pattern_matching_result == 1:
|
|
30
|
+
return None
|
|
31
|
+
|
|
32
|
+
|
|
33
|
+
|
|
34
|
+
def ARCtrl_ArcInvestigation__ArcInvestigation_ToCreateContract(this: ArcInvestigation) -> Contract:
|
|
35
|
+
return Contract.create_create("isa.investigation.xlsx", DTOType(4), DTO(0, ARCtrl_ArcInvestigation__ArcInvestigation_toFsWorkbook_Static_Z720BD3FF(this)))
|
|
36
|
+
|
|
37
|
+
|
|
38
|
+
def ARCtrl_ArcInvestigation__ArcInvestigation_ToUpdateContract(this: ArcInvestigation) -> Contract:
|
|
39
|
+
return Contract.create_update("isa.investigation.xlsx", DTOType(4), DTO(0, ARCtrl_ArcInvestigation__ArcInvestigation_toFsWorkbook_Static_Z720BD3FF(this)))
|
|
40
|
+
|
|
41
|
+
|
|
42
|
+
def ARCtrl_ArcInvestigation__ArcInvestigation_toCreateContract_Static_Z720BD3FF(inv: ArcInvestigation) -> Contract:
|
|
43
|
+
return ARCtrl_ArcInvestigation__ArcInvestigation_ToCreateContract(inv)
|
|
44
|
+
|
|
45
|
+
|
|
46
|
+
def ARCtrl_ArcInvestigation__ArcInvestigation_toUpdateContract_Static_Z720BD3FF(inv: ArcInvestigation) -> Contract:
|
|
47
|
+
return ARCtrl_ArcInvestigation__ArcInvestigation_ToUpdateContract(inv)
|
|
48
|
+
|
|
49
|
+
|
|
50
|
+
def ARCtrl_ArcInvestigation__ArcInvestigation_tryFromReadContract_Static_7570923F(c: Contract) -> ArcInvestigation | None:
|
|
51
|
+
(pattern_matching_result, fsworkbook) = (None, None)
|
|
52
|
+
if c.Operation == "READ":
|
|
53
|
+
if c.DTOType is not None:
|
|
54
|
+
if c.DTOType.tag == 4:
|
|
55
|
+
if c.DTO is not None:
|
|
56
|
+
if c.DTO.tag == 0:
|
|
57
|
+
pattern_matching_result = 0
|
|
58
|
+
fsworkbook = c.DTO.fields[0]
|
|
59
|
+
|
|
60
|
+
else:
|
|
61
|
+
pattern_matching_result = 1
|
|
62
|
+
|
|
63
|
+
|
|
64
|
+
else:
|
|
65
|
+
pattern_matching_result = 1
|
|
66
|
+
|
|
67
|
+
|
|
68
|
+
else:
|
|
69
|
+
pattern_matching_result = 1
|
|
70
|
+
|
|
71
|
+
|
|
72
|
+
else:
|
|
73
|
+
pattern_matching_result = 1
|
|
74
|
+
|
|
75
|
+
|
|
76
|
+
else:
|
|
77
|
+
pattern_matching_result = 1
|
|
78
|
+
|
|
79
|
+
if pattern_matching_result == 0:
|
|
80
|
+
return ARCtrl_ArcInvestigation__ArcInvestigation_fromFsWorkbook_Static_32154C9D(fsworkbook)
|
|
81
|
+
|
|
82
|
+
elif pattern_matching_result == 1:
|
|
83
|
+
return None
|
|
84
|
+
|
|
85
|
+
|
|
86
|
+
|
|
87
|
+
__all__ = ["_007CInvestigationPath_007C__007C", "ARCtrl_ArcInvestigation__ArcInvestigation_ToCreateContract", "ARCtrl_ArcInvestigation__ArcInvestigation_ToUpdateContract", "ARCtrl_ArcInvestigation__ArcInvestigation_toCreateContract_Static_Z720BD3FF", "ARCtrl_ArcInvestigation__ArcInvestigation_toUpdateContract_Static_Z720BD3FF", "ARCtrl_ArcInvestigation__ArcInvestigation_tryFromReadContract_Static_7570923F"]
|
|
88
|
+
|