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 typing import (Any, TypeVar)
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from ...fable_modules.fable_library.array_ import (map as map_1, unzip)
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from ...fable_modules.fable_library.list import (reverse, map, FSharpList, fold, singleton, cons, is_empty, head, tail, empty, of_array, to_array, exists, collect as collect_1, sort_by, of_seq, length, iterate_indexed)
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from ...fable_modules.fable_library.map_util import add_to_dict
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from ...fable_modules.fable_library.range import range_big_int
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from ...fable_modules.fable_library.reflection import enum_type
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from ...fable_modules.fable_library.seq import (try_find, to_array as to_array_1, delay, map as map_2, collect, singleton as singleton_1, fold as fold_1)
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from ...fable_modules.fable_library.string_ import (starts_with_exact, to_fail, printf)
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from ...fable_modules.fable_library.types import Array
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from ...fable_modules.fable_library.util import (IEnumerable_1, compare_primitives, max)
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from ...fable_modules.fs_spreadsheet.Cells.fs_cell import FsCell
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from ...fable_modules.fs_spreadsheet.Cells.fs_cells_collection import Dictionary_tryGet
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from ...fable_modules.fs_spreadsheet.fs_address import FsAddress
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from ...fable_modules.fs_spreadsheet.fs_worksheet import FsWorksheet
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from ...fable_modules.fs_spreadsheet.Ranges.fs_range_address import FsRangeAddress
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from ...fable_modules.fs_spreadsheet.Tables.fs_table import FsTable
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from ...Core.Table.arc_table import ArcTable
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from ...Core.Table.arc_table_aux import (ColumnValueRefs, ArcTableValues)
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from ...Core.Table.composite_column import CompositeColumn
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from ...Core.Table.composite_header import CompositeHeader
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from .composite_column import (from_string_cell_columns, ColumnValueRefs_fromStringCellColumns, fix_deprecated_ioheader, to_string_cell_columns)
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__A = TypeVar("__A")
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def Aux_List_groupWhen(f: Callable[[__A], bool], list_1: FSharpList[Any]) -> FSharpList[FSharpList[Any]]:
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def mapping(list_3: FSharpList[__A], f: Any=f, list_1: Any=list_1) -> FSharpList[__A]:
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return reverse(list_3)
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def folder(acc: FSharpList[FSharpList[__A]], e: __A, f: Any=f, list_1: Any=list_1) -> FSharpList[FSharpList[__A]]:
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match_value: bool = f(e)
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if match_value:
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return cons(singleton(e), acc)
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elif not is_empty(acc):
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return cons(cons(e, head(acc)), tail(acc))
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else:
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return singleton(singleton(e))
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return reverse(map(mapping, fold(folder, empty(), list_1)))
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def classify_header_order(header: CompositeHeader) -> enum_type("ARCtrl.Spreadsheet.ArcTable.ColumnOrder", int, [("InputClass", 1.0), ("ProtocolClass", 2.0), ("ParamsClass", 3.0), ("OutputClass", 4.0)]):
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if ((((((header.tag == 4) or (header.tag == 5)) or (header.tag == 6)) or (header.tag == 7)) or (header.tag == 8)) or (header.tag == 9)) or (header.tag == 10):
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return 2
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elif (((((header.tag == 0) or (header.tag == 1)) or (header.tag == 2)) or (header.tag == 3)) or (header.tag == 14)) or (header.tag == 13):
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return 3
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elif header.tag == 12:
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return 4
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else:
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return 1
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def classify_column_order(column: CompositeColumn) -> enum_type("ARCtrl.Spreadsheet.ArcTable.ColumnOrder", int, [("InputClass", 1.0), ("ProtocolClass", 2.0), ("ParamsClass", 3.0), ("OutputClass", 4.0)]):
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return classify_header_order(column.Header)
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helper_column_strings: FSharpList[str] = of_array(["Term Source REF", "Term Accession Number", "Unit", "Data Format", "Data Selector Format"])
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def group_columns_by_header(string_cell_columns: Array[Array[str]]) -> Array[Array[Array[str]]]:
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def mapping(list_4: FSharpList[Array[str]], string_cell_columns: Any=string_cell_columns) -> Array[Array[str]]:
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return to_array(list_4)
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def f(c: Array[str], string_cell_columns: Any=string_cell_columns) -> bool:
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v: str = c[0]
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def predicate(s: str, c: Any=c) -> bool:
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return starts_with_exact(v, s)
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return not exists(predicate, helper_column_strings)
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return map_1(mapping, to_array(Aux_List_groupWhen(f, of_array(string_cell_columns))), None)
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def try_annotation_table(sheet: FsWorksheet) -> FsTable | None:
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def predicate(t: FsTable, sheet: Any=sheet) -> bool:
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return starts_with_exact(t.Name, "annotationTable")
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return try_find(predicate, sheet.Tables)
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def compose_columns(string_cell_columns: Array[Array[str]]) -> Array[CompositeColumn]:
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def _arrow1951(columns: Array[Array[str]], string_cell_columns: Any=string_cell_columns) -> CompositeColumn:
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return from_string_cell_columns(columns)
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return map_1(_arrow1951, group_columns_by_header(string_cell_columns), None)
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def compose_arc_table_values(string_cell_columns: Array[Array[str]]) -> tuple[Array[CompositeHeader], ArcTableValues]:
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value_map: Any = dict([])
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row_count: int = (len(string_cell_columns[0]) - 1) or 0
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def mapping(columns: Array[Array[str]], string_cell_columns: Any=string_cell_columns) -> tuple[CompositeHeader, ColumnValueRefs]:
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return ColumnValueRefs_fromStringCellColumns(value_map, columns)
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pattern_input: tuple[Array[CompositeHeader], Array[ColumnValueRefs]] = unzip(map_1(mapping, group_columns_by_header(string_cell_columns), None))
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return (pattern_input[0], ArcTableValues.from_ref_columns(pattern_input[1], value_map, row_count))
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def try_from_fs_worksheet(sheet: FsWorksheet) -> ArcTable | None:
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try:
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match_value: FsTable | None = try_annotation_table(sheet)
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if match_value is None:
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return None
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else:
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t: FsTable = match_value
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def _arrow1955(__unit: None=None) -> IEnumerable_1[Array[str]]:
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def _arrow1954(c: int) -> Array[str]:
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def _arrow1953(__unit: None=None) -> IEnumerable_1[str]:
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def _arrow1952(r: int) -> IEnumerable_1[str]:
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match_value_1: FsCell | None = sheet.CellCollection.TryGetCell(r, c)
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if match_value_1 is None:
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return singleton_1("")
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else:
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cell: FsCell = match_value_1
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return singleton_1(cell.ValueAsString())
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return collect(_arrow1952, range_big_int(1, 1, t.RangeAddress.LastAddress.RowNumber))
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return to_array_1(delay(_arrow1953))
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return map_2(_arrow1954, range_big_int(1, 1, t.RangeAddress.LastAddress.ColumnNumber))
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pattern_input: tuple[Array[CompositeHeader], ArcTableValues] = compose_arc_table_values(map_1(fix_deprecated_ioheader, to_array_1(delay(_arrow1955)), None))
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return ArcTable.from_arc_table_values(sheet.Name, list(pattern_input[0]), pattern_input[1])
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except Exception as err:
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arg: str = sheet.Name
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arg_1: str = str(err)
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return to_fail(printf("Could not parse table with name \"%s\":\n%s"))(arg)(arg_1)
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def to_fs_worksheet(index: int | None, table: ArcTable) -> FsWorksheet:
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string_count: Any = dict([])
|
|
145
|
+
ws: FsWorksheet = FsWorksheet(table.Name)
|
|
146
|
+
if table.ColumnCount == 0:
|
|
147
|
+
return ws
|
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148
|
+
|
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else:
|
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150
|
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def _arrow1956(column_1: CompositeColumn, index: Any=index, table: Any=table) -> FSharpList[FSharpList[str]]:
|
|
151
|
+
return to_string_cell_columns(column_1)
|
|
152
|
+
|
|
153
|
+
def _arrow1957(column: CompositeColumn, index: Any=index, table: Any=table) -> enum_type("ARCtrl.Spreadsheet.ArcTable.ColumnOrder", int, [("InputClass", 1.0), ("ProtocolClass", 2.0), ("ParamsClass", 3.0), ("OutputClass", 4.0)]):
|
|
154
|
+
return classify_column_order(column)
|
|
155
|
+
|
|
156
|
+
class ObjectExpr1958:
|
|
157
|
+
@property
|
|
158
|
+
def Compare(self) -> Callable[[enum_type("ARCtrl.Spreadsheet.ArcTable.ColumnOrder", int, [("InputClass", 1.0), ("ProtocolClass", 2.0), ("ParamsClass", 3.0), ("OutputClass", 4.0)]), enum_type("ARCtrl.Spreadsheet.ArcTable.ColumnOrder", int, [("InputClass", 1.0), ("ProtocolClass", 2.0), ("ParamsClass", 3.0), ("OutputClass", 4.0)])], int]:
|
|
159
|
+
return compare_primitives
|
|
160
|
+
|
|
161
|
+
columns: FSharpList[FSharpList[str]] = collect_1(_arrow1956, sort_by(_arrow1957, of_seq(table.Columns), ObjectExpr1958()))
|
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|
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table_row_count: int
|
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163
|
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def folder(acc: int, c: FSharpList[str], index: Any=index, table: Any=table) -> int:
|
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|
+
def _arrow1959(x_1: int, y_1: int, acc: Any=acc, c: Any=c) -> int:
|
|
165
|
+
return compare_primitives(x_1, y_1)
|
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166
|
+
|
|
167
|
+
return max(_arrow1959, acc, length(c))
|
|
168
|
+
|
|
169
|
+
max_row: int = fold_1(folder, 0, columns) or 0
|
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|
+
table_row_count = 2 if (max_row == 1) else max_row
|
|
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|
+
table_column_count: int = length(columns) or 0
|
|
172
|
+
name: str = "annotationTable" if (index is None) else (((("" + "annotationTable") + "") + str(index)) + "")
|
|
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|
+
fs_table: FsTable = ws.Table(name, FsRangeAddress(FsAddress(1, 1), FsAddress(table_row_count, table_column_count)))
|
|
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|
+
def action_1(col_i: int, col: FSharpList[str], index: Any=index, table: Any=table) -> None:
|
|
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|
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def action(row_i: int, string_cell: str, col_i: Any=col_i, col: Any=col) -> None:
|
|
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|
+
value: str
|
|
177
|
+
if row_i == 0:
|
|
178
|
+
match_value: str | None = Dictionary_tryGet(string_cell, string_count)
|
|
179
|
+
if match_value is None:
|
|
180
|
+
add_to_dict(string_count, string_cell, "")
|
|
181
|
+
value = string_cell
|
|
182
|
+
|
|
183
|
+
else:
|
|
184
|
+
spaces: str = match_value
|
|
185
|
+
string_count[string_cell] = spaces + " "
|
|
186
|
+
value = (string_cell + " ") + spaces
|
|
187
|
+
|
|
188
|
+
|
|
189
|
+
else:
|
|
190
|
+
value = string_cell
|
|
191
|
+
|
|
192
|
+
address: FsAddress = FsAddress(row_i + 1, col_i + 1)
|
|
193
|
+
fs_table.Cell(address, ws.CellCollection).SetValueAs(value)
|
|
194
|
+
|
|
195
|
+
iterate_indexed(action, col)
|
|
196
|
+
|
|
197
|
+
iterate_indexed(action_1, columns)
|
|
198
|
+
return ws
|
|
199
|
+
|
|
200
|
+
|
|
201
|
+
|
|
202
|
+
__all__ = ["Aux_List_groupWhen", "classify_header_order", "classify_column_order", "helper_column_strings", "group_columns_by_header", "try_annotation_table", "compose_columns", "compose_arc_table_values", "try_from_fs_worksheet", "to_fs_worksheet"]
|
|
203
|
+
|
|
@@ -0,0 +1,78 @@
|
|
|
1
|
+
from __future__ import annotations
|
|
2
|
+
from typing import Any
|
|
3
|
+
from ...fable_modules.fable_library.option import (map, bind, default_arg)
|
|
4
|
+
from ...fable_modules.fable_library.types import Array
|
|
5
|
+
from ...Core.Helper.collections_ import Option_fromValueWithDefault
|
|
6
|
+
from ...Core.Table.composite_cell import CompositeCell
|
|
7
|
+
|
|
8
|
+
def term_from_string_cells(tsr_col: int | None, tan_col: int | None, cell_values: Array[str]) -> CompositeCell:
|
|
9
|
+
def _arrow1860(i: int, tsr_col: Any=tsr_col, tan_col: Any=tan_col, cell_values: Any=cell_values) -> str:
|
|
10
|
+
return cell_values[i]
|
|
11
|
+
|
|
12
|
+
tan: str | None = map(_arrow1860, tan_col)
|
|
13
|
+
def _arrow1861(i_1: int, tsr_col: Any=tsr_col, tan_col: Any=tan_col, cell_values: Any=cell_values) -> str:
|
|
14
|
+
return cell_values[i_1]
|
|
15
|
+
|
|
16
|
+
tsr: str | None = map(_arrow1861, tsr_col)
|
|
17
|
+
return CompositeCell.create_term_from_string(cell_values[0], tsr, tan)
|
|
18
|
+
|
|
19
|
+
|
|
20
|
+
def unitized_from_string_cells(unit_col: int, tsr_col: int | None, tan_col: int | None, cell_values: Array[str]) -> CompositeCell:
|
|
21
|
+
unit: str = cell_values[unit_col]
|
|
22
|
+
def _arrow1862(i: int, unit_col: Any=unit_col, tsr_col: Any=tsr_col, tan_col: Any=tan_col, cell_values: Any=cell_values) -> str:
|
|
23
|
+
return cell_values[i]
|
|
24
|
+
|
|
25
|
+
tan: str | None = map(_arrow1862, tan_col)
|
|
26
|
+
def _arrow1863(i_1: int, unit_col: Any=unit_col, tsr_col: Any=tsr_col, tan_col: Any=tan_col, cell_values: Any=cell_values) -> str:
|
|
27
|
+
return cell_values[i_1]
|
|
28
|
+
|
|
29
|
+
tsr: str | None = map(_arrow1863, tsr_col)
|
|
30
|
+
return CompositeCell.create_unitized_from_string(cell_values[0], unit, tsr, tan)
|
|
31
|
+
|
|
32
|
+
|
|
33
|
+
def free_text_from_string_cells(cell_values: Array[str]) -> CompositeCell:
|
|
34
|
+
return CompositeCell.create_free_text(cell_values[0])
|
|
35
|
+
|
|
36
|
+
|
|
37
|
+
def data_from_string_cells(format: int | None, selector_format: int | None, cell_values: Array[str]) -> CompositeCell:
|
|
38
|
+
def _arrow1864(i: int, format: Any=format, selector_format: Any=selector_format, cell_values: Any=cell_values) -> str | None:
|
|
39
|
+
return Option_fromValueWithDefault("", cell_values[i])
|
|
40
|
+
|
|
41
|
+
format_1: str | None = bind(_arrow1864, format)
|
|
42
|
+
def _arrow1865(i_1: int, format: Any=format, selector_format: Any=selector_format, cell_values: Any=cell_values) -> str | None:
|
|
43
|
+
return Option_fromValueWithDefault("", cell_values[i_1])
|
|
44
|
+
|
|
45
|
+
selector_format_1: str | None = bind(_arrow1865, selector_format)
|
|
46
|
+
return CompositeCell.create_data_from_string(cell_values[0], format_1, selector_format_1)
|
|
47
|
+
|
|
48
|
+
|
|
49
|
+
def to_string_cells(is_term: bool, has_unit: bool, cell: CompositeCell) -> Array[str]:
|
|
50
|
+
if cell.tag == 0:
|
|
51
|
+
if has_unit:
|
|
52
|
+
return [cell.fields[0].NameText, "", default_arg(cell.fields[0].TermSourceREF, ""), cell.fields[0].TermAccessionOntobeeUrl]
|
|
53
|
+
|
|
54
|
+
else:
|
|
55
|
+
return [cell.fields[0].NameText, default_arg(cell.fields[0].TermSourceREF, ""), cell.fields[0].TermAccessionOntobeeUrl]
|
|
56
|
+
|
|
57
|
+
|
|
58
|
+
elif cell.tag == 2:
|
|
59
|
+
return [cell.fields[0], cell.fields[1].NameText, default_arg(cell.fields[1].TermSourceREF, ""), cell.fields[1].TermAccessionOntobeeUrl]
|
|
60
|
+
|
|
61
|
+
elif cell.tag == 3:
|
|
62
|
+
format: str = default_arg(cell.fields[0].Format, "")
|
|
63
|
+
selector_format: str = default_arg(cell.fields[0].SelectorFormat, "")
|
|
64
|
+
return [default_arg(cell.fields[0].Name, ""), format, selector_format]
|
|
65
|
+
|
|
66
|
+
elif has_unit:
|
|
67
|
+
return [cell.fields[0], "", "", ""]
|
|
68
|
+
|
|
69
|
+
elif is_term:
|
|
70
|
+
return [cell.fields[0], "", ""]
|
|
71
|
+
|
|
72
|
+
else:
|
|
73
|
+
return [cell.fields[0]]
|
|
74
|
+
|
|
75
|
+
|
|
76
|
+
|
|
77
|
+
__all__ = ["term_from_string_cells", "unitized_from_string_cells", "free_text_from_string_cells", "data_from_string_cells", "to_string_cells"]
|
|
78
|
+
|
|
@@ -0,0 +1,305 @@
|
|
|
1
|
+
from __future__ import annotations
|
|
2
|
+
from collections.abc import Callable
|
|
3
|
+
from typing import Any
|
|
4
|
+
from ...fable_modules.fable_library.array_ import (skip, map, try_item)
|
|
5
|
+
from ...fable_modules.fable_library.list import (of_array, singleton as singleton_1, FSharpList, map as map_2)
|
|
6
|
+
from ...fable_modules.fable_library.map_util import (try_get_value, get_item_from_dict)
|
|
7
|
+
from ...fable_modules.fable_library.option import default_arg
|
|
8
|
+
from ...fable_modules.fable_library.range import range_big_int
|
|
9
|
+
from ...fable_modules.fable_library.seq import (to_array, delay, map as map_1, exists, to_list, append, singleton, reduce)
|
|
10
|
+
from ...fable_modules.fable_library.types import (Array, to_string)
|
|
11
|
+
from ...fable_modules.fable_library.util import (IEnumerable_1, string_hash)
|
|
12
|
+
from ...fable_modules.fs_spreadsheet.Cells.fs_cell import FsCell
|
|
13
|
+
from ...fable_modules.fs_spreadsheet.fs_column import FsColumn
|
|
14
|
+
from ...fable_modules.fs_spreadsheet.hash_codes import merge_hashes
|
|
15
|
+
from ...fable_modules.fable_library.types import FSharpRef
|
|
16
|
+
from ...Core.Table.arc_table_aux import (ColumnValueRefs, ensure_cell_hash_in_value_map)
|
|
17
|
+
from ...Core.Table.composite_cell import CompositeCell
|
|
18
|
+
from ...Core.Table.composite_column import CompositeColumn
|
|
19
|
+
from ...Core.Table.composite_header import (IOType, CompositeHeader)
|
|
20
|
+
from .composite_cell import to_string_cells as to_string_cells_1
|
|
21
|
+
from .composite_header import (from_string_cells, to_string_cells)
|
|
22
|
+
|
|
23
|
+
def fix_deprecated_ioheader(string_cell_col: Array[str]) -> Array[str]:
|
|
24
|
+
if len(string_cell_col) == 0:
|
|
25
|
+
raise Exception("Can\'t fix IOHeader Invalid column, neither header nor values given")
|
|
26
|
+
|
|
27
|
+
values: Array[str] = skip(1, string_cell_col, None)
|
|
28
|
+
match_value: IOType = IOType.of_string(string_cell_col[0])
|
|
29
|
+
if match_value.tag == 4:
|
|
30
|
+
return string_cell_col
|
|
31
|
+
|
|
32
|
+
elif match_value.tag == 0:
|
|
33
|
+
string_cell_col[0] = to_string(CompositeHeader(11, IOType(0)))
|
|
34
|
+
return string_cell_col
|
|
35
|
+
|
|
36
|
+
else:
|
|
37
|
+
string_cell_col[0] = to_string(CompositeHeader(12, match_value))
|
|
38
|
+
return string_cell_col
|
|
39
|
+
|
|
40
|
+
|
|
41
|
+
|
|
42
|
+
def from_string_cell_columns(columns: Array[Array[str]]) -> CompositeColumn:
|
|
43
|
+
def mapping(c: Array[str], columns: Any=columns) -> str:
|
|
44
|
+
return c[0]
|
|
45
|
+
|
|
46
|
+
pattern_input: tuple[CompositeHeader, Callable[[Array[str]], CompositeCell]] = from_string_cells(map(mapping, columns, None))
|
|
47
|
+
l: int = len(columns[0]) or 0
|
|
48
|
+
def _arrow1904(__unit: None=None, columns: Any=columns) -> IEnumerable_1[CompositeCell]:
|
|
49
|
+
def _arrow1903(i: int) -> CompositeCell:
|
|
50
|
+
def mapping_1(c_1: Array[str]) -> str:
|
|
51
|
+
return c_1[i]
|
|
52
|
+
|
|
53
|
+
return pattern_input[1](map(mapping_1, columns, None))
|
|
54
|
+
|
|
55
|
+
return map_1(_arrow1903, range_big_int(1, 1, l - 1))
|
|
56
|
+
|
|
57
|
+
cells: Array[CompositeCell] = list(to_array(delay(_arrow1904)))
|
|
58
|
+
return CompositeColumn.create(pattern_input[0], cells)
|
|
59
|
+
|
|
60
|
+
|
|
61
|
+
def string_cell_columns_of_fs_columns(columns: Array[FsColumn]) -> Array[Array[str]]:
|
|
62
|
+
def mapping_1(c: FsColumn, columns: Any=columns) -> Array[str]:
|
|
63
|
+
c.ToDenseColumn()
|
|
64
|
+
def mapping(cell: FsCell, c: Any=c) -> str:
|
|
65
|
+
return cell.ValueAsString()
|
|
66
|
+
|
|
67
|
+
return map(mapping, to_array(c.Cells), None)
|
|
68
|
+
|
|
69
|
+
return map(mapping_1, columns, None)
|
|
70
|
+
|
|
71
|
+
|
|
72
|
+
def from_fs_columns(columns: Array[FsColumn]) -> CompositeColumn:
|
|
73
|
+
def mapping_1(c: FsColumn, columns: Any=columns) -> Array[str]:
|
|
74
|
+
c.ToDenseColumn()
|
|
75
|
+
def mapping(c_1: FsCell, c: Any=c) -> str:
|
|
76
|
+
return c_1.ValueAsString()
|
|
77
|
+
|
|
78
|
+
return map(mapping, to_array(c.Cells), None)
|
|
79
|
+
|
|
80
|
+
return from_string_cell_columns(map(mapping_1, columns, None))
|
|
81
|
+
|
|
82
|
+
|
|
83
|
+
def to_string_cell_columns(column: CompositeColumn) -> FSharpList[FSharpList[str]]:
|
|
84
|
+
def predicate(c: CompositeCell, column: Any=column) -> bool:
|
|
85
|
+
return c.is_unitized
|
|
86
|
+
|
|
87
|
+
has_unit: bool = exists(predicate, column.Cells)
|
|
88
|
+
is_term: bool = column.Header.IsTermColumn
|
|
89
|
+
def predicate_1(c_1: CompositeCell, column: Any=column) -> bool:
|
|
90
|
+
return c_1.is_data
|
|
91
|
+
|
|
92
|
+
is_data: bool = exists(predicate_1, column.Cells) if column.Header.IsDataColumn else False
|
|
93
|
+
header: Array[str] = to_string_cells(has_unit, column.Header)
|
|
94
|
+
composite_cells: Array[CompositeCell] = to_array(column.Cells)
|
|
95
|
+
def mapping(cell: CompositeCell, column: Any=column) -> Array[str]:
|
|
96
|
+
return to_string_cells_1(is_term, has_unit, cell)
|
|
97
|
+
|
|
98
|
+
cells: Array[Array[str]] = map(mapping, to_array(column.Cells), None)
|
|
99
|
+
def get_cell_or_default(ri: int, ci: int, cells_1: Array[Array[str]], column: Any=column) -> str:
|
|
100
|
+
return default_arg(try_item(ci, cells_1[ri]), "")
|
|
101
|
+
|
|
102
|
+
if has_unit:
|
|
103
|
+
def _arrow1910(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
104
|
+
def _arrow1909(__unit: None=None) -> IEnumerable_1[str]:
|
|
105
|
+
def _arrow1908(i: int) -> str:
|
|
106
|
+
return get_cell_or_default(i, 0, cells)
|
|
107
|
+
|
|
108
|
+
return map_1(_arrow1908, range_big_int(0, 1, len(composite_cells) - 1))
|
|
109
|
+
|
|
110
|
+
return append(singleton(header[0]), delay(_arrow1909))
|
|
111
|
+
|
|
112
|
+
def _arrow1913(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
113
|
+
def _arrow1912(__unit: None=None) -> IEnumerable_1[str]:
|
|
114
|
+
def _arrow1911(i_1: int) -> str:
|
|
115
|
+
return get_cell_or_default(i_1, 1, cells)
|
|
116
|
+
|
|
117
|
+
return map_1(_arrow1911, range_big_int(0, 1, len(composite_cells) - 1))
|
|
118
|
+
|
|
119
|
+
return append(singleton(header[1]), delay(_arrow1912))
|
|
120
|
+
|
|
121
|
+
def _arrow1916(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
122
|
+
def _arrow1915(__unit: None=None) -> IEnumerable_1[str]:
|
|
123
|
+
def _arrow1914(i_2: int) -> str:
|
|
124
|
+
return get_cell_or_default(i_2, 2, cells)
|
|
125
|
+
|
|
126
|
+
return map_1(_arrow1914, range_big_int(0, 1, len(composite_cells) - 1))
|
|
127
|
+
|
|
128
|
+
return append(singleton(header[2]), delay(_arrow1915))
|
|
129
|
+
|
|
130
|
+
def _arrow1919(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
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131
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+
def _arrow1918(__unit: None=None) -> IEnumerable_1[str]:
|
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132
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+
def _arrow1917(i_3: int) -> str:
|
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133
|
+
return get_cell_or_default(i_3, 3, cells)
|
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134
|
+
|
|
135
|
+
return map_1(_arrow1917, range_big_int(0, 1, len(composite_cells) - 1))
|
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136
|
+
|
|
137
|
+
return append(singleton(header[3]), delay(_arrow1918))
|
|
138
|
+
|
|
139
|
+
return of_array([to_list(delay(_arrow1910)), to_list(delay(_arrow1913)), to_list(delay(_arrow1916)), to_list(delay(_arrow1919))])
|
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140
|
+
|
|
141
|
+
elif is_term:
|
|
142
|
+
def _arrow1925(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
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143
|
+
def _arrow1924(__unit: None=None) -> IEnumerable_1[str]:
|
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144
|
+
def _arrow1923(i_4: int) -> str:
|
|
145
|
+
return get_cell_or_default(i_4, 0, cells)
|
|
146
|
+
|
|
147
|
+
return map_1(_arrow1923, range_big_int(0, 1, len(composite_cells) - 1))
|
|
148
|
+
|
|
149
|
+
return append(singleton(header[0]), delay(_arrow1924))
|
|
150
|
+
|
|
151
|
+
def _arrow1928(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
152
|
+
def _arrow1927(__unit: None=None) -> IEnumerable_1[str]:
|
|
153
|
+
def _arrow1926(i_5: int) -> str:
|
|
154
|
+
return get_cell_or_default(i_5, 1, cells)
|
|
155
|
+
|
|
156
|
+
return map_1(_arrow1926, range_big_int(0, 1, len(composite_cells) - 1))
|
|
157
|
+
|
|
158
|
+
return append(singleton(header[1]), delay(_arrow1927))
|
|
159
|
+
|
|
160
|
+
def _arrow1931(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
161
|
+
def _arrow1930(__unit: None=None) -> IEnumerable_1[str]:
|
|
162
|
+
def _arrow1929(i_6: int) -> str:
|
|
163
|
+
return get_cell_or_default(i_6, 2, cells)
|
|
164
|
+
|
|
165
|
+
return map_1(_arrow1929, range_big_int(0, 1, len(composite_cells) - 1))
|
|
166
|
+
|
|
167
|
+
return append(singleton(header[2]), delay(_arrow1930))
|
|
168
|
+
|
|
169
|
+
return of_array([to_list(delay(_arrow1925)), to_list(delay(_arrow1928)), to_list(delay(_arrow1931))])
|
|
170
|
+
|
|
171
|
+
elif is_data:
|
|
172
|
+
def _arrow1937(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
173
|
+
def _arrow1936(__unit: None=None) -> IEnumerable_1[str]:
|
|
174
|
+
def _arrow1935(i_7: int) -> str:
|
|
175
|
+
return get_cell_or_default(i_7, 0, cells)
|
|
176
|
+
|
|
177
|
+
return map_1(_arrow1935, range_big_int(0, 1, len(composite_cells) - 1))
|
|
178
|
+
|
|
179
|
+
return append(singleton(header[0]), delay(_arrow1936))
|
|
180
|
+
|
|
181
|
+
def _arrow1940(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
182
|
+
def _arrow1939(__unit: None=None) -> IEnumerable_1[str]:
|
|
183
|
+
def _arrow1938(i_8: int) -> str:
|
|
184
|
+
return get_cell_or_default(i_8, 1, cells)
|
|
185
|
+
|
|
186
|
+
return map_1(_arrow1938, range_big_int(0, 1, len(composite_cells) - 1))
|
|
187
|
+
|
|
188
|
+
return append(singleton(header[1]), delay(_arrow1939))
|
|
189
|
+
|
|
190
|
+
def _arrow1943(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
191
|
+
def _arrow1942(__unit: None=None) -> IEnumerable_1[str]:
|
|
192
|
+
def _arrow1941(i_9: int) -> str:
|
|
193
|
+
return get_cell_or_default(i_9, 2, cells)
|
|
194
|
+
|
|
195
|
+
return map_1(_arrow1941, range_big_int(0, 1, len(composite_cells) - 1))
|
|
196
|
+
|
|
197
|
+
return append(singleton(header[2]), delay(_arrow1942))
|
|
198
|
+
|
|
199
|
+
return of_array([to_list(delay(_arrow1937)), to_list(delay(_arrow1940)), to_list(delay(_arrow1943))])
|
|
200
|
+
|
|
201
|
+
else:
|
|
202
|
+
def _arrow1946(__unit: None=None, column: Any=column) -> IEnumerable_1[str]:
|
|
203
|
+
def _arrow1945(__unit: None=None) -> IEnumerable_1[str]:
|
|
204
|
+
def _arrow1944(i_10: int) -> str:
|
|
205
|
+
return cells[i_10][0]
|
|
206
|
+
|
|
207
|
+
return map_1(_arrow1944, range_big_int(0, 1, len(composite_cells) - 1))
|
|
208
|
+
|
|
209
|
+
return append(singleton(header[0]), delay(_arrow1945))
|
|
210
|
+
|
|
211
|
+
return singleton_1(to_list(delay(_arrow1946)))
|
|
212
|
+
|
|
213
|
+
|
|
214
|
+
|
|
215
|
+
def to_fs_columns(column: CompositeColumn) -> FSharpList[FSharpList[FsCell]]:
|
|
216
|
+
def mapping_1(c: FSharpList[str], column: Any=column) -> FSharpList[FsCell]:
|
|
217
|
+
def mapping(s: str, c: Any=c) -> FsCell:
|
|
218
|
+
return FsCell(s)
|
|
219
|
+
|
|
220
|
+
return map_2(mapping, c)
|
|
221
|
+
|
|
222
|
+
return map_2(mapping_1, to_string_cell_columns(column))
|
|
223
|
+
|
|
224
|
+
|
|
225
|
+
def ColumnValueRefs_fromStringCellColumns(value_map: Any, columns: Array[Array[str]]) -> tuple[CompositeHeader, ColumnValueRefs]:
|
|
226
|
+
hash_map: Any = dict([])
|
|
227
|
+
cells: Any = dict([])
|
|
228
|
+
constant: bool = True
|
|
229
|
+
def mapping(c: Array[str], value_map: Any=value_map, columns: Any=columns) -> str:
|
|
230
|
+
return c[0]
|
|
231
|
+
|
|
232
|
+
pattern_input: tuple[CompositeHeader, Callable[[Array[str]], CompositeCell]] = from_string_cells(map(mapping, columns, None))
|
|
233
|
+
header: CompositeHeader = pattern_input[0]
|
|
234
|
+
cell_parser: Callable[[Array[str]], CompositeCell] = pattern_input[1]
|
|
235
|
+
l: int = len(columns[0]) or 0
|
|
236
|
+
if l == 1:
|
|
237
|
+
return (header, ColumnValueRefs(1, cells))
|
|
238
|
+
|
|
239
|
+
else:
|
|
240
|
+
for i in range(1, (l - 1) + 1, 1):
|
|
241
|
+
def mapping_1(c_1: Array[str], value_map: Any=value_map, columns: Any=columns) -> str:
|
|
242
|
+
return c_1[i]
|
|
243
|
+
|
|
244
|
+
strings: Array[str] = map(mapping_1, columns, None)
|
|
245
|
+
def _arrow1947(hash_1: int, hash_2: int, value_map: Any=value_map, columns: Any=columns) -> int:
|
|
246
|
+
return merge_hashes(hash_1, hash_2)
|
|
247
|
+
|
|
248
|
+
def mapping_2(s: str, value_map: Any=value_map, columns: Any=columns) -> int:
|
|
249
|
+
return string_hash(s)
|
|
250
|
+
|
|
251
|
+
hash_3: int = reduce(_arrow1947, map_1(mapping_2, strings)) or 0
|
|
252
|
+
match_value: int | None
|
|
253
|
+
pattern_input_1: tuple[bool, int]
|
|
254
|
+
out_arg: int = None or 0
|
|
255
|
+
def _arrow1948(__unit: None=None, value_map: Any=value_map, columns: Any=columns) -> int:
|
|
256
|
+
return out_arg
|
|
257
|
+
|
|
258
|
+
def _arrow1949(v: int, value_map: Any=value_map, columns: Any=columns) -> None:
|
|
259
|
+
nonlocal out_arg
|
|
260
|
+
out_arg = v or 0
|
|
261
|
+
|
|
262
|
+
pattern_input_1 = (try_get_value(hash_map, hash_3, FSharpRef(_arrow1948, _arrow1949)), out_arg)
|
|
263
|
+
match_value = pattern_input_1[1] if pattern_input_1[0] else None
|
|
264
|
+
if match_value is None:
|
|
265
|
+
if i == 1:
|
|
266
|
+
cell_hash_3: int = ensure_cell_hash_in_value_map(cell_parser(strings), value_map) or 0
|
|
267
|
+
hash_map[hash_3] = cell_hash_3
|
|
268
|
+
cells[i - 1] = cell_hash_3
|
|
269
|
+
|
|
270
|
+
else:
|
|
271
|
+
if constant:
|
|
272
|
+
constant = False
|
|
273
|
+
for j in range(0, (i - 1) + 1, 1):
|
|
274
|
+
cell_hash_4: int = get_item_from_dict(cells, 0) or 0
|
|
275
|
+
cells[j] = cell_hash_4
|
|
276
|
+
|
|
277
|
+
cell_hash_5: int = ensure_cell_hash_in_value_map(cell_parser(strings), value_map) or 0
|
|
278
|
+
hash_map[hash_3] = cell_hash_5
|
|
279
|
+
cells[i - 1] = cell_hash_5
|
|
280
|
+
|
|
281
|
+
|
|
282
|
+
else:
|
|
283
|
+
def _arrow1950(__unit: None=None, value_map: Any=value_map, columns: Any=columns) -> bool:
|
|
284
|
+
cell_hash: int = match_value or 0
|
|
285
|
+
return constant
|
|
286
|
+
|
|
287
|
+
if _arrow1950():
|
|
288
|
+
cell_hash_1: int = match_value or 0
|
|
289
|
+
|
|
290
|
+
else:
|
|
291
|
+
cell_hash_2: int = match_value or 0
|
|
292
|
+
cells[i - 1] = cell_hash_2
|
|
293
|
+
|
|
294
|
+
|
|
295
|
+
if constant:
|
|
296
|
+
return (header, ColumnValueRefs(0, get_item_from_dict(cells, 0)))
|
|
297
|
+
|
|
298
|
+
else:
|
|
299
|
+
return (header, ColumnValueRefs(1, cells))
|
|
300
|
+
|
|
301
|
+
|
|
302
|
+
|
|
303
|
+
|
|
304
|
+
__all__ = ["fix_deprecated_ioheader", "from_string_cell_columns", "string_cell_columns_of_fs_columns", "from_fs_columns", "to_string_cell_columns", "to_fs_columns", "ColumnValueRefs_fromStringCellColumns"]
|
|
305
|
+
|