forked from enviPath/enviPy
[Enhancement] Swappable Packages (#216)
Co-authored-by: Tim Lorsbach <tim@lorsba.ch> Reviewed-on: enviPath/enviPy#216 Reviewed-by: liambrydon <lbry121@aucklanduni.ac.nz> Reviewed-by: Tobias O <tobias.olenyi@envipath.com>
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@ -1,39 +1,40 @@
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import re
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import logging
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import json
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from typing import Union, List, Optional, Set, Dict, Any
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import logging
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import re
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from typing import Any, Dict, List, Optional, Set, Union
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from uuid import UUID
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import nh3
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from django.conf import settings as s
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from django.contrib.auth import get_user_model
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from django.db import transaction
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from django.conf import settings as s
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from pydantic import ValidationError
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from epdb.models import (
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User,
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Package,
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UserPackagePermission,
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GroupPackagePermission,
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Permission,
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Group,
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Setting,
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EPModel,
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UserSettingPermission,
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Rule,
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Pathway,
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Node,
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Edge,
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Compound,
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Reaction,
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CompoundStructure,
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Edge,
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EnzymeLink,
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EPModel,
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Group,
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GroupPackagePermission,
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Node,
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Pathway,
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Permission,
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Reaction,
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Rule,
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Setting,
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User,
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UserPackagePermission,
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UserSettingPermission,
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)
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from utilities.chem import FormatConverter
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from utilities.misc import PackageImporter, PackageExporter
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from utilities.misc import PackageExporter, PackageImporter
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logger = logging.getLogger(__name__)
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Package = s.GET_PACKAGE_MODEL()
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class EPDBURLParser:
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UUID_PATTERN = r"[a-f0-9]{8}-[a-f0-9]{4}-[a-f0-9]{4}-[a-f0-9]{4}-[a-f0-9]{12}"
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@ -583,25 +584,27 @@ class PackageManager(object):
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def import_legacy_package(
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data: dict, owner: User, keep_ids=False, add_import_timestamp=True, trust_reviewed=False
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):
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from uuid import UUID, uuid4
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from datetime import datetime
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from collections import defaultdict
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from datetime import datetime
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from uuid import UUID, uuid4
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from envipy_additional_information import AdditionalInformationConverter
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from .models import (
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Package,
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Compound,
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CompoundStructure,
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SimpleRule,
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SimpleAmbitRule,
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Edge,
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Node,
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Package,
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ParallelRule,
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Pathway,
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Reaction,
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Scenario,
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SequentialRule,
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SequentialRuleOrdering,
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Reaction,
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Pathway,
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Node,
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Edge,
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Scenario,
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SimpleAmbitRule,
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SimpleRule,
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)
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from envipy_additional_information import AdditionalInformationConverter
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pack = Package()
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pack.uuid = UUID(data["id"].split("/")[-1]) if keep_ids else uuid4()
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