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# -*- coding: utf-8 -*- |
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# |
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# This file is part of SENAITE.CORE |
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# |
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# Copyright 2018 by it's authors. |
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# Some rights reserved. See LICENSE.rst, CONTRIBUTORS.rst. |
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from Products.CMFCore.utils import getToolByName |
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from bika.lims import logger |
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from bika.lims.catalog import getCatalogDefinitions |
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from bika.lims.catalog import setup_catalogs |
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from bika.lims.config import * |
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GROUPS = { |
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# Dictionary {group_name: [roles]} |
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"Analysts": ["Analyst", ], |
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"Clients": ["Client", ], |
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"LabClerks": ["LabClerk",], |
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# TODO Unbound LabManagers from Manager role |
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"LabManagers": ["LabManager", "Manager", ], |
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"Preservers": ["Perserver", ], |
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"Publishers": ["Publisher", ], |
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"Verifiers": ["Verifier", ], |
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"Samplers": ["Sampler", ], |
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"RegulatoryInspectors": ["RegulatoryInspector", ], |
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"SamplingCoordinators": ["SamplingCoordinator", ], |
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} |
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NAV_BAR_ITEMS_TO_HIDE = ( |
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# List of items to hide from navigation bar |
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"arimports", |
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"pricelists", |
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"supplyorders", |
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) |
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# noinspection PyClassHasNoInit |
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class Empty: |
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pass |
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class BikaGenerator(object): |
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def __init__(self): |
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pass |
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def setupPortalContent(self, portal): |
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""" Setup Bika site structure """ |
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self.remove_default_content(portal) |
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self.reindex_structure(portal) |
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portal.bika_setup.laboratory.unmarkCreationFlag() |
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portal.bika_setup.laboratory.reindexObject() |
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def reindex_structure(self, portal): |
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# index objects - importing through GenericSetup doesn't |
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for obj_id in ('clients', |
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'batches', |
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'pricelists', |
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'bika_setup', |
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'methods', |
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'analysisrequests', |
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'referencesamples', |
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'supplyorders', |
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'worksheets', |
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'reports', |
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): |
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try: |
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obj = portal[obj_id] |
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obj.unmarkCreationFlag() |
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obj.reindexObject() |
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except AttributeError: |
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pass |
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for obj_id in ('bika_analysiscategories', |
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'bika_analysisservices', |
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'bika_attachmenttypes', |
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'bika_batchlabels', |
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'bika_calculations', |
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'bika_departments', |
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'bika_containers', |
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'bika_containertypes', |
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'bika_preservations', |
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'bika_identifiertypes', |
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'bika_instruments', |
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'bika_instrumenttypes', |
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'bika_instrumentlocations', |
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'bika_analysisspecs', |
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'bika_analysisprofiles', |
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'bika_artemplates', |
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'bika_labcontacts', |
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'bika_labproducts', |
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'bika_manufacturers', |
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'bika_sampleconditions', |
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'bika_samplematrices', |
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'bika_samplingdeviations', |
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'bika_samplepoints', |
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'bika_sampletypes', |
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'bika_srtemplates', |
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'bika_reflexrulefolder', |
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'bika_storagelocations', |
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'bika_subgroups', |
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'bika_suppliers', |
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'bika_referencedefinitions', |
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'bika_worksheettemplates'): |
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try: |
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obj = portal.bika_setup[obj_id] |
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obj.unmarkCreationFlag() |
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obj.reindexObject() |
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except AttributeError: |
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pass |
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def remove_default_content(self, portal): |
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# remove undesired content objects |
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del_ids = [] |
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for obj_id in ['Members', 'news', 'events']: |
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if obj_id in portal: |
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del_ids.append(obj_id) |
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if del_ids: |
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portal.manage_delObjects(ids=del_ids) |
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def setupGroupsAndRoles(self, portal): |
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# Create groups |
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groups_ids = portal.portal_groups.listGroupIds() |
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groups_ids = filter(lambda gr: gr not in groups_ids, GROUPS.keys()) |
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for group_id in groups_ids: |
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portal.portal_groups.addGroup(group_id, title=group_id, |
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roles=GROUPS[group_id]) |
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def setupCatalogs(self, portal): |
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# an item should belong to only one catalog. |
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# that way looking it up means first looking up *the* catalog |
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# in which it is indexed, as well as making it cheaper to index. |
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def addIndex(cat, *args): |
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# noinspection PyBroadException |
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try: |
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cat.addIndex(*args) |
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except: |
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pass |
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def addColumn(cat, col): |
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# noinspection PyBroadException |
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try: |
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cat.addColumn(col) |
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except: |
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pass |
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# create lexicon |
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wordSplitter = Empty() |
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wordSplitter.group = 'Word Splitter' |
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wordSplitter.name = 'Unicode Whitespace splitter' |
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caseNormalizer = Empty() |
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caseNormalizer.group = 'Case Normalizer' |
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caseNormalizer.name = 'Unicode Case Normalizer' |
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stopWords = Empty() |
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stopWords.group = 'Stop Words' |
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stopWords.name = 'Remove listed and single char words' |
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elem = [wordSplitter, caseNormalizer, stopWords] |
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zc_extras = Empty() |
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zc_extras.index_type = 'Okapi BM25 Rank' |
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zc_extras.lexicon_id = 'Lexicon' |
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# bika_catalog |
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bc = getToolByName(portal, 'bika_catalog', None) |
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if bc is None: |
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logger.warning('Could not find the bika_catalog tool.') |
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return |
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# noinspection PyBroadException |
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try: |
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bc.manage_addProduct['ZCTextIndex'].manage_addLexicon( |
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'Lexicon', 'Lexicon', elem) |
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except: |
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logger.warning('Could not add ZCTextIndex to bika_catalog') |
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pass |
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at = getToolByName(portal, 'archetype_tool') |
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at.setCatalogsByType('Batch', ['bika_catalog', 'portal_catalog']) |
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# TODO Remove in >v1.3.0 |
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at.setCatalogsByType('Sample', ['bika_catalog', 'portal_catalog']) |
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# TODO Remove in >v1.3.0 |
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at.setCatalogsByType('SamplePartition', |
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['bika_catalog', 'portal_catalog']) |
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at.setCatalogsByType('ReferenceSample', |
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['bika_catalog', 'portal_catalog']) |
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addIndex(bc, 'path', 'ExtendedPathIndex', 'getPhysicalPath') |
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addIndex(bc, 'allowedRolesAndUsers', 'KeywordIndex') |
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addIndex(bc, 'UID', 'FieldIndex') |
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addIndex(bc, 'SearchableText', 'ZCTextIndex', zc_extras) |
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addIndex(bc, 'Title', 'ZCTextIndex', zc_extras) |
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addIndex(bc, 'Description', 'ZCTextIndex', zc_extras) |
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addIndex(bc, 'id', 'FieldIndex') |
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addIndex(bc, 'getId', 'FieldIndex') |
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addIndex(bc, 'Type', 'FieldIndex') |
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addIndex(bc, 'portal_type', 'FieldIndex') |
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addIndex(bc, 'created', 'DateIndex') |
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addIndex(bc, 'Creator', 'FieldIndex') |
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addIndex(bc, 'getObjPositionInParent', 'GopipIndex') |
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addIndex(bc, 'title', 'FieldIndex', 'Title') |
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addIndex(bc, 'sortable_title', 'FieldIndex') |
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addIndex(bc, 'description', 'FieldIndex', 'Description') |
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addIndex(bc, 'review_state', 'FieldIndex') |
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addIndex(bc, 'Identifiers', 'KeywordIndex') |
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addIndex(bc, 'is_active', 'BooleanIndex') |
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addIndex(bc, 'BatchDate', 'DateIndex') |
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addIndex(bc, 'getClientTitle', 'FieldIndex') |
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addIndex(bc, 'getClientUID', 'FieldIndex') |
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addIndex(bc, 'getClientID', 'FieldIndex') |
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addIndex(bc, 'getClientBatchID', 'FieldIndex') |
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addIndex(bc, 'getDateReceived', 'DateIndex') |
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addIndex(bc, 'getDateSampled', 'DateIndex') |
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addIndex(bc, 'getDueDate', 'DateIndex') |
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addIndex(bc, 'getExpiryDate', 'DateIndex') |
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addIndex(bc, 'getReferenceDefinitionUID', 'FieldIndex') |
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addIndex(bc, 'getSampleTypeTitle', 'FieldIndex') |
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addIndex(bc, 'getSampleTypeUID', 'FieldIndex') |
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# https://github.com/senaite/senaite.core/pull/1091 |
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addIndex(bc, 'getSupportedServices', 'KeywordIndex') |
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addIndex(bc, 'getBlank', 'BooleanIndex') |
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addIndex(bc, 'isValid', 'BooleanIndex') |
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addColumn(bc, 'path') |
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addColumn(bc, 'UID') |
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addColumn(bc, 'id') |
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addColumn(bc, 'getId') |
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addColumn(bc, 'Type') |
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addColumn(bc, 'portal_type') |
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addColumn(bc, 'creator') |
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addColumn(bc, 'Created') |
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addColumn(bc, 'Title') |
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addColumn(bc, 'Description') |
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addColumn(bc, 'sortable_title') |
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addColumn(bc, 'getClientTitle') |
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addColumn(bc, 'getClientID') |
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addColumn(bc, 'getClientBatchID') |
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addColumn(bc, 'getSampleTypeTitle') |
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addColumn(bc, 'getDateReceived') |
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addColumn(bc, 'getDateSampled') |
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addColumn(bc, 'review_state') |
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# bika_setup_catalog |
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bsc = getToolByName(portal, 'bika_setup_catalog', None) |
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if bsc is None: |
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logger.warning('Could not find the setup catalog tool.') |
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return |
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# noinspection PyBroadException |
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try: |
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bsc.manage_addProduct['ZCTextIndex'].manage_addLexicon( |
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'Lexicon', 'Lexicon', elem) |
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except: |
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logger.warning('Could not add ZCTextIndex to bika_setup_catalog') |
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pass |
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at = getToolByName(portal, 'archetype_tool') |
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at.setCatalogsByType('Department', |
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['bika_setup_catalog', "portal_catalog", ]) |
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at.setCatalogsByType('Container', ['bika_setup_catalog', ]) |
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at.setCatalogsByType('ContainerType', ['bika_setup_catalog', ]) |
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at.setCatalogsByType('AnalysisCategory', ['bika_setup_catalog', ]) |
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at.setCatalogsByType('AnalysisService', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('AnalysisSpec', ['bika_setup_catalog', ]) |
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at.setCatalogsByType('SampleCondition', ['bika_setup_catalog']) |
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at.setCatalogsByType('SampleMatrix', ['bika_setup_catalog', ]) |
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at.setCatalogsByType('SampleType', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('SamplePoint', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('StorageLocation', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('SamplingDeviation', ['bika_setup_catalog', ]) |
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at.setCatalogsByType('IdentifierType', ['bika_setup_catalog', ]) |
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at.setCatalogsByType('Instrument', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('InstrumentType', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('InstrumentLocation', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('Method', ['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('Multifile', ['bika_setup_catalog']) |
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at.setCatalogsByType('AttachmentType', ['bika_setup_catalog', ]) |
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at.setCatalogsByType('Attachment', ['portal_catalog']) |
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at.setCatalogsByType('Calculation', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('AnalysisProfile', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('ARTemplate', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('LabProduct', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('LabContact', |
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['bika_setup_catalog', 'portal_catalog']) |
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at.setCatalogsByType('Manufacturer', |
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['bika_setup_catalog', 'portal_catalog']) |
|
299
|
|
|
at.setCatalogsByType('Preservation', ['bika_setup_catalog', ]) |
|
300
|
|
|
at.setCatalogsByType('ReferenceDefinition', |
|
301
|
|
|
['bika_setup_catalog', 'portal_catalog']) |
|
302
|
|
|
at.setCatalogsByType('SRTemplate', |
|
303
|
|
|
['bika_setup_catalog', 'portal_catalog']) |
|
304
|
|
|
at.setCatalogsByType('SubGroup', ['bika_setup_catalog', ]) |
|
305
|
|
|
at.setCatalogsByType('Supplier', |
|
306
|
|
|
['bika_setup_catalog', 'portal_catalog']) |
|
307
|
|
|
at.setCatalogsByType('Unit', ['bika_setup_catalog', ]) |
|
308
|
|
|
at.setCatalogsByType('WorksheetTemplate', |
|
309
|
|
|
['bika_setup_catalog', 'portal_catalog']) |
|
310
|
|
|
at.setCatalogsByType('BatchLabel', ['bika_setup_catalog', ]) |
|
311
|
|
|
|
|
312
|
|
|
addIndex(bsc, 'path', 'ExtendedPathIndex', 'getPhysicalPath') |
|
313
|
|
|
addIndex(bsc, 'allowedRolesAndUsers', 'KeywordIndex') |
|
314
|
|
|
addIndex(bsc, 'UID', 'FieldIndex') |
|
315
|
|
|
addIndex(bsc, 'SearchableText', 'ZCTextIndex', zc_extras) |
|
316
|
|
|
addIndex(bsc, 'Title', 'ZCTextIndex', zc_extras) |
|
317
|
|
|
addIndex(bsc, 'Description', 'ZCTextIndex', zc_extras) |
|
318
|
|
|
addIndex(bsc, 'id', 'FieldIndex') |
|
319
|
|
|
addIndex(bsc, 'getId', 'FieldIndex') |
|
320
|
|
|
addIndex(bsc, 'Type', 'FieldIndex') |
|
321
|
|
|
addIndex(bsc, 'portal_type', 'FieldIndex') |
|
322
|
|
|
addIndex(bsc, 'created', 'DateIndex') |
|
323
|
|
|
addIndex(bsc, 'Creator', 'FieldIndex') |
|
324
|
|
|
addIndex(bsc, 'getObjPositionInParent', 'GopipIndex') |
|
325
|
|
|
addIndex(bc, 'Identifiers', 'KeywordIndex') |
|
326
|
|
|
|
|
327
|
|
|
addIndex(bsc, 'title', 'FieldIndex', 'Title') |
|
328
|
|
|
addIndex(bsc, 'sortable_title', 'FieldIndex') |
|
329
|
|
|
addIndex(bsc, 'description', 'FieldIndex', 'Description') |
|
330
|
|
|
|
|
331
|
|
|
addIndex(bsc, 'review_state', 'FieldIndex') |
|
332
|
|
|
|
|
333
|
|
|
addIndex(bsc, 'getAccredited', 'FieldIndex') |
|
334
|
|
|
addIndex(bsc, 'getAnalyst', 'FieldIndex') |
|
335
|
|
|
addIndex(bsc, 'getBlank', 'FieldIndex') |
|
336
|
|
|
addIndex(bsc, 'getCalculationTitle', 'FieldIndex') |
|
337
|
|
|
addIndex(bsc, 'getCalculationUID', 'FieldIndex') |
|
338
|
|
|
addIndex(bsc, 'getCalibrationExpiryDate', 'FieldIndex') |
|
339
|
|
|
addIndex(bsc, 'getCategoryTitle', 'FieldIndex') |
|
340
|
|
|
addIndex(bsc, 'getCategoryUID', 'FieldIndex') |
|
341
|
|
|
addIndex(bsc, 'getClientUID', 'FieldIndex') |
|
342
|
|
|
addIndex(bsc, 'getDepartmentTitle', 'FieldIndex') |
|
343
|
|
|
addIndex(bsc, 'getDocumentID', 'FieldIndex') |
|
344
|
|
|
addIndex(bsc, 'getDuplicateVariation', 'FieldIndex') |
|
345
|
|
|
addIndex(bsc, 'getFormula', 'FieldIndex') |
|
346
|
|
|
addIndex(bsc, 'getFullname', 'FieldIndex') |
|
347
|
|
|
addIndex(bsc, 'getHazardous', 'FieldIndex') |
|
348
|
|
|
addIndex(bsc, 'getInstrumentLocationName', 'FieldIndex') |
|
349
|
|
|
addIndex(bsc, 'getInstrumentTitle', 'FieldIndex') |
|
350
|
|
|
addIndex(bsc, 'getInstrumentType', 'FieldIndex') |
|
351
|
|
|
addIndex(bsc, 'getInstrumentTypeName', 'FieldIndex') |
|
352
|
|
|
addIndex(bsc, 'getKeyword', 'FieldIndex') |
|
353
|
|
|
addIndex(bsc, 'getManagerEmail', 'FieldIndex') |
|
354
|
|
|
addIndex(bsc, 'getManagerName', 'FieldIndex') |
|
355
|
|
|
addIndex(bsc, 'getManagerPhone', 'FieldIndex') |
|
356
|
|
|
addIndex(bsc, 'getMaxTimeAllowed', 'FieldIndex') |
|
357
|
|
|
addIndex(bsc, 'getMethodID', 'FieldIndex') |
|
358
|
|
|
addIndex(bsc, 'getAvailableMethodUIDs', 'KeywordIndex') |
|
359
|
|
|
addIndex(bsc, 'getModel', 'FieldIndex') |
|
360
|
|
|
addIndex(bsc, 'getName', 'FieldIndex') |
|
361
|
|
|
addIndex(bsc, 'getPointOfCapture', 'FieldIndex') |
|
362
|
|
|
addIndex(bsc, 'getPrice', 'FieldIndex') |
|
363
|
|
|
addIndex(bsc, 'getSamplePointTitle', 'KeywordIndex') |
|
364
|
|
|
addIndex(bsc, 'getSamplePointUID', 'FieldIndex') |
|
365
|
|
|
addIndex(bsc, 'getSampleTypeTitle', 'FieldIndex') |
|
366
|
|
|
addIndex(bsc, 'getSampleTypeTitles', 'KeywordIndex') |
|
367
|
|
|
addIndex(bsc, 'getSampleTypeUID', 'FieldIndex') |
|
368
|
|
|
addIndex(bsc, 'getServiceUID', 'FieldIndex') |
|
369
|
|
|
addIndex(bsc, 'getServiceUIDs', 'KeywordIndex') |
|
370
|
|
|
addIndex(bsc, 'getTotalPrice', 'FieldIndex') |
|
371
|
|
|
addIndex(bsc, 'getUnit', 'FieldIndex') |
|
372
|
|
|
addIndex(bsc, 'getVATAmount', 'FieldIndex') |
|
373
|
|
|
addIndex(bsc, 'getVolume', 'FieldIndex') |
|
374
|
|
|
addIndex(bsc, 'is_active', 'BooleanIndex') |
|
375
|
|
|
|
|
376
|
|
|
addColumn(bsc, 'path') |
|
377
|
|
|
addColumn(bsc, 'UID') |
|
378
|
|
|
addColumn(bsc, 'id') |
|
379
|
|
|
addColumn(bsc, 'getId') |
|
380
|
|
|
addColumn(bsc, 'Type') |
|
381
|
|
|
addColumn(bsc, 'portal_type') |
|
382
|
|
|
addColumn(bsc, 'getObjPositionInParent') |
|
383
|
|
|
|
|
384
|
|
|
addColumn(bsc, 'Title') |
|
385
|
|
|
addColumn(bsc, 'Description') |
|
386
|
|
|
addColumn(bsc, 'title') |
|
387
|
|
|
addColumn(bsc, 'sortable_title') |
|
388
|
|
|
addColumn(bsc, 'description') |
|
389
|
|
|
addColumn(bsc, 'review_state') |
|
390
|
|
|
addColumn(bsc, 'getAccredited') |
|
391
|
|
|
addColumn(bsc, 'getInstrumentType') |
|
392
|
|
|
addColumn(bsc, 'getInstrumentTypeName') |
|
393
|
|
|
addColumn(bsc, 'getInstrumentLocationName') |
|
394
|
|
|
addColumn(bsc, 'getBlank') |
|
395
|
|
|
addColumn(bsc, 'getCalculationTitle') |
|
396
|
|
|
addColumn(bsc, 'getCalculationUID') |
|
397
|
|
|
addColumn(bsc, 'getCalibrationExpiryDate') |
|
398
|
|
|
addColumn(bsc, 'getCategoryTitle') |
|
399
|
|
|
addColumn(bsc, 'getCategoryUID') |
|
400
|
|
|
addColumn(bsc, 'getClientUID') |
|
401
|
|
|
addColumn(bsc, 'getDepartmentTitle') |
|
402
|
|
|
addColumn(bsc, 'getDuplicateVariation') |
|
403
|
|
|
addColumn(bsc, 'getFormula') |
|
404
|
|
|
addColumn(bsc, 'getFullname') |
|
405
|
|
|
addColumn(bsc, 'getHazardous') |
|
406
|
|
|
addColumn(bsc, 'getInstrumentTitle') |
|
407
|
|
|
addColumn(bsc, 'getKeyword') |
|
408
|
|
|
addColumn(bsc, 'getManagerName') |
|
409
|
|
|
addColumn(bsc, 'getManagerPhone') |
|
410
|
|
|
addColumn(bsc, 'getManagerEmail') |
|
411
|
|
|
addColumn(bsc, 'getMaxTimeAllowed') |
|
412
|
|
|
addColumn(bsc, 'getModel') |
|
413
|
|
|
addColumn(bsc, 'getName') |
|
414
|
|
|
addColumn(bsc, 'getPointOfCapture') |
|
415
|
|
|
addColumn(bsc, 'getPrice') |
|
416
|
|
|
addColumn(bsc, 'getSamplePointTitle') |
|
417
|
|
|
addColumn(bsc, 'getSamplePointUID') |
|
418
|
|
|
addColumn(bsc, 'getSampleTypeTitle') |
|
419
|
|
|
addColumn(bsc, 'getSampleTypeUID') |
|
420
|
|
|
addColumn(bsc, 'getServiceUID') |
|
421
|
|
|
addColumn(bsc, 'getTotalPrice') |
|
422
|
|
|
addColumn(bsc, 'getUnit') |
|
423
|
|
|
addColumn(bsc, 'getVATAmount') |
|
424
|
|
|
addColumn(bsc, 'getVolume') |
|
425
|
|
|
|
|
426
|
|
|
# portal_catalog |
|
427
|
|
|
pc = getToolByName(portal, 'portal_catalog', None) |
|
428
|
|
|
if pc is None: |
|
429
|
|
|
logger.warning('Could not find the portal_catalog tool.') |
|
430
|
|
|
return |
|
431
|
|
|
addIndex(pc, 'Analyst', 'FieldIndex') |
|
432
|
|
|
addColumn(pc, 'Analyst') |
|
433
|
|
|
# TODO: Nmrl |
|
434
|
|
|
addColumn(pc, 'getProvince') |
|
435
|
|
|
addColumn(pc, 'getDistrict') |
|
436
|
|
|
|
|
437
|
|
|
# Setting up all LIMS catalogs defined in catalog folder |
|
438
|
|
|
setup_catalogs(portal, getCatalogDefinitions()) |
|
439
|
|
|
|
|
440
|
|
|
|
|
441
|
|
|
def setupVarious(context): |
|
442
|
|
|
""" |
|
443
|
|
|
Final Bika import steps. |
|
444
|
|
|
""" |
|
445
|
|
|
if context.readDataFile('bika.lims_various.txt') is None: |
|
446
|
|
|
return |
|
447
|
|
|
|
|
448
|
|
|
site = context.getSite() |
|
449
|
|
|
gen = BikaGenerator() |
|
450
|
|
|
gen.setupGroupsAndRoles(site) |
|
451
|
|
|
gen.setupPortalContent(site) |
|
452
|
|
|
gen.setupCatalogs(site) |
|
453
|
|
|
|
|
454
|
|
|
# Hide navbar items no longer used |
|
455
|
|
|
# https://github.com/senaite/senaite.core/pull/1304 |
|
456
|
|
|
hide_navbar_items(site) |
|
457
|
|
|
|
|
458
|
|
|
|
|
459
|
|
|
def hide_navbar_items(portal): |
|
460
|
|
|
"""Remove navbar items that are no longer used |
|
461
|
|
|
""" |
|
462
|
|
|
logger.info("Removing items from navigation bar ...") |
|
463
|
|
|
|
|
464
|
|
|
# Get the list of object ids for portal |
|
465
|
|
|
object_ids = portal.objectIds() |
|
466
|
|
|
object_ids = filter(lambda id: id in object_ids, NAV_BAR_ITEMS_TO_HIDE) |
|
467
|
|
|
for object_id in object_ids: |
|
468
|
|
|
item = portal[object_id] |
|
469
|
|
|
item.setExcludeFromNav(True) |
|
470
|
|
|
item.reindexObject() |
senaite /
senaite.core
