def decipherUser(appletSpecificId):
thisUser = getCurrentUser()
try:
ciphered = FolderModel().load(appletSpecificId,
level=AccessType.NONE,
user=thisUser)
userId = list(FolderModel().find(
query={
'parentId': ciphered['_id'],
'parentCollection': 'folder',
'name': 'userID'
}))
except:
return (None)
try:
cUser = str(userId[0]['meta']['user']['@id']) if len(userId) and type(
userId[0]) == dict and userId[0].get('meta').get('user').get(
'@id') else None
FolderModel().setUserAccess(doc=ciphered,
user=UserModel().load(id=cUser,
user=cUser),
level=AccessType.READ,
save=True,
currentUser=thisUser,
force=True)
return (cUser)
except:
return (None)
def getContext(self):
"""
Get a list of folders with given search parameters. Currently accepted
search modes are:
1. Searching by parentId and parentType, with optional additional
filtering by the name field (exact match) or using full text search
within a single parent folder. Pass a "name" parameter or "text"
parameter to invoke these additional filters.
2. Searching with full text search across all folders in the system.
Simply pass a "text" parameter for this mode.
"""
context = FolderModel().findOne({
'name': 'JSON-LD',
'parentCollection': 'collection',
'parentId': CollectionModel().findOne({
'name': 'Context'
}).get('_id')
})
if context:
return (context.get('meta', {}))
user = self.getCurrentUser()
context = FolderModel().setMetadata(
folder=FolderModel().createFolder(
parent=CollectionModel().createCollection(
name="Context",
creator=user,
public=True,
reuseExisting=True
),
name="JSON-LD",
parentType='collection',
public=True,
creator=user,
reuseExisting=True
),
metadata={
"@context": {
"@language": "en-US",
"@base": rest.getApiUrl(),
"reprolib": REPROLIB_CANONICAL,
"http://schema.org/url": {
"@type": "@id"
}
}
}
)
return (context.get('meta', {}))
def initHistoryData(self,
historyFolder,
referencesFolder,
protocolId,
user,
activityIDRef={},
itemIDRef={}):
from girderformindlogger.utility import jsonld_expander
from girderformindlogger.models.item import Item as ItemModel
activities = list(FolderModel().find(
{'meta.protocolId': ObjectId(protocolId)}))
items = list(ItemModel().find(
{'meta.protocolId': ObjectId(protocolId)}))
protocol = self.load(protocolId, force=True)
schemaVersion = protocol['meta'].get('protocol',
{}).get('schema:version', None)
currentVersion = schemaVersion[0].get(
'@value', '0.0.0') if schemaVersion else '0.0.0'
activityIdToHistoryObj = {}
for activity in activities:
identifier = activity['meta'].get('activity', {}).get('url', None)
if identifier:
activityId = str(activity['_id'])
if activityId in activityIDRef:
activity['_id'] = activityIDRef[activityId]
activityId = str(activityIDRef[activityId])
activityIdToHistoryObj[
activityId] = jsonld_expander.insertHistoryData(
activity, identifier, 'activity', currentVersion,
historyFolder, referencesFolder, user)
for item in items:
identifier = item['meta'].get('screen', {}).get('url', None)
if identifier:
if str(item['_id']) in itemIDRef:
item['_id'] = itemIDRef[str(item['_id'])]
if str(item['meta']['activityId']) in activityIDRef:
item['meta']['activityId'] = activityIDRef[str(
item['meta']['activityId'])]
activityHistoryObj = activityIdToHistoryObj[str(
item['meta']['activityId'])]
item['meta'].update({
'originalActivityId':
item['meta']['activityId'],
'activityId':
activityHistoryObj['_id']
})
jsonld_expander.insertHistoryData(item, identifier, 'screen',
currentVersion,
historyFolder,
referencesFolder, user)
def getSkin(lang="en-US"):
"""
Function to return the context for the current instance.
:param language: ISO language string, optional
:type language: None
:returns: context dict
"""
contextCollection = CollectionModel().findOne({'name': 'Context'})
skinFolder = FolderModel().findOne({
'name': 'Skin',
'parentCollection': 'collection',
'parentId': contextCollection.get('_id')
}) if contextCollection else None
defaultSkin = {
'name': '',
'colors': {
'primary': '#000000',
'secondary': '#FFFFFF'
},
'about': ''
}
skin = skinFolder.get(
'meta', defaultSkin) if skinFolder is not None else defaultSkin
for s in ['name', 'about']:
lookup = jsonld_expander.getByLanguage(
skin.get(s, ""),
lang if lang and lang not in ["@context.@language", ""] else None)
skin[s] = lookup if lookup and lookup not in [
None,
[{}],
] else jsonld_expander.getByLanguage(skin[s], None)
skin[s] = jsonld_expander.fileObjectToStr(skin[s][0]) if isinstance(
skin[s], list) and len(skin[s]) else skin[s]
return (skin)
def __init__(self):
super(Activity, self).__init__()
self.resourceName = 'activity'
self._model = FolderModel()
# TODO: self.route('PUT', (':id'), self.deactivateActivity)
# TODO: self.route('PUT', ('version', ':id'), self.deactivateActivity)
self.route('GET', (':id', ), self.getActivity)
self.route('GET', (), self.getActivityByURL)
def selfAssignment():
thisUser = Applet().getCurrentUser()
assignmentsFolder = FolderModel().createFolder(parent=thisUser,
parentType='user',
name='Assignments',
creator=thisUser,
public=False,
reuseExisting=True)
return ((assignmentsFolder, 'folder'))
def getUserCipher(appletAssignment, user):
"""
Returns an applet-specific user ID.
Parameters
----------
appletAssignment: Mongo Folder cursor
Applet folder in Assignments collection
user: string or list
applet-specific ID, canonical ID or email address
Returns
-------
user: string
applet-specific ID
"""
if not isinstance(user, str):
return ([getUserCipher(appletAssignment, u) for u in list(user)])
thisUser = getCurrentUser()
appletAssignments = list(FolderModel().childFolders(
parent=appletAssignment, parentType='folder', user=thisUser))
allCiphers = list(
itertools.chain.from_iterable([
list(FolderModel().find(
query={
'parentId': assignment.get('_id'),
'parentCollection': 'folder',
'name': 'userID'
})) for assignment in appletAssignments
])) if len(appletAssignments) else []
cUser = getCanonicalUser(user)
aUser = [
cipher['parentId'] for cipher in allCiphers
if (cipher['meta']['user']['@id'] == cUser)
if cipher.get('meta') and cipher['meta'].get('user')
and cipher['meta']['user'].get('@id') and cipher.get('parentId')
] if cUser and len(allCiphers) else []
aUser = aUser[0] if len(aUser) else createCipher(
appletAssignment, appletAssignments,
cUser if cUser is not None else user)['_id']
return (str(aUser))
def createScreen(self, activity, screenName=None):
thisUser = self.getCurrentUser()
activity = ActivityModel().load(activity,
level=AccessType.WRITE,
user=thisUser)
screen = ScreenModel().createScreen(
name=screenName if screenName is not None else
str(len(list(FolderModel().childItems(activity))) + 1),
creator=thisUser,
folder=activity,
reuseExisting=False)
return (jsonld_expander._fixUpFormat(
jsonld_expander.formatLdObject(screen, 'screen', thisUser)))
def createHistoryFolders(self, protocolId, user):
protocol = self.load(protocolId, force=True)
updated = False
# add folder to save historical data
if not protocol['meta'].get('historyId', None):
historyFolder = FolderModel().createFolder(name='history of ' +
protocol['name'],
parent=protocol,
parentType='folder',
public=False,
creator=user,
allowRename=True,
reuseExisting=False)
protocol['meta']['historyId'] = historyFolder['_id']
updated = True
else:
historyFolder = FolderModel().load(protocol['meta']['historyId'],
force=True)
if not historyFolder.get('meta', {}).get('referenceId', None):
referencesFolder = FolderModel().createFolder(
name='reference of history data for ' + protocol['name'],
parent=historyFolder,
parentType='folder',
public=False,
creator=user,
allowRename=True,
reuseExisting=False,
)
historyFolder = FolderModel().setMetadata(
historyFolder, {'referenceId': referencesFolder['_id']})
else:
referencesFolder = FolderModel().load(
historyFolder['meta']['referenceId'], force=True)
# add folder to save contents
if not protocol['meta'].get('contentId', None):
contentFolder = FolderModel().createFolder(name='content of ' +
protocol['name'],
parent=protocol,
parentType='folder',
public=False,
creator=user,
allowRename=True,
reuseExisting=False)
protocol['meta']['contentId'] = contentFolder['_id']
updated = True
if updated:
protocol = self.setMetadata(protocol, protocol['meta'])
return (historyFolder, referencesFolder)
def __init__(self):
super(Folder, self).__init__()
self.resourceName = 'folder'
self._model = FolderModel()
self.route('DELETE', (':id',), self.deleteFolder)
self.route('DELETE', (':id', 'contents'), self.deleteContents)
self.route('GET', (), self.find)
self.route('GET', (':id',), self.getFolder)
self.route('GET', (':id', 'details'), self.getFolderDetails)
self.route('GET', (':id', 'access'), self.getFolderAccess)
self.route('GET', (':id', 'download'), self.downloadFolder)
self.route('GET', (':id', 'rootpath'), self.rootpath)
self.route('POST', (), self.createFolder)
self.route('PUT', (':id',), self.updateFolder)
self.route('PUT', (':id', 'access'), self.updateFolderAccess)
self.route('POST', (':id', 'copy'), self.copyFolder)
self.route('PUT', (':id', 'metadata'), self.setMetadata)
self.route('DELETE', (':id', 'metadata'), self.deleteMetadata)
def getByLanguage(object, tag=None):
"""
Function to get a value or IRI by a language tag following
https://tools.ietf.org/html/bcp47.
:param object: The JSON-LD Object to language-parse
:type object: dict or list
:param tag: The language tag to use.
:type tag: str
:returns: str, either a literal or an IRI.
"""
if not tag:
from girderformindlogger.api.v1.context import Context
tag = FolderModel().findOne({
'name':
'JSON-LD',
'parentCollection':
'collection',
'parentId':
CollectionModel().findOne({
'name': 'Context'
}).get('_id')
})
tag = tag.get('meta', {}).get('@context',
{}).get('@language') if tag else None
if isinstance(tag, str):
tags = getMoreGeneric(tag)
tags = tags + ["@{}".format(t) for t in tags]
tags.sort(key=len, reverse=True)
if isinstance(object, dict):
return (getFromLongestMatchingKey(object,
tags,
caseInsensitive=True))
if isinstance(object, list):
return ([
getFromLongestMatchingValue(objectList=object,
listOfValues=tags,
keyToMatch='@language',
caseInsensitive=True)
])
if isinstance(object, str):
return (object)
def authorizeReviewer(applet, reviewer, user):
thisUser = Applet().getCurrentUser()
user = UserModel().load(user, level=AccessType.NONE, user=thisUser)
try:
applet = FolderModel().load(applet,
level=AccessType.READ,
user=thisUser)
responsesCollection = FolderModel().createFolder(parent=user,
name='Responses',
parentType='user',
public=False,
creator=thisUser,
reuseExisting=True)
thisApplet = list(FolderModel().childFolders(
parent=responsesCollection,
parentType='folder',
user=thisUser,
filters={'meta.applet.@id': str(applet['_id'])}))
thisApplet = thisApplet[0] if len(thisApplet) else FolderModel(
).setMetadata(
FolderModel().createFolder(
parent=responsesCollection,
name=FolderModel().preferredName(applet),
parentType='folder',
public=False,
creator=thisUser,
allowRename=True,
reuseExisting=False), {'applet': {
'@id': str(applet['_id'])
}})
accessList = thisApplet['access']
accessList['users'].append({"id": reviewer, "level": AccessType.READ})
thisApplet = FolderModel().setAccessList(thisApplet,
accessList,
save=True,
recurse=True,
user=thisUser)
except:
thisApplet = None
return (thisApplet)
def _invite(applet, user, role, rsvp, subject):
"""
Helper function to invite a user to an applet.
:param applet: Applet to invite user to
:type applet: AppletModel
:param user: ID (canonical or applet-specific) or email address of user to
invite
:type user: string
:param role: Role to invite user to
:type role: string
:param rsvp: Require user acceptance?
:type rsvp: boolean
:param subject: Subject about 'user' role can inform or about which
'reviewer' role can review
:type subject: string or literal
:returns: New assignment (dictionary)
"""
if role not in USER_ROLE_KEYS:
raise ValidationException('Invalid role.', 'role')
thisUser = Applet().getCurrentUser()
user = user if user else str(thisUser['_id'])
if mail_utils.validateEmailAddress(user):
user = UserModel().hash(user)
if bool(rsvp):
groupName = {'title': '{} {}s'.format(str(applet.get('_id')), role)}
groupName['lower'] = groupName.get('title', '').lower()
group = GroupModel().findOne(query={'lowerName': groupName['lower']})
if not group or group is None:
group = GroupModel().createGroup(
name=groupName['title'],
creator=thisUser,
public=bool(role in ['manager', 'reviewer']))
try:
assignments = CollectionModel().createCollection(name="Assignments",
public=True,
reuseExisting=True)
assignmentType = 'collection'
except AccessException:
assignments, assignmentType = selfAssignment()
appletAssignment = list(FolderModel().childFolders(
parent=assignments,
parentType=assignmentType,
user=thisUser,
filters={
'meta.applet.@id': str(applet['_id']) if '_id' in applet else None
}))
appletAssignment = appletAssignment[0] if len(
appletAssignment) else FolderModel().setMetadata(
FolderModel().createFolder(
parent=assignments,
name=FolderModel().preferredName(applet),
parentType=assignmentType,
public=False,
creator=thisUser,
allowRename=True,
reuseExisting=False), {
'applet': {
'@id': str(applet['_id']) if '_id' in applet else None
}
})
meta = appletAssignment.get('meta', {})
members = meta.get('members',
[]) if meta.get('members') is not None else []
cUser = getUserCipher(appletAssignment, user)
subject = subject.upper() if subject is not None and subject.upper(
) in SPECIAL_SUBJECTS else getUserCipher(
appletAssignment,
str(thisUser['_id']) if subject is None else subject)
thisAppletAssignment = {
'@id': str(cUser),
'roles': {
role: True if role not in ['reviewer', 'user'] else [subject]
}
}
for i, u in enumerate(members):
if '@id' in u and u["@id"] == str(cUser):
thisAppletAssignment = members.pop(i)
if 'roles' not in thisAppletAssignment:
thisAppletAssignment['roles'] = {}
thisAppletAssignment['roles'][role] = True if role not in [
'reviewer', 'user'
] else [subject] if (subject in SPECIAL_SUBJECTS) or (
'reviewer' not in thisAppletAssignment['roles']) else list(
set(thisAppletAssignment['roles']['reviewer'] +
[subject]).difference(set(SPECIAL_SUBJECTS))
) if "ALL" not in thisAppletAssignment['roles'][
'reviewer'] else ["ALL"]
members.append(thisAppletAssignment)
meta['members'] = members
appletAssignment = FolderModel().setMetadata(appletAssignment, meta)
authorizeReviewers(appletAssignment)
return (appletAssignment)
def load(self,
id,
level=AccessType.ADMIN,
user=None,
objectId=True,
force=False,
fields=None,
exc=False):
"""
We override load in order to ensure the folder has certain fields
within it, and if not, we add them lazily at read time. Also, this
method will return a specific version of an Activity if given an
Activity version ID or the latest version of an Activity if given an
Activity ID.
:param id: The id of the resource.
:type id: string or ObjectId
:param user: The user to check access against.
:type user: dict or None
:param level: The required access type for the object.
:type level: AccessType
:param force: If you explicitly want to circumvent access
checking on this resource, set this to True.
:type force: bool
"""
# Ensure we include extra fields to do the migration below
extraFields = {
'baseParentId', 'baseParentType', 'parentId', 'parentCollection',
'name', 'lowerName'
}
loadFields = self._supplementFields(fields, extraFields)
doc = super(FolderModel, self).load(id=id,
level=level,
user=user,
objectId=objectId,
force=force,
fields=loadFields,
exc=exc)
if doc is not None:
pathFromRoot = FolderModel().parentsToRoot(doc,
user=user,
force=True)
if 'baseParentType' not in doc:
baseParent = pathFromRoot[0]
doc['baseParentId'] = baseParent['object']['_id']
doc['baseParentType'] = baseParent['type']
self.update({'_id': doc['_id']}, {
'$set': {
'baseParentId': doc['baseParentId'],
'baseParentType': doc['baseParentType']
}
})
if 'lowerName' not in doc:
doc['lowerName'] = doc['name'].lower()
self.update({'_id': doc['_id']},
{'$set': {
'lowerName': doc['lowerName']
}})
if '_modelType' not in doc:
doc['_modelType'] = 'folder'
self._removeSupplementalFields(doc, fields)
try:
parent = pathFromRoot[-1]['object']
if (parent['name'] in {"Activitysets", "Protocols"}
and doc['baseParentType'] in {'collection', 'user'}):
"""
Check if parent is "Protocols" collection or user
folder, ie, if this is a Protocol. If so, return
Protocol.
"""
return (doc)
except:
raise ValidationException("Invalid Protocol ID.")
def getHistoryDataFromItemIRIs(self, protocolId, IRIGroup):
from girderformindlogger.models.item import Item as ItemModel
from girderformindlogger.utility import jsonld_expander
protocol = self.load(protocolId, force=True)
items = {}
activities = {}
itemReferences = {}
result = {
'items': items,
'activities': activities,
'itemReferences': itemReferences
}
if 'historyId' not in protocol.get('meta', {}):
return result
historyFolder = FolderModel().load(protocol['meta']['historyId'],
force=True)
if 'referenceId' not in historyFolder.get('meta', {}):
return result
referencesFolder = FolderModel().load(
historyFolder['meta']['referenceId'], force=True)
itemModel = ItemModel()
for IRI in IRIGroup:
reference = itemModel.findOne({
'folderId': referencesFolder['_id'],
'meta.identifier': IRI
})
if not reference:
continue
history = reference['meta']['history']
for version in IRIGroup[IRI]:
if version not in itemReferences:
itemReferences[version] = {}
inserted = False
for i in range(0, len(history)):
if self.compareVersions(version,
history[i]['version']) <= 0:
if not history[i].get('reference', None):
continue
if history[i]['reference'] not in items:
(modelType,
referenceId) = history[i]['reference'].split('/')
model = MODELS()[modelType]().findOne(
{'_id': ObjectId(referenceId)})
items[history[i]
['reference']] = jsonld_expander.loadCache(
model['cached'])
activityId = str(model['meta']['activityId'])
if activityId not in activities:
activities[
activityId] = jsonld_expander.loadCache(
FolderModel().load(
activityId, force=True)['cached'])
if history[i]['reference']:
itemReferences[version][IRI] = history[i][
'reference']
inserted = True
break
if not inserted:
itemReferences[version][
IRI] = None # this is same as latest version
return result
def loadFromSingleFile(document, user):
if 'protocol' not in document or 'data' not in document['protocol']:
raise ValidationException(
'should contain protocol field in the json file.', )
if 'activities' not in document['protocol']:
raise ValidationException(
'should contain activities field in the json file.', )
contexts = document.get('contexts', {})
protocol = {'protocol': {}, 'activity': {}, 'screen': {}}
expandedProtocol = expandObj(contexts, document['protocol']['data'])
protocol['protocol'][expandedProtocol['@id']] = {
'expanded': expandedProtocol
}
protocolId = None
for activity in document['protocol']['activities'].values():
expandedActivity = expandObj(contexts, activity['data'])
protocol['activity'][expandedActivity['@id']] = {
'parentKey': 'protocol',
'parentId': expandedProtocol['@id'],
'expanded': expandedActivity
}
if 'items' not in activity:
raise ValidationException(
'should contain at least one item in each activity.', )
for item in activity['items'].values():
expandedItem = expandObj(contexts, item)
protocol['screen'][expandedItem['@id']] = {
'parentKey': 'activity',
'parentId': expandedActivity['@id'],
'expanded': expandedItem
}
for modelType in ['protocol', 'activity', 'screen']:
modelClass = MODELS()[modelType]()
docCollection = getModelCollection(modelType)
for model in protocol[modelType].values():
prefName = modelClass.preferredName(model['expanded'])
if modelClass.name in ['folder', 'item']:
docFolder = FolderModel().createFolder(
name=prefName,
parent=docCollection,
parentType='collection',
public=True,
creator=user,
allowRename=True,
reuseExisting=(modelType != 'applet'))
metadata = {modelType: model['expanded']}
tmp = model
while tmp.get('parentId', None):
key = tmp['parentKey']
tmp = protocol[key][tmp['parentId']]
metadata['{}Id'.format(key)] = '{}/{}'.format(
MODELS()[key]().name, tmp['_id'])
if modelClass.name == 'folder':
newModel = modelClass.setMetadata(docFolder, metadata)
elif modelClass.name == 'item':
newModel = modelClass.setMetadata(
modelClass.createItem(
name=prefName if prefName else str(
len(
list(FolderModel().childItems(
FolderModel().load(docFolder,
level=None,
user=user,
force=True)))) + 1),
creator=user,
folder=docFolder,
reuseExisting=True), metadata)
# we don't need this in the future because we will only using single-file-format
modelClass.update({'_id': newModel['_id']},
{'$set': {
'loadedFromSingleFile': True
}})
if modelType != 'protocol':
formatted = _fixUpFormat(
formatLdObject(newModel,
mesoPrefix=modelType,
user=user,
refreshCache=False))
createCache(newModel, formatted, modelType, user)
model['_id'] = newModel['_id']
if modelType == 'protocol':
protocolId = newModel['_id']
return formatLdObject(ProtocolModel().load(protocolId, force=True),
mesoPrefix='protocol',
user=user,
refreshCache=False)
def createCipher(applet, appletAssignments, user):
thisUser = getCurrentUser()
cUser = None
try:
cUser = UserModel().load(user, level=AccessType.NONE, user=thisUser)
except:
cur_config = config.getConfig()
if not re.match(cur_config['users']['email_regex'], user):
raise ValidationException('Invalid email address.', 'user')
newCipher = FolderModel().createFolder(parent=applet,
name=nextCipher(appletAssignments),
parentType='folder',
public=False,
creator=thisUser,
reuseExisting=True)
if cUser is None:
try:
appletName = FolderModel().preferredName(FolderModel().load(
applet['meta']['applet']['@id'],
level=AccessType.NONE,
user=thisUser)['name'])
except:
raise ValidationException('Invalid assignment folder.', 'applet')
try:
cUser = UserModel().createUser(login="******".join(
[appletName.replace(' ', ''),
str(newCipher['name'])]),
password=str(uuid.uuid4()),
firstName=appletName,
email=user,
admin=False,
public=False,
currentUser=thisUser)
except:
cUser = UserModel().createUser(login="******".join([
appletName.replace(' ', ''),
str(applet['meta']['applet']['@id']),
str(FolderModel().preferredName(newCipher))
]),
password=str(uuid.uuid4()),
firstName=appletName,
email=user,
admin=False,
public=False,
currentUser=thisUser)
newSecretCipher = FolderModel().setMetadata(
FolderModel().createFolder(parent=newCipher,
name='userID',
parentType='folder',
public=False,
creator=thisUser,
reuseExisting=True),
{'user': {
'@id': str(cUser['_id'])
}})
FolderModel().setAccessList(doc=newSecretCipher,
access={
'users': [],
'groups': []
},
save=True,
user=thisUser,
force=True)
for u in [thisUser, cUser]:
FolderModel().setUserAccess(doc=newSecretCipher,
user=u,
level=None,
save=True,
currentUser=thisUser,
force=True)
for u in [thisUser, cUser]:
FolderModel().setUserAccess(doc=newSecretCipher,
user=u,
level=AccessType.READ,
save=True,
currentUser=thisUser,
force=True)
return (newCipher)
def importAndCompareModelType(model, url, user, modelType):
import threading
from girderformindlogger.utility import firstLower
if model is None:
return (None, None)
mt = model.get('@type', '')
mt = mt[0] if isinstance(mt, list) else mt
atType = mt.split('/')[-1].split(':')[-1]
modelType = firstLower(atType) if len(atType) else modelType
modelType = 'screen' if modelType.lower(
) == 'field' else 'protocol' if modelType.lower(
) == 'activityset' else modelType
changedModel = ((atType != modelType and len(atType))
or (" " in modelType))
modelType = firstLower(atType) if changedModel else modelType
modelType = 'screen' if modelType.lower(
) == 'field' else 'protocol' if modelType.lower(
) == 'activityset' else modelType
modelClass = MODELS()[modelType]()
prefName = modelClass.preferredName(model)
cachedDocObj = {}
model = expand(url)
print("Loaded {}".format(": ".join([modelType, prefName])))
docCollection = getModelCollection(modelType)
if modelClass.name in ['folder', 'item']:
docFolder = FolderModel().createFolder(
name=prefName,
parent=docCollection,
parentType='collection',
public=True,
creator=user,
allowRename=True,
reuseExisting=(modelType != 'applet'))
if modelClass.name == 'folder':
newModel = modelClass.setMetadata(
docFolder,
{modelType: {
**model, 'schema:url': url,
'url': url
}})
elif modelClass.name == 'item':
newModel = modelClass.setMetadata(
modelClass.createItem(name=prefName if prefName else str(
len(
list(FolderModel().childItems(FolderModel().load(
docFolder, level=None, user=user, force=True)))) +
1),
creator=user,
folder=docFolder,
reuseExisting=True),
{modelType: {
**model, 'schema:url': url,
'url': url
}})
formatted = _fixUpFormat(
formatLdObject(newModel,
mesoPrefix=modelType,
user=user,
refreshCache=True))
createCache(newModel, formatted, modelType, user)
return (formatted, modelType)
def cycleModels(IRIset, modelType=None, meta={}):
from girderformindlogger.constants import HIERARCHY, REPROLIB_TYPES
from girderformindlogger.models.folder import Folder as FolderModel
from girderformindlogger.models.item import Item as ItemModel
from girderformindlogger.utility.jsonld_expander import reprolibCanonize
cachedDoc = None
primary = [modelType] if isinstance(
modelType, str) else [] if modelType is None else modelType
secondary = [m for m in HIERARCHY if m not in primary]
del modelType
if len(primary):
query = {
'$and': [
{ # search by type
'$or': [{
'meta.{}.@type'.format(modelType): {
"$in": [
t for t in [
reprolibCanonize(REPROLIB_TYPES[modelType]
), 'reproschema:{}'.
format(suffix), 'reprolib:{}'.format(
suffix), 'reprolib:schemas/{}'.format(
suffix), suffix
] if t is not None
]
for suffix in
[REPROLIB_TYPES[modelType].split('/')[-1]]
}
} for modelType in primary if modelType in REPROLIB_TYPES]
},
{ # search by url
'$or': [{
'meta.{}.url'.format(modelType): {
'$in': list(IRIset)
}
} for modelType in primary if modelType in REPROLIB_TYPES]
},
*[{
'meta.{}'.format(key): meta[key]
} for key in meta]
]
}
cachedDoc = (FolderModel()
if not any(['screen' in primary, 'item' in primary]) else
ItemModel()).findOne(query)
if cachedDoc is None:
query = {
'$and': [{
'$or': [{
'meta.{}.@type'.format(modelType): {
"$in": [
t for t in [
reprolibCanonize(REPROLIB_TYPES[modelType]),
'reproschema:{}'.format(
suffix), 'reprolib:{}'.format(suffix),
'reprolib:schemas/{}'.format(suffix), suffix
] if t is not None
]
for suffix in
[REPROLIB_TYPES[modelType].split('/')[-1]]
}
} for modelType in secondary if modelType in REPROLIB_TYPES]
}, {
'$or': [{
'meta.{}.url'.format(modelType): {
'$in': list(IRIset)
}
} for modelType in secondary if modelType in REPROLIB_TYPES]
}, *[{
'meta.{}'.format(key): meta[key]
} for key in meta]]
}
cachedDoc = FolderModel().findOne(query)
if cachedDoc is None:
cachedDoc = ItemModel().findOne(query)
if cachedDoc is None:
return (None, None)
modelType = [
rt for rt in list(REPROLIB_TYPES.keys())
if '@type' in cachedDoc.get('meta', {}).get(rt, {})
]
modelType = modelType[0] if len(modelType) else None
print("Found {}/{}".format(modelType, str(cachedDoc['_id'])))
return (modelType, cachedDoc)
def __init__(self):
super(Context, self).__init__()
self.resourceName = 'context'
self._model = FolderModel()
self.route('GET', (), self.getContext)
self.route('GET', ('skin',), self.getSkin)