class Extra:
funds_obligated_amt = ctx.fundsObligatedAmt
award_id = ctx.id
awardee_name = tools.Try(ctx.awardeeName)
awardee_city = ctx.awardeeCity
awardee_state_code = tools.Try(ctx.awardeeStateCode)
date = ctx.date
class CreativeWork(Parser):
schema = tools.RunPython('get_type', ctx)
title = tools.RunPython('get_title', ctx)
description = Soup(ctx, 'p', class_='genericfile_description')['#text']
date_published = tools.ParseDate(
Soup(ctx, itemprop='datePublished')['#text'])
date_updated = tools.ParseDate(Soup(ctx, itemprop='dateModified')['#text'])
rights = tools.OneOf(tools.RunPython('get_rights_url', ctx),
tools.RunPython('get_dd', ctx, 'Rights')['#text'],
tools.Static(None))
language = tools.Try(
tools.ParseLanguage(Soup(ctx, itemprop='inLanguage')['#text']))
tags = tools.Map(tools.Delegate(ThroughTags), Soup(ctx,
itemprop='keywords'))
identifiers = tools.Map(
tools.Delegate(WorkIdentifier),
tools.Try(tools.RunPython('get_dd', ctx, 'Permanent Link')),
)
related_agents = tools.Concat(
tools.Map(tools.Delegate(Creator), Soup(ctx, itemprop='creator')),
tools.Map(tools.Delegate(Contributor), Soup(ctx,
itemprop='contributor')),
tools.Map(tools.Delegate(Publisher), Soup(ctx, itemprop='publisher')),
)
class Extra:
gwu_unit = tools.RunPython('get_dd', ctx, 'GW Unit')['#text']
related_url = tools.RunPython('get_dd', ctx, 'Related URL')['#text']
previous_publication_information = tools.RunPython(
'get_dd', ctx, 'Previous Publication Information')['#text']
depositor = tools.RunPython('get_dd', ctx, 'Depositor')['#text']
characterization = tools.RunPython('get_dd', ctx,
'Characterization')['#text']
def get_type(self, obj):
return {
'http://schema.org/CreativeWork': 'CreativeWork',
'http://schema.org/Article': 'Article',
'http://schema.org/Book': 'Book',
}.get(obj.soup.find('div')['itemtype'], 'CreativeWork')
def get_title(self, obj):
title = obj.h1.soup
title.find('span', class_='label').decompose()
return title.get_text()
def get_dd(self, obj, dt):
dt_tag = obj.soup.find('dt', string=dt)
if dt_tag:
return SoupXMLDict(soup=dt_tag.find_next_sibling('dd'))
return None
def get_rights_url(self, obj):
dd = self.get_dd(obj, 'Rights')
return dd.soup.find('i', class_='glyphicon-new-window').parent['href']
class Extra:
name_identifier = tools.Try(ctx.nameIdentifier)
name_identifier_scheme = tools.Try(
ctx.nameIdentifier['@nameIdentifierScheme'])
name_identifier_scheme_uri = tools.Try(
ctx.nameIdentifier['@schemeURI'])
contributor_type = tools.Try(ctx.contributorType)
class Person(Parser):
given_name = tools.ParseName(ctx.author).first
family_name = tools.ParseName(ctx.author).last
additional_name = tools.ParseName(ctx.author).middle
suffix = tools.ParseName(ctx.author).suffix
identifiers = tools.Map(
tools.Delegate(AgentIdentifier, tools.Try(ctx.email)))
related_agents = tools.Map(tools.Delegate(IsAffiliatedWith),
tools.Try(ctx.institution))
class Extra:
status = tools.Try(ctx.record.header['@status'])
entry_id = tools.Try(ctx.record.metadata.DIF.Entry_ID)
metadata_name = tools.Try(ctx.record.metadata.DIF.Metadata_Name)
metadata_version = tools.Try(ctx.record.metadata.DIF.Metadata_Version)
last_dif_revision_date = tools.Try(ctx.record.metadata.DIF.Last_DIF_Revision_Date)
set_spec = ctx.record.header.setSpec
class MODSAgent(Parser):
schema = tools.RunPython('get_agent_schema', ctx)
name = tools.OneOf(tools.RunPython(force_text, ctx['mods:displayForm']),
tools.RunPython('squash_name_parts', ctx))
related_agents = tools.Map(
tools.Delegate(IsAffiliatedWith),
tools.Concat(
tools.Try(
tools.Filter(
lambda x: bool(x),
tools.RunPython(force_text, ctx['mods:affiliation'])))))
identifiers = tools.Map(
tools.Delegate(MODSAgentIdentifier),
tools.Unique(
tools.Map(
tools.Try(tools.IRI(), exceptions=(ValueError, )),
tools.Map(
tools.RunPython(force_text),
tools.Filter(
lambda obj: 'invalid' not in obj,
tools.Try(ctx['mods:nameIdentifier']),
)))))
class Extra:
name_type = tools.Try(ctx['@type'])
name_part = tools.Try(ctx['mods:namePart'])
affiliation = tools.Try(ctx['mods:affiliation'])
description = tools.Try(ctx['mods:description'])
display_form = tools.Try(ctx['mods:displayForm'])
etal = tools.Try(ctx['mods:etal'])
name_identifier = tools.Try(ctx['mods:nameIdentifier'])
def squash_name_parts(self, name):
name_parts = get_list(name, 'mods:namePart')
return ' '.join([force_text(n) for n in name_parts])
def get_agent_schema(self, obj):
name_type = obj.get('@type')
if name_type == 'personal':
return 'person'
if name_type == 'conference':
return 'organization'
# TODO SHARE-718
# if name_type == 'family':
# return 'family'
if name_type == 'corporate':
return GuessAgentTypeLink(default='organization').execute(
self.squash_name_parts(obj))
return GuessAgentTypeLink().execute(self.squash_name_parts(obj))
class Extra:
"""
Fields that are combined in the base parser are relisted as singular elements that match
their original entry to preserve raw data structure.
"""
freeToRead = tools.Try(ctx.freeToRead)
languages = tools.Try(ctx.languages)
licenses = tools.Try(ctx.licenses)
otherProperties = tools.Try(ctx.otherProperties)
publisher = tools.Try(ctx.publisher)
subjects = tools.Try(ctx.subjects)
sponsorships = tools.Try(ctx.sponsorships)
tags = tools.Try(ctx.tags)
uris = tools.Try(ctx.uris)
version = tools.Try(ctx.version)
class FunderAgent(Parser):
schema = tools.GuessAgentType(tools.OneOf(ctx.funderName,
ctx.contributorName),
default='organization')
name = tools.OneOf(ctx.funderName, ctx.contributorName)
identifiers = tools.Map(
tools.Delegate(AgentIdentifier),
tools.Try(tools.IRI(
tools.OneOf(ctx.funderIdentifier,
tools.RunPython(force_text, ctx.nameIdentifier),
tools.Static(None))),
exceptions=(ValueError, )))
class Extra:
name_identifier = tools.Try(ctx.nameIdentifier)
name_identifier_scheme = tools.Try(
ctx.nameIdentifier['@nameIdentifierScheme'])
name_identifier_scheme_uri = tools.Try(
ctx.nameIdentifier['@schemeURI'])
funder_identifier = tools.Try(ctx.funderIdentifier)
funder_identifier_type = tools.Try(ctx.funderIdentifierType)
contributor_type = tools.Try(ctx.contributorType)
class Extra:
name_identifier = tools.Try(ctx.nameIdentifier)
name_identifier_scheme = tools.Try(
ctx.nameIdentifier['@nameIdentifierScheme'])
name_identifier_scheme_uri = tools.Try(
ctx.nameIdentifier['@schemeURI'])
contributor_type = tools.Try(ctx.contributorType)
# v.4 new givenName and familyName properties
given_name = tools.OneOf(ctx.creatorName['@givenName'],
ctx.contributorName['@givenName'],
tools.Static(None))
family_name = tools.OneOf(ctx.creatorName['@familyName'],
ctx.contributorName['@familyName'],
tools.Static(None))
def get_root_parser(self,
unwrapped,
emitted_type='creativework',
type_map=None,
property_list=None,
**kwargs):
root_type_map = {
**{r.lower(): r
for r in self.allowed_roots},
**{t.lower(): v
for t, v in (type_map or {}).items()}
}
class RootParser(OAICreativeWork):
default_type = emitted_type.lower()
type_map = root_type_map
if property_list:
logger.debug(
'Attaching addition properties %s to transformer for %s'.
format(property_list, self.config.label))
for prop in property_list:
if prop in RootParser._extra:
logger.warning('Skipping property %s, it already exists',
prop)
continue
RootParser._extra[prop] = tools.Try(
ctx.record.metadata.dc['dc:' + prop]).chain()[0]
return RootParser
class Person(Parser):
given_name = tools.OneOf(
ctx.embeds.users.data.attributes.given_name,
ctx.embeds.users.errors[0].meta.given_name,
)
family_name = tools.OneOf(
ctx.embeds.users.data.attributes.family_name,
ctx.embeds.users.errors[0].meta.family_name,
)
additional_name = tools.OneOf(
ctx.embeds.users.data.attributes.middle_names,
ctx.embeds.users.errors[0].meta.middle_names,
)
suffix = tools.OneOf(
ctx.embeds.users.data.attributes.suffix,
ctx.embeds.users.errors[0].meta.suffix,
)
identifiers = tools.Map(
tools.Delegate(AgentIdentifier),
tools.RunPython('registered', ctx.embeds.users.data.links.html),
tools.Try(ctx.embeds.users.data.links.profile_image),
)
class Extra:
locale = tools.Try(ctx.embeds.users.data.attributes.locale)
date_registered = tools.Try(
ctx.embeds.users.data.attributes.date_registered)
active = tools.Try(ctx.embeds.users.data.attributes.active)
timezone = tools.Try(ctx.embeds.users.data.attributes.timezone)
def registered(self, context):
if self.context['attributes']['unregistered_contributor']:
return None
return context
class FundingAgent(Parser):
schema = tools.GuessAgentType(ctx.sponsorName, default='organization')
name = ctx.sponsorName
identifiers = tools.Map(tools.Delegate(AgentIdentifier),
tools.IRI(tools.Try(ctx.sponsorIdentifier)))
class Project(CreativeWork):
is_root = True
related_works = tools.Map(tools.Delegate(IsPartOf),
tools.Try(ctx.children))
related_agents = tools.Concat(
tools.Map(
tools.Delegate(Creator),
tools.Filter(lambda x: x['attributes']['bibliographic'],
ctx.contributors)),
tools.Map(
tools.Delegate(Contributor),
tools.Filter(lambda x: not x['attributes']['bibliographic'],
ctx.contributors)),
tools.Map(tools.Delegate(AgentWorkRelation),
tools.Try(ctx.institutions)),
)
class Agent(Parser):
schema = tools.GuessAgentType(ctx.name)
name = ctx.name
related_agents = tools.Map(tools.Delegate(IsAffiliatedWith),
tools.Try(ctx.affiliation))
identifiers = tools.Map(
tools.Delegate(AgentIdentifier),
tools.Map(tools.IRI(), tools.Try(ctx.sameAs), tools.Try(ctx.email)))
class Extra:
givenName = tools.Try(ctx.givenName)
familyName = tools.Try(ctx.familyName)
additonalName = tools.Try(ctx.additionalName)
name = tools.Try(ctx.name)
class Extra:
awardee = tools.Try(ctx.awardee)
awardee_address = tools.Try(ctx.awardeeAddress)
awardee_name = ctx.awardeeName
awardee_city = tools.Try(ctx.awardeeCity)
awardee_county = tools.Try(ctx.awardeeCounty)
awardee_state_code = tools.Try(ctx.awardeeStateCode)
awardee_country_code = tools.Try(ctx.awardeeCountryCode)
awardee_district_code = tools.Try(ctx.awardeeDistrictCode)
awardee_zip_code = tools.Try(ctx.awardeeZipCode)
class HostAgent(Parser):
schema = tools.GuessAgentType(ctx.contributorName, default='organization')
name = tools.Try(ctx.contributorName)
identifiers = tools.Map(
tools.Delegate(AgentIdentifier),
tools.Try(tools.IRI(tools.RunPython(force_text, ctx.nameIdentifier)),
exceptions=(InvalidIRI, )))
class Extra:
name_identifier = tools.Try(ctx.nameIdentifier)
name_identifier_scheme = tools.Try(
ctx.nameIdentifier['@nameIdentifierScheme'])
name_identifier_scheme_uri = tools.Try(
ctx.nameIdentifier['@schemeURI'])
contributor_type = tools.Try(ctx.contributorType)
class Extra:
name_type = tools.Try(ctx['@type'])
name_part = tools.Try(ctx['mods:namePart'])
affiliation = tools.Try(ctx['mods:affiliation'])
description = tools.Try(ctx['mods:description'])
display_form = tools.Try(ctx['mods:displayForm'])
etal = tools.Try(ctx['mods:etal'])
name_identifier = tools.Try(ctx['mods:nameIdentifier'])
class Registration(Parser):
title = tools.Try(ctx['general-information']['title'])
description = tools.Try(ctx['additional-trial-info']['abstract'])
date_updated = tools.ParseDate(tools.Try(ctx['general-information']['last-updated']))
date_published = tools.ParseDate(tools.Try(ctx['general-information']['published-at']))
related_agents = tools.Map(tools.Delegate(Creator), tools.Try(ctx.pi))
identifiers = tools.Map(
tools.Delegate(WorkIdentifier),
tools.Try(tools.IRI(ctx['general-information']['url'])),
)
subjects = tools.Map(
tools.Delegate(ThroughSubjects),
tools.Subjects(
tools.RunPython(
process_keywords,
tools.Try(ctx['additional-trial-info']['keywords']),
)
)
)
tags = tools.Map(
tools.Delegate(ThroughTags),
tools.Concat(
tools.RunPython(
process_keywords,
tools.Try(ctx['additional-trial-info']['keywords']),
),
tools.Try(ctx['additional-trial-info']['status']),
tools.Try(ctx['additional-trial-info']['jel-code'])
)
)
class Extra:
general_information = tools.Try(ctx['general-information'])
additional_trial_information = tools.Try(ctx['additional-trial-info'])
publication_data = tools.Try(ctx['data-publication'])
primary_investigator = tools.Try(ctx['pi'])
interventions = tools.Try(ctx['interventions'])
outcomes = tools.Try(ctx['outcomes'])
experimental_design = tools.Try(ctx['experimental-design'])
experimental_characteristics = tools.Try(ctx['experimental-characteristics'])
supporting_document_material = tools.Try(ctx['supporting-doc-material'])
post_trial = tools.Try(ctx['post-trial'])
reports_papers = tools.Try(ctx['reports-papers'])
class FunderRelation(Parser):
schema = 'Funder'
agent = tools.Delegate(FunderAgent, ctx)
awards = tools.Map(tools.Delegate(ThroughAwards),
tools.Try(tools.RunPython('get_award', ctx)))
def get_award(self, obj):
obj['awardURI']
return obj
class PIContributorAgent(Parser):
schema = 'Person'
family_name = ctx.piLastName
given_name = ctx.piFirstName
additional_name = tools.Try(ctx.piMiddeInitial)
related_agents = tools.Map(tools.Delegate(IsAffiliatedWith),
tools.Filter(lambda x: 'awardeeName' in x, ctx))
identifiers = tools.Map(
tools.Delegate(AgentIdentifier),
tools.Try(tools.IRI(ctx.piEmail), exceptions=(ValueError, )))
class Extra:
pi_last_name = ctx.piLastName
pi_first_name = ctx.piFirstName
pi_middle_initial = tools.Try(ctx.piMiddeInitial)
pi_email = tools.Try(ctx.piEmail)
class DataCenterAgent(Parser):
schema = tools.GuessAgentType(
ctx.Data_Center_Name.Long_Name,
default='organization'
)
name = ctx.Data_Center_Name.Long_Name
related_agents = tools.Map(tools.Delegate(IsAffiliatedWith), tools.Try(ctx.Personnel))
class Extra:
data_center_short_name = ctx.Data_Center_Name.Short_Name
class AffiliatedAgent(Parser):
schema = tools.GuessAgentType(ctx.awardeeName, default='organization')
name = ctx.awardeeName
location = tools.Join(tools.Concat(ctx.awardeeCity,
tools.Try(ctx.awardeeStateCode)),
joiner=', ')
class Extra:
awardee_city = ctx.awardeeCity
awardee_state_code = tools.Try(ctx.awardeeStateCode)
class Extra:
access_rights = tools.Try(ctx['access-rights'])
usage_rights = tools.Try(ctx['usage-rights'])
collection_statistics = tools.Try(ctx['collection-statistics'])
management = tools.Try(ctx['management'])
collection_type = tools.Try(ctx['collection-type'])
last_update = tools.ParseDate(tools.Try(ctx['last-update']))
class ContributorAgent(Parser):
schema = tools.OneOf(
tools.GuessAgentType(tools.RunPython(get_agent_type, ctx,
person=False),
default='organization'),
tools.GuessAgentType(tools.OneOf(ctx.creatorName,
ctx.contributorName)))
name = tools.OneOf(ctx.creatorName, ctx.contributorName)
identifiers = tools.Map(
tools.Delegate(AgentIdentifier),
tools.Try(tools.Map(tools.IRI(ctx),
tools.RunPython(force_text, ctx.nameIdentifier)),
exceptions=(ValueError, )))
related_agents = tools.Map(
tools.Delegate(IsAffiliatedWith),
tools.Concat(
tools.Try(
tools.Filter(lambda x: bool(x),
tools.RunPython(force_text, ctx.affiliation)))))
class Extra:
name_identifier = tools.Try(ctx.nameIdentifier)
name_identifier_scheme = tools.Try(
ctx.nameIdentifier['@nameIdentifierScheme'])
name_identifier_scheme_uri = tools.Try(
ctx.nameIdentifier['@schemeURI'])
contributor_type = tools.Try(ctx.contributorType)
# v.4 new givenName and familyName properties
given_name = tools.OneOf(ctx.creatorName['@givenName'],
ctx.contributorName['@givenName'],
tools.Static(None))
family_name = tools.OneOf(ctx.creatorName['@familyName'],
ctx.contributorName['@familyName'],
tools.Static(None))
class Preprint(osf.Project):
description = tools.Try(ctx.attributes.abstract)
date_updated = tools.ParseDate(ctx.attributes.date_modified)
date_published = tools.ParseDate(ctx.attributes.date_created)
# NOTE: OSF has a direct mapping to SHARE's taxonomy. Subjects() is not needed
subjects = tools.Map(tools.Delegate(ThroughSubjects),
ctx.attributes.subjects)
identifiers = tools.Map(tools.Delegate(WorkIdentifier), ctx.links.self,
ctx.links.html, tools.Try(ctx.links.doi))
tags = tools.Map(tools.Delegate(ThroughTags),
tools.Try(ctx.attributes.tags))
rights = tools.Try(ctx.attributes.node_license)
related_works = tools.Static([])
related_agents = tools.Concat(
tools.Map(
tools.Delegate(osf.Creator),
tools.Filter(lambda x: x['attributes']['bibliographic'],
ctx.contributors)),
tools.Map(
tools.Delegate(osf.Contributor),
tools.Filter(lambda x: not x['attributes']['bibliographic'],
ctx.contributors)),
)
class POContributorAgent(Parser):
schema = 'Person'
name = ctx.poName
identifiers = tools.Map(
tools.Delegate(AgentIdentifier),
tools.Try(tools.IRI(ctx.poEmail), exceptions=(ValueError, )))
related_agents = tools.Map(tools.Delegate(IsAffiliatedWith),
tools.Filter(lambda x: 'awardeeName' in x, ctx))
class Extra:
po_name = tools.Try(ctx.poName)
po_email = tools.Try(ctx.poEmail)
class CreativeWork(Parser):
title = ctx.attributes.title
description = ctx.attributes.description
is_deleted = tools.Static(False)
# date_published =
date_updated = tools.ParseDate(ctx.attributes.date_modified)
# free_to_read_type =
# free_to_read_date =
# rights = tools.Try(ctx.attributes.node_license) Doesn't seem to have an useful information
# language =
identifiers = tools.Concat(
tools.Map(tools.Delegate(SimpleWorkIdentifier), ctx.links.html,
ctx.links.self),
tools.Map(tools.Delegate(WorkIdentifier), tools.Try(ctx.identifiers)))
tags = tools.Map(tools.Delegate(ThroughTags), ctx.attributes.category,
ctx.attributes.tags)
class Extra:
date_created = tools.ParseDate(ctx.attributes.date_created)
class Dataset(Parser):
title = tools.Try(ctx['title'])
description = tools.Try(ctx['description'])
rights = tools.Try(
tools.Join(
tools.Concat(tools.Try(ctx['access-rights']),
tools.Try(ctx['usage-rights']))))
related_agents = tools.Map(tools.Delegate(Creator), tools.Try(ctx.contact))
class Extra:
access_rights = tools.Try(ctx['access-rights'])
usage_rights = tools.Try(ctx['usage-rights'])
collection_statistics = tools.Try(ctx['collection-statistics'])
management = tools.Try(ctx['management'])
collection_type = tools.Try(ctx['collection-type'])
last_update = tools.ParseDate(tools.Try(ctx['last-update']))
class DataSet(Parser):
title = tools.Join(tools.Try(ctx.record.metadata.DIF.Entry_Title))
description = tools.Try(ctx.record.metadata.DIF.Summary.Abstract)
related_agents = tools.Map(
tools.Delegate(AgentWorkRelation),
tools.Try(ctx.record.metadata.DIF.Data_Center)
)
tags = tools.Map(
tools.Delegate(ThroughTags),
tools.Try(ctx.record.metadata.DIF.Metadata_Name),
tools.Try(ctx.record.header.setSpec)
)
identifiers = tools.Map(tools.Delegate(WorkIdentifier), tools.Try(ctx.record.metadata.DIF))
date_updated = tools.ParseDate(ctx.record.header.datestamp)
is_deleted = tools.RunPython('check_status', tools.Try(ctx.record.header['@status']))
class Extra:
status = tools.Try(ctx.record.header['@status'])
entry_id = tools.Try(ctx.record.metadata.DIF.Entry_ID)
metadata_name = tools.Try(ctx.record.metadata.DIF.Metadata_Name)
metadata_version = tools.Try(ctx.record.metadata.DIF.Metadata_Version)
last_dif_revision_date = tools.Try(ctx.record.metadata.DIF.Last_DIF_Revision_Date)
set_spec = ctx.record.header.setSpec
def check_status(self, status):
if status == 'deleted':
return True
return False
class Extra:
general_information = tools.Try(ctx['general-information'])
additional_trial_information = tools.Try(ctx['additional-trial-info'])
publication_data = tools.Try(ctx['data-publication'])
primary_investigator = tools.Try(ctx['pi'])
interventions = tools.Try(ctx['interventions'])
outcomes = tools.Try(ctx['outcomes'])
experimental_design = tools.Try(ctx['experimental-design'])
experimental_characteristics = tools.Try(ctx['experimental-characteristics'])
supporting_document_material = tools.Try(ctx['supporting-doc-material'])
post_trial = tools.Try(ctx['post-trial'])
reports_papers = tools.Try(ctx['reports-papers'])
