def job_harvest_tabular_data(request,
org_id,
record_group_id,
hash_payload_filename=False):
"""
Create a new static XML Harvest Job
"""
# retrieve record group
record_group = RecordGroup.objects.filter(id=record_group_id).first()
# get validation scenarios
validation_scenarios = ValidationScenario.objects.all()
# get field mappers
field_mappers = FieldMapper.objects.all()
# get record identifier transformation scenarios
rits = RecordIdentifierTransformation.objects.all()
# get all bulk downloads
bulk_downloads = DPLABulkDataDownload.objects.all()
# if GET, prepare form
if request.method == 'GET':
# render page
return render(
request, 'core/job_harvest_tabular_data.html', {
'record_group': record_group,
'validation_scenarios': validation_scenarios,
'rits': rits,
'field_mappers': field_mappers,
'xml2kvp_handle': xml2kvp.XML2kvp(),
'bulk_downloads': bulk_downloads,
'breadcrumbs': breadcrumb_parser(request)
})
# if POST, submit job
if request.method == 'POST':
cjob = CombineJob.init_combine_job(
user=request.user,
record_group=record_group,
job_type_class=HarvestTabularDataJob,
job_params=request.POST,
files=request.FILES,
hash_payload_filename=hash_payload_filename)
# start job and update status
job_status = cjob.start_job()
# if job_status is absent, report job status as failed
if job_status == False:
cjob.job.status = 'failed'
cjob.job.save()
return redirect('record_group',
org_id=org_id,
record_group_id=record_group.id)
def job_analysis(request):
"""
Run new analysis job
"""
# if GET, prepare form
if request.method == 'GET':
# retrieve jobs (limiting if needed)
input_jobs = Job.objects.all()
# limit if analysis_type set
analysis_type = request.GET.get('type', None)
subset = request.GET.get('subset', None)
if analysis_type == 'published':
# load PublishedRecords
published = PublishedRecords(subset=subset)
# define input_jobs
input_jobs = published.published_jobs
else:
published = None
# get validation scenarios
validation_scenarios = ValidationScenario.objects.all()
# get field mappers
field_mappers = FieldMapper.objects.all()
# get record identifier transformation scenarios
rits = RecordIdentifierTransformation.objects.all()
# get job lineage for all jobs (filtered to input jobs scope)
job_lineage = Job.get_all_jobs_lineage(jobs_query_set=input_jobs)
# get all bulk downloads
bulk_downloads = DPLABulkDataDownload.objects.all()
# render page
return render(
request, 'core/job_analysis.html', {
'job_select_type': 'multiple',
'input_jobs': input_jobs,
'published': published,
'validation_scenarios': validation_scenarios,
'rits': rits,
'field_mappers': field_mappers,
'xml2kvp_handle': xml2kvp.XML2kvp(),
'analysis_type': analysis_type,
'bulk_downloads': bulk_downloads,
'job_lineage_json': json.dumps(job_lineage)
})
# if POST, submit job
if request.method == 'POST':
cjob = CombineJob.init_combine_job(
user=request.user,
# TODO: record_group=record_group,
job_type_class=AnalysisJob,
job_params=request.POST)
# start job and update status
job_status = cjob.start_job()
# if job_status is absent, report job status as failed
if job_status is False:
cjob.job.status = 'failed'
cjob.job.save()
return redirect('analysis')
def test_static_harvest(VO):
'''
Test static harvest of XML records from disk
'''
# copy test data to /tmp
payload_dir = '/tmp/%s' % uuid.uuid4().hex
shutil.copytree('/opt/combine/tests/data/static_harvest_data', payload_dir)
# emulate request.POST
request_dict = {
'dbdd': '',
'job_note': '',
'xpath_record_id': '',
'static_filepath': payload_dir,
'fm_config_json':
'{"add_literals":{},"capture_attribute_values":[],"concat_values_on_all_fields":false,"concat_values_on_fields":{},"copy_to":{},"copy_to_regex":{},"copy_value_to_regex":{},"error_on_delims_collision":false,"exclude_attributes":[],"exclude_elements":[],"include_all_attributes":false,"include_attributes":[],"include_sibling_id":false,"multivalue_delim":"|","node_delim":"_","ns_prefix_delim":"|","remove_copied_key":true,"remove_copied_value":false,"remove_ns_prefix":true,"repeating_element_suffix_count":false,"self_describing":false,"skip_attribute_ns_declarations":true,"skip_repeating_values":true,"skip_root":false,"split_values_on_all_fields":false,"split_values_on_fields":{}}',
'static_payload': '',
'job_name': '',
'field_mapper': 'default',
'rits': '',
'additional_namespace_decs': 'xmlns:mods="http://www.loc.gov/mods/v3"',
'document_element_root': 'mods:mods'
}
query_dict = QueryDict('', mutable=True)
query_dict.update(request_dict)
# init job, using Variable Object (VO)
cjob = CombineJob.init_combine_job(user=VO.user,
record_group=VO.rg,
job_type_class=HarvestStaticXMLJob,
job_params=query_dict,
files={},
hash_payload_filename=False)
# start job and update status
job_status = cjob.start_job()
# if job_status is absent, report job status as failed
if job_status == False:
cjob.job.status = 'failed'
cjob.job.save()
# poll until complete
for x in range(0, 480):
# pause
time.sleep(1)
# refresh session
cjob.job.update_status()
# check status
if cjob.job.status != 'available':
continue
else:
break
# save static harvest job to VO
VO.static_harvest_cjob = cjob
# remove payload_dir
shutil.rmtree(payload_dir)
# assert job is done and available via livy
assert VO.static_harvest_cjob.job.status == 'available'
# assert record count is 250
assert VO.static_harvest_cjob.job.record_count == 250
# assert no indexing failures
assert len(VO.static_harvest_cjob.get_indexing_failures()) == 0
def test_merge_duplicate(VO):
'''
Duplicate Transform job, applying newly created validation scenarios
'''
# emulate request.POST
request_dict = {
'dbdd': '',
'field_mapper': 'default',
'filter_dupe_record_ids': 'true',
'fm_config_json':
'{"add_literals":{},"capture_attribute_values":[],"concat_values_on_all_fields":false,"concat_values_on_fields":{},"copy_to":{},"copy_to_regex":{},"copy_value_to_regex":{},"error_on_delims_collision":false,"exclude_attributes":[],"exclude_elements":[],"include_all_attributes":false,"include_attributes":[],"include_sibling_id":false,"multivalue_delim":"|","node_delim":"_","ns_prefix_delim":"|","remove_copied_key":true,"remove_copied_value":false,"remove_ns_prefix":true,"repeating_element_suffix_count":false,"self_describing":false,"skip_attribute_ns_declarations":true,"skip_repeating_values":true,"skip_root":false,"split_values_on_all_fields":false,"split_values_on_fields":{}}',
'input_es_query_valve': '',
'input_numerical_valve': '',
'input_validity_valve': 'all',
'job_name': '',
'job_note': '',
'rits': ''
}
query_dict = QueryDict('', mutable=True)
query_dict.update(request_dict)
# set input jobs with QueryDict.setlist
query_dict.setlist(
'input_job_id',
[VO.static_harvest_cjob.job.id, VO.static_transform_cjob.job.id])
# set validation scenarios with QueryDict.setlist
query_dict.setlist('validation_scenario', [
VO.schematron_validation_scenario.id, VO.python_validation_scenario.id
])
# init job
cjob = CombineJob.init_combine_job(user=VO.user,
record_group=VO.rg,
job_type_class=MergeJob,
job_params=query_dict)
# start job and update status
job_status = cjob.start_job()
# if job_status is absent, report job status as failed
if job_status == False:
cjob.job.status = 'failed'
cjob.job.save()
# poll until complete
for x in range(0, 480):
# pause
time.sleep(1)
# refresh session
cjob.job.update_status()
# check status
if cjob.job.status != 'available':
continue
else:
break
# save static harvest job to VO
VO.merge_cjob = cjob
# assert job is done and available via livy
assert VO.merge_cjob.job.status == 'available'
# assert record count is 250
assert VO.merge_cjob.job.record_count == 250
# assert validation scenarios applied
job_validation_scenarios = VO.merge_cjob.job.jobvalidation_set.all()
assert job_validation_scenarios.count() == 2
# loop through validation scenarios and confirm that both show 250 failures
for jv in job_validation_scenarios:
assert jv.get_record_validation_failures().count() == 232
# assert no indexing failures
assert len(VO.merge_cjob.get_indexing_failures()) == 0
def test_static_transform(VO):
'''
Test static harvest of XML records from disk
'''
# prepare and capture temporary transformation scenario
VO.transformation_scenario = prepare_transform()
# emulate request.POST
request_dict = {
'dbdd':
'',
'field_mapper':
'default',
'filter_dupe_record_ids':
'true',
'fm_config_json':
'{"add_literals":{},"capture_attribute_values":[],"concat_values_on_all_fields":false,"concat_values_on_fields":{},"copy_to":{},"copy_to_regex":{},"copy_value_to_regex":{},"error_on_delims_collision":false,"exclude_attributes":[],"exclude_elements":[],"include_all_attributes":false,"include_attributes":[],"include_sibling_id":false,"multivalue_delim":"|","node_delim":"_","ns_prefix_delim":"|","remove_copied_key":true,"remove_copied_value":false,"remove_ns_prefix":true,"repeating_element_suffix_count":false,"self_describing":false,"skip_attribute_ns_declarations":true,"skip_repeating_values":true,"skip_root":false,"split_values_on_all_fields":false,"split_values_on_fields":{}}',
'input_es_query_valve':
'',
'input_job_id':
VO.static_harvest_cjob.job.id,
'input_numerical_valve':
'',
'input_validity_valve':
'all',
'job_name':
'',
'job_note':
'',
'rits':
'',
'sel_trans_json':
'[{"index":0,"trans_id":%s}]' % VO.transformation_scenario.id
}
query_dict = QueryDict('', mutable=True)
query_dict.update(request_dict)
# init job
cjob = CombineJob.init_combine_job(user=VO.user,
record_group=VO.rg,
job_type_class=TransformJob,
job_params=query_dict)
# start job and update status
job_status = cjob.start_job()
# if job_status is absent, report job status as failed
if job_status == False:
cjob.job.status = 'failed'
cjob.job.save()
# poll until complete
for x in range(0, 480):
# pause
time.sleep(1)
# refresh session
cjob.job.update_status()
# check status
if cjob.job.status != 'available':
continue
else:
break
# save static harvest job to VO
VO.static_transform_cjob = cjob
# assert job is done and available via livy
assert VO.static_transform_cjob.job.status == 'available'
# assert record count is 250
assert VO.static_transform_cjob.job.record_count == 250
# assert no indexing failures
assert len(VO.static_transform_cjob.get_indexing_failures()) == 0
# remove transformation
assert VO.transformation_scenario.delete()[0] > 0
def job_merge(request, org_id, record_group_id):
"""
Merge multiple jobs into a single job
"""
# retrieve record group
record_group = RecordGroup.objects.get(pk=record_group_id)
# if GET, prepare form
if request.method == 'GET':
# get scope of input jobs and retrieve
input_job_scope = request.GET.get('scope', None)
# if all jobs, retrieve all jobs
if input_job_scope == 'all_jobs':
input_jobs = Job.objects.exclude(
job_type='AnalysisJob').all()
# else, limit to RecordGroup
else:
input_jobs = record_group.job_set.all()
# get validation scenarios
validation_scenarios = ValidationScenario.objects.all()
# get record identifier transformation scenarios
rits = RecordIdentifierTransformation.objects.all()
# get field mappers
field_mappers = FieldMapper.objects.all()
# get job lineage for all jobs (filtered to input jobs scope)
job_lineage = Job.get_all_jobs_lineage(jobs_query_set=input_jobs)
# get all bulk downloads
bulk_downloads = DPLABulkDataDownload.objects.all()
# render page
return render(request, 'core/job_merge.html', {
'job_select_type': 'multiple',
'record_group': record_group,
'input_jobs': input_jobs,
'input_job_scope': input_job_scope,
'validation_scenarios': validation_scenarios,
'rits': rits,
'field_mappers': field_mappers,
'xml2kvp_handle': xml2kvp.XML2kvp(),
'job_lineage_json': json.dumps(job_lineage),
'bulk_downloads': bulk_downloads,
'breadcrumbs': breadcrumb_parser(request)
})
# if POST, submit job
if request.method == 'POST':
cjob = CombineJob.init_combine_job(
user=request.user,
record_group=record_group,
job_type_class=MergeJob,
job_params=request.POST)
# start job and update status
job_status = cjob.start_job()
# if job_status is absent, report job status as failed
if job_status == False:
cjob.job.status = 'failed'
cjob.job.save()
return redirect('record_group', org_id=org_id, record_group_id=record_group.id)
