def prefetch_rnaseq_data(disease_code,
wait_time=30,
cache=True,):
archive_path = tcga_request(disease=disease_code,
level='3',
center='7',
platformType='RNASeqV2',
platform='IlluminaHiSeq_RNASeqV2',
wait_time=30)
return archive_path
def prefetch_mutation_data(disease_code,
wait_time=30,
cache=True,):
archive_path = tcga_request(disease=disease_code,
level='2',
center='BI',
platformType='Somatic Mutations',
platform='Automated Mutation Calling',
wait_time=wait_time,
cache=cache)
return archive_path
def prefetch_rnaseq_data(
disease_code,
wait_time=30,
cache=True,
):
archive_path = tcga_request(disease=disease_code,
level='3',
center='7',
platformType='RNASeqV2',
platform='IlluminaHiSeq_RNASeqV2',
wait_time=30)
return archive_path
def prefetch_mutation_data(disease_code, wait_time=30, cache=True):
for center in sequencing_centers:
try:
archive_path = tcga_request(disease=disease_code,
level='2',
center=center,
platformType='Somatic Mutations',
platform='Automated Mutation Calling',
wait_time=wait_time,
cache=cache)
break
except RequestError:
logging.debug('For {}, center {} has no mutation data.'.format(
disease_code, center))
return archive_path
def prefetch_mutation_data(disease_code,
wait_time=30,
cache=True):
for center in sequencing_centers:
try:
archive_path = tcga_request(disease=disease_code,
level='2',
center=center,
platformType='Somatic Mutations',
platform='Automated Mutation Calling',
wait_time=wait_time,
cache=cache)
break
except RequestError:
logging.debug('For {}, center {} has no mutation data.'.format(
disease_code, center))
return archive_path