def samples_share(args):
sample = Samples()
files = Files()
ids_sample = [s.rstrip("\n").split("\t")[0] for s in open(args.samples).readlines()]
for id in ids_sample:
# This line return the root folder
root = str(files.search(studyId=args.studyId, sampleIds=id, description="INTAKE")[0]["id"])
files.share(args.user, root)
try:
sample.share(args.user, id, include="projects.studies.samples.name")
except ServerResponseException as e:
print(str(e), file=sys.stderr)
def share_samples(studyId, list_of_samples_file, user_id):
file_instance = Files()
sample_instance = Samples()
summary = {}
fd = open(list_of_samples_file)
for line in fd:
aline = line.rstrip("\n").split("\t")
if aline:
sample_name = aline[0]
root_folder = aline[1]
print(sample_name)
sample_objs = sample_instance.search(studyId=studyId, name=sample_name)
for sample_obj in sample_objs:
sample_id = str(sample_obj["id"])
folders_to_share = file_instance.search(studyId=studyId, path=root_folder,
sampleIds=sample_id
)
for folder_to_share in folders_to_share:
file_id = str(folder_to_share["id"])
file_instance.share(userId=user_id, fileId=file_id)
sample_instance.share(userId=user_id, sampleId=sample_id)
summary[sample_name] = [folders_to_share]