def upload_from_irods(username, password, host, port, zone, irods_fnames, res_files):
"""
use iget to transfer selected data object from irods zone to local as a NamedTemporaryFile
:param username: iRODS login account username used to download irods data object for uploading
:param password: iRODS login account password used to download irods data object for uploading
:param host: iRODS login host used to download irods data object for uploading
:param port: iRODS login port used to download irods data object for uploading
:param zone: iRODS login zone used to download irods data object for uploading
:param irods_fnames: the data object file name to download to local for uploading
:param res_files: list of files for uploading to create resources
:raises SessionException(proc.returncode, stdout, stderr) defined in django_irods/icommands.py
to capture iRODS exceptions raised from iRODS icommand subprocess run triggered from
any method calls from IrodsStorage() if an error or exception ever occurs
:return: None, but the downloaded file from the iRODS will be appended to res_files list for
uploading
"""
irods_storage = IrodsStorage()
irods_storage.set_user_session(username=username, password=password, host=host, port=port,
zone=zone)
ifnames = string.split(irods_fnames, ',')
for ifname in ifnames:
size = irods_storage.size(ifname)
tmpFile = irods_storage.download(ifname)
fname = os.path.basename(ifname.rstrip(os.sep))
fileobj = File(file=tmpFile, name=fname)
fileobj.size = size
res_files.append(fileobj)
# delete the user session after iRODS file operations are done
irods_storage.delete_user_session()
def get_size_and_avu_for_irods_ref_files(username, password, host, port, zone,
irods_fnames):
"""
use iget to transfer selected data object from irods zone to local as a NamedTemporaryFile
:param username: iRODS login account username used to download irods data object for uploading
:param password: iRODS login account password used to download irods data object for uploading
:param host: iRODS login host used to download irods data object for uploading
:param port: iRODS login port used to download irods data object for uploading
:param zone: iRODS login zone used to download irods data object for uploading
:param irods_fnames: the data object file name to download to local for uploading
:raises SessionException(proc.returncode, stdout, stderr) defined in django_irods/icommands.py
to capture iRODS exceptions raised from iRODS icommand subprocess run triggered from
any method calls from IrodsStorage() if an error or exception ever occurs
:return: list of file sizes corresponding to irods_fnames, and extra metadata dicts with each dict item
corresponding to iRODS AVUs on the file or data object with file name preappended to attributes
"""
irods_storage = IrodsStorage()
irods_storage.set_user_session(username=username,
password=password,
host=host,
port=port,
zone=zone)
ifnames = string.split(irods_fnames, ',')
ifsizes = []
ifextra_mds = {}
for ifname in ifnames:
size = irods_storage.size(ifname)
ifsizes.append(size)
extra_md_dict = irods_storage.getAVU(ifname, type='-d')
for key, val in extra_md_dict.iteritems():
ukey = ifname + '_' + key
ifextra_mds[ukey] = val
# delete the user session after iRODS file operations are done
irods_storage.delete_user_session()
return ifsizes, ifextra_mds
