from __future__ import print_function
import argparse
+import collections
+import logging
+import sys
import arvados
import arvados.commands._util as arv_cmd
+from arvados._version import __version__
+
+FileInfo = collections.namedtuple('FileInfo', ['stream_name', 'name', 'size'])
+
def parse_args(args):
parser = argparse.ArgumentParser(
description='List contents of a manifest',
help="""Collection UUID or locator""")
parser.add_argument('-s', action='store_true',
help="""List file sizes, in KiB.""")
+ parser.add_argument('--version', action='version',
+ version="%s %s" % (sys.argv[0], __version__),
+ help='Print version and exit.')
return parser.parse_args(args)
def size_formatter(coll_file):
- return "{:>10}".format((coll_file.size() + 1023) / 1024)
+ return "{:>10}".format((coll_file.size + 1023) / 1024)
def name_formatter(coll_file):
- return "{}/{}".format(coll_file.stream_name(), coll_file.name)
+ return "{}/{}".format(coll_file.stream_name, coll_file.name)
-def main(args, stdout, stderr, api_client=None):
+def main(args, stdout, stderr, api_client=None, logger=None):
args = parse_args(args)
if api_client is None:
api_client = arvados.api('v1')
+ if logger is None:
+ logger = logging.getLogger('arvados.arv-ls')
+
try:
cr = arvados.CollectionReader(args.locator, api_client=api_client,
num_retries=args.retries)
- cr.normalize()
except (arvados.errors.ArgumentError,
arvados.errors.NotFoundError) as error:
- print("arv-ls: error fetching collection: {}".format(error),
- file=stderr)
+ logger.error("error fetching collection: {}".format(error))
return 1
formatters = []
formatters.append(size_formatter)
formatters.append(name_formatter)
- for f in cr.all_files():
+ for f in files_in_collection(cr):
print(*(info_func(f) for info_func in formatters), file=stdout)
return 0
+
+def files_in_collection(c, stream_name='.'):
+ # Sort first by file type, then alphabetically by file path.
+ for i in sorted(c.keys(),
+ key=lambda k: (
+ isinstance(c[k], arvados.collection.Subcollection),
+ k.upper())):
+ if isinstance(c[i], arvados.arvfile.ArvadosFile):
+ yield FileInfo(stream_name=stream_name,
+ name=i,
+ size=c[i].size())
+ elif isinstance(c[i], arvados.collection.Subcollection):
+ for f in files_in_collection(c[i], "{}/{}".format(stream_name, i)):
+ yield f