-#!/usr/bin/env python
-
+from builtins import next
import argparse
import collections
import datetime
cmd = popen_docker(['inspect', '--format={{.Id}}', image_hash],
stdout=subprocess.PIPE)
try:
- image_id = next(cmd.stdout).strip()
+ image_id = next(cmd.stdout).decode().strip()
if image_id.startswith('sha256:'):
return 'v2'
elif ':' not in image_id:
def docker_image_compatible(api, image_hash):
supported = api._rootDesc.get('dockerImageFormats', [])
if not supported:
- logger.warn("server does not specify supported image formats (see docker_image_formats in server config). Continuing.")
- return True
+ logger.warning("server does not specify supported image formats (see docker_image_formats in server config).")
+ return False
fmt = docker_image_format(image_hash)
if fmt in supported:
# and add image listings for them, retaining the API server preference
# sorting.
images_start_size = len(images)
- for collection_uuid, link in hash_link_map.iteritems():
+ for collection_uuid, link in hash_link_map.items():
if not seen_image_names[collection_uuid]:
images.append(_new_image_listing(link, link['name']))
if len(images) > images_start_size:
select=['portable_data_hash'],
).execute()['items'][0]['portable_data_hash']
-_migration_link_class = 'docker_image_migration'
-_migration_link_name = 'migrate_1.9_1.10'
-
-def migrate19():
- """Docker image format migration tool for Arvados.
-
- This converts Docker images stored in Arvados from image format v1
- (Docker <= 1.9) to image format v2 (Docker >= 1.10).
-
- Requires Docker running on the local host.
-
- Usage:
-
- 1) Run arvados/docker/migrate-docker19/build.sh to create
- arvados/migrate-docker19 Docker image.
-
- 2) Set ARVADOS_API_HOST and ARVADOS_API_TOKEN to the cluster you want to migrate.
-
- 3) Run arv-migrate-docker19 from the Arvados Python SDK on the host (not in a container).
-
- This will query Arvados for v1 format Docker images. For each image that
- does not already have a corresponding v2 format image (as indicated by a
- docker_image_migration tag) it will perform the following process:
-
- i) download the image from Arvados
- ii) load it into Docker
- iii) update the Docker version, which updates the image
- iv) save the v2 format image and upload to Arvados
- v) create a migration link
-
- """
-
- api_client = arvados.api()
-
- images = arvados.commands.keepdocker.list_images_in_arv(api_client, 3)
-
- is_new = lambda img: img['dockerhash'].startswith('sha256:')
-
- count_new = 0
- old_images = []
- for uuid, img in images:
- if img["dockerhash"].startswith("sha256:"):
- continue
- key = (img["repo"], img["tag"], img["timestamp"])
- old_images.append(img)
-
- migration_links = arvados.util.list_all(api_client.links().list, filters=[
- ['link_class', '=', _migration_link_class],
- ['name', '=', _migration_link_name],
- ])
-
- already_migrated = set()
- for m in migration_links:
- already_migrated.add(m["tail_uuid"])
-
- items = arvados.util.list_all(api_client.collections().list,
- filters=[["uuid", "in", [img["collection"] for img in old_images]]],
- select=["uuid", "portable_data_hash"])
- uuid_to_pdh = {i["uuid"]: i["portable_data_hash"] for i in items}
- need_migrate = [img for img in old_images
- if uuid_to_pdh[img["collection"]] not in already_migrated]
-
- logger.info("Already migrated %i images", len(already_migrated))
- logger.info("Need to migrate %i images", len(need_migrate))
-
- success = []
- failures = []
- for old_image in need_migrate:
- if uuid_to_pdh[old_image["collection"]] in already_migrated:
- continue
-
- logger.info("Migrating %s:%s (%s)", old_image["repo"], old_image["tag"], old_image["collection"])
-
- oldcol = CollectionReader(old_image["collection"])
- tarfile = oldcol.keys()[0]
-
- try:
- varlibdocker = tempfile.mkdtemp()
- with tempfile.NamedTemporaryFile() as envfile:
- envfile.write("ARVADOS_API_HOST=%s\n" % (os.environ["ARVADOS_API_HOST"]))
- envfile.write("ARVADOS_API_TOKEN=%s\n" % (os.environ["ARVADOS_API_TOKEN"]))
- if "ARVADOS_API_HOST_INSECURE" in os.environ:
- envfile.write("ARVADOS_API_HOST_INSECURE=%s\n" % (os.environ["ARVADOS_API_HOST_INSECURE"]))
- envfile.flush()
-
- dockercmd = ["docker", "run",
- "--privileged",
- "--rm",
- "--env-file", envfile.name,
- "--volume", "%s:/var/lib/docker" % varlibdocker,
- "arvados/migrate-docker19",
- "/root/migrate.sh",
- "%s/%s" % (old_image["collection"], tarfile),
- tarfile[0:40],
- old_image["repo"],
- old_image["tag"],
- oldcol.api_response()["owner_uuid"]]
-
- out = subprocess.check_output(dockercmd)
-
- migrated = re.search(r"Migrated uuid is ([a-z0-9]{5}-[a-z0-9]{5}-[a-z0-9]{15})", out)
- if migrated:
- newcol = CollectionReader(migrated.group(1))
-
- api_client.links().create(body={"link": {
- 'owner_uuid': oldcol.api_response()["owner_uuid"],
- 'link_class': arvados.commands.keepdocker._migration_link_class,
- 'name': arvados.commands.keepdocker._migration_link_name,
- 'tail_uuid': oldcol.portable_data_hash(),
- 'head_uuid': newcol.portable_data_hash()
- }}).execute(num_retries=3)
-
- logger.info("Migrated '%s' to '%s'", oldcol.portable_data_hash(), newcol.portable_data_hash())
- already_migrated.add(oldcol.portable_data_hash())
- success.append(old_image["collection"])
- else:
- logger.error("Error migrating '%s'", old_image["collection"])
- failures.append(old_image["collection"])
- except Exception as e:
- logger.exception("Migration failed")
- failures.append(old_image["collection"])
- finally:
- shutil.rmtree(varlibdocker)
-
- logger.info("Successfully migrated %i images", len(success))
- if failures:
- logger.error("Failure migrating images: %s", failures)
-
-
def main(arguments=None, stdout=sys.stdout):
args = arg_parser.parse_args(arguments)
api = arvados.api('v1')
if args.image is None or args.image == 'images':
fmt = "{:30} {:10} {:12} {:29} {:20}\n"
stdout.write(fmt.format("REPOSITORY", "TAG", "IMAGE ID", "COLLECTION", "CREATED"))
- for i, j in list_images_in_arv(api, args.retries):
- stdout.write(fmt.format(j["repo"], j["tag"], j["dockerhash"][0:12], i, j["timestamp"].strftime("%c")))
+ try:
+ for i, j in list_images_in_arv(api, args.retries):
+ stdout.write(fmt.format(j["repo"], j["tag"], j["dockerhash"][0:12], i, j["timestamp"].strftime("%c")))
+ except IOError as e:
+ if e.errno == errno.EPIPE:
+ pass
+ else:
+ raise
sys.exit(0)
# Pull the image if requested, unless the image is specified as a hash
if not docker_image_compatible(api, image_hash):
if args.force_image_format:
- logger.warn("forcing incompatible image")
+ logger.warning("forcing incompatible image")
else:
logger.error("refusing to store " \
"incompatible format (use --force-image-format to override)")
api, args.retries,
filters=[['link_class', '=', 'docker_image_repo+tag'],
['name', '=', image_repo_tag],
- ['head_uuid', 'in', collections]])
+ ['head_uuid', 'in', [c["uuid"] for c in collections]]])
else:
existing_repo_tag = []
projects / arvados.git / blobdiff