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#! /usr/bin/env python
from datetime import datetime, timezone
import os
import sys
import socket
import shutil
import unittest
import time
from irods.meta import iRODSMetaCollection
from irods.exception import CollectionDoesNotExist
from irods.models import Collection, DataObject
import irods.test.helpers as helpers
import irods.keywords as kw
from irods.test.helpers import my_function_name, unique_name
from irods.collection import iRODSCollection
RODSUSER = "nonadmin"
class TestCollection(unittest.TestCase):
class WrongUserType(RuntimeError):
pass
@classmethod
def setUpClass(cls):
adm = helpers.make_session()
if adm.users.get(adm.username).type != "rodsadmin":
raise cls.WrongUserType(
"Must be an iRODS admin to run tests in class {0.__name__}".format(cls)
)
cls.logins = helpers.iRODSUserLogins(adm)
cls.logins.create_user(RODSUSER, "abc123")
@classmethod
def tearDownClass(cls):
# TODO(#553): Skipping this will result in an interpreter seg fault for Py3.6 but not 3.11; why?
del cls.logins
def setUp(self):
self.sess = helpers.make_session()
self.test_coll_path = "/{}/home/{}/test_dir".format(
self.sess.zone, self.sess.username
)
self.test_coll = self.sess.collections.create(self.test_coll_path)
def tearDown(self):
"""Delete the test collection after each test"""
self.test_coll.remove(recurse=True, force=True)
self.sess.cleanup()
def test_get_collection(self):
# path = "/tempZone/home/rods"
coll = self.sess.collections.get(self.test_coll_path)
self.assertEqual(self.test_coll_path, coll.path)
def test_irods_collection_information(self):
coll = self.sess.collections.get(self.test_coll_path)
self.assertIsNotNone(coll.create_time)
self.assertIsNotNone(coll.modify_time)
self.assertFalse(coll.inheritance)
self.assertIsNotNone(coll.owner_name)
self.assertIsNotNone(coll.owner_zone)
def test_append_to_collection(self):
"""Append a new file to the collection"""
pass
def test_remove_from_collection(self):
"""Delete a file from a collection"""
pass
def test_update_in_collection(self):
"""Modify a file in a collection"""
pass
def test_create_recursive_collection(self):
# make path with recursion
root_coll_path = self.test_coll_path + "/recursive/collection/test"
self.sess.collections.create(root_coll_path, recurse=True)
# confirm col create
coll = self.sess.collections.get(root_coll_path)
self.assertEqual(root_coll_path, coll.path)
# delete test collection
coll.remove(force=True)
# confirm delete
with self.assertRaises(CollectionDoesNotExist):
self.sess.collections.get(root_coll_path)
def test_remove_deep_collection(self):
# depth = 100
depth = 20 # placeholder
root_coll_path = self.test_coll_path + "/deep_collection"
# make test collection
helpers.make_deep_collection(
self.sess,
root_coll_path,
depth=depth,
objects_per_level=1,
object_content=None,
)
# delete test collection
self.sess.collections.remove(root_coll_path, recurse=True, force=True)
# confirm delete
with self.assertRaises(CollectionDoesNotExist):
self.sess.collections.get(root_coll_path)
def test_rename_collection(self):
# test args
args = {"collection": self.test_coll_path, "old_name": "foo", "new_name": "bar"}
# make collection
path = "{collection}/{old_name}".format(**args)
coll = helpers.make_collection(self.sess, path)
# get collection id
saved_id = coll.id
# rename coll
new_path = "{collection}/{new_name}".format(**args)
coll.move(new_path)
# self.sess.collections.move(path, new_path)
# get updated collection
coll = self.sess.collections.get(new_path)
# compare ids
self.assertEqual(coll.id, saved_id)
# remove collection
coll.remove(recurse=True, force=True)
def test_move_coll_to_coll(self):
# test args
args = {
"base_collection": self.test_coll_path,
"collection1": "foo",
"collection2": "bar",
}
# make collection1 and collection2 in base collection
path1 = "{base_collection}/{collection1}".format(**args)
coll1 = helpers.make_collection(self.sess, path1)
path2 = "{base_collection}/{collection2}".format(**args)
coll2 = helpers.make_collection(self.sess, path2)
# get collection2's id
saved_id = coll2.id
# move collection2 into collection1
self.sess.collections.move(path2, path1)
# get updated collection
path2 = "{base_collection}/{collection1}/{collection2}".format(**args)
coll2 = self.sess.collections.get(path2)
# compare ids
self.assertEqual(coll2.id, saved_id)
# remove collection
coll1.remove(recurse=True, force=True)
def test_repr_coll(self):
coll_name = self.test_coll.name
coll_id = self.test_coll.id
self.assertEqual(
repr(self.test_coll),
"<iRODSCollection {coll_id} {coll_name}>".format(**locals()),
)
def test_walk_collection_topdown(self):
depth = 20
# files that will be ceated in each subcollection
filenames = ["foo", "bar", "baz"]
# make nested collections
coll_path = self.test_coll_path
for d in range(depth):
# create subcollection with files
coll_path += "/sub" + str(d)
helpers.make_collection(self.sess, coll_path, filenames)
# now walk nested collections
colls = self.test_coll.walk()
current_coll_name = self.test_coll.name
for d in range(depth + 1):
# get next result
collection, subcollections, data_objects = next(colls)
# check collection name
self.assertEqual(collection.name, current_coll_name)
# check subcollection name
if d < depth:
sub_coll_name = "sub" + str(d)
self.assertEqual(sub_coll_name, subcollections[0].name)
else:
# last coll has no subcolls
self.assertListEqual(subcollections, [])
# check data object names
for data_object in data_objects:
self.assertIn(data_object.name, filenames)
# iterate
current_coll_name = sub_coll_name
# that should be it
with self.assertRaises(StopIteration):
next(colls)
def test_walk_collection(self):
depth = 20
# files that will be ceated in each subcollection
filenames = ["foo", "bar", "baz"]
# make nested collections
coll_path = self.test_coll_path
for d in range(depth):
# create subcollection with files
coll_path += "/sub" + str(d)
helpers.make_collection(self.sess, coll_path, filenames)
# now walk nested collections
colls = self.test_coll.walk(topdown=False)
sub_coll_name = ""
for d in range(depth - 1, -2, -1):
# get next result
collection, subcollections, data_objects = next(colls)
# check collection name
if d >= 0:
coll_name = "sub" + str(d)
self.assertEqual(collection.name, coll_name)
else:
# root collection
self.assertEqual(collection.name, self.test_coll.name)
# check subcollection name
if d < depth - 1:
self.assertEqual(sub_coll_name, subcollections[0].name)
else:
# last coll has no subcolls
self.assertListEqual(subcollections, [])
# check data object names
for data_object in data_objects:
self.assertIn(data_object.name, filenames)
# iterate
sub_coll_name = coll_name
# that should be it
with self.assertRaises(StopIteration):
next(colls)
def test_collection_metadata(self):
self.assertIsInstance(self.test_coll.metadata, iRODSMetaCollection)
def test_register_collection(self):
tmp_dir = helpers.irods_shared_tmp_dir()
loc_server = self.sess.host in ("localhost", socket.gethostname())
if not (tmp_dir) and not (loc_server):
self.skipTest("Requires access to server-side file(s)")
# test vars
file_count = 10
dir_name = "register_test_dir"
dir_path = os.path.join((tmp_dir or "/tmp"), dir_name)
coll_path = "{}/{}".format(self.test_coll.path, dir_name)
# make test dir
helpers.make_flat_test_dir(dir_path, file_count)
# register test dir
self.sess.collections.register(dir_path, coll_path)
# confirm collection presence
coll = self.sess.collections.get(coll_path)
# confirm object count in collection
query = (
self.sess.query().count(DataObject.id).filter(Collection.name == coll_path)
)
obj_count = next(query.get_results())[DataObject.id]
self.assertEqual(file_count, int(obj_count))
# remove coll but leave directory on disk
coll.unregister()
# delete test dir
shutil.rmtree(dir_path)
def test_register_collection_with_checksums(self):
tmp_dir = helpers.irods_shared_tmp_dir()
loc_server = self.sess.host in ("localhost", socket.gethostname())
if not (tmp_dir) and not (loc_server):
self.skipTest("Requires access to server-side file(s)")
# test vars
file_count = 10
dir_name = "register_test_dir_with_chksums"
dir_path = os.path.join((tmp_dir or "/tmp"), dir_name)
coll_path = "{}/{}".format(self.test_coll.path, dir_name)
# make test dir
helpers.make_flat_test_dir(dir_path, file_count)
# register test dir
options = {kw.VERIFY_CHKSUM_KW: ""}
self.sess.collections.register(dir_path, coll_path, **options)
# confirm collection presence
coll = self.sess.collections.get(coll_path)
# confirm object count in collection
query = (
self.sess.query().count(DataObject.id).filter(Collection.name == coll_path)
)
obj_count = next(query.get_results())[DataObject.id]
self.assertEqual(file_count, int(obj_count))
# confirm object checksums
objs = next(coll.walk())[2]
for obj in objs:
# don't use obj.path (aka logical path)
phys_path = obj.replicas[0].path
digest = helpers.compute_sha256_digest(phys_path)
self.assertEqual(obj.checksum, "sha2:{}".format(digest))
# remove coll but leave directory on disk
coll.unregister()
# delete test dir
shutil.rmtree(dir_path)
def test_collection_with_trailing_slash__323(self):
Home = helpers.home_collection(self.sess)
subcoll, dataobj = [
unique_name(my_function_name(), time.time()) for x in range(2)
]
subcoll_fullpath = "{}/{}".format(Home, subcoll)
subcoll_unnormalized = subcoll_fullpath + "/"
try:
# Test create and exists with trailing slashes.
self.sess.collections.create(subcoll_unnormalized)
c1 = self.sess.collections.get(subcoll_unnormalized)
c2 = self.sess.collections.get(subcoll_fullpath)
self.assertEqual(c1.id, c2.id)
self.assertTrue(self.sess.collections.exists(subcoll_unnormalized))
# Test data put to unnormalized collection name.
with open(dataobj, "wb") as f:
f.write(b"hello")
self.sess.data_objects.put(dataobj, subcoll_unnormalized)
self.assertEqual(
self.sess.query(DataObject)
.filter(DataObject.name == dataobj)
.one()[DataObject.collection_id],
c1.id,
)
finally:
if self.sess.collections.exists(subcoll_fullpath):
self.sess.collections.remove(subcoll_fullpath, recurse=True, force=True)
if os.path.exists(dataobj):
os.unlink(dataobj)
def test_concatenation__323(self):
coll = iRODSCollection.normalize_path("/zone/", "/home/", "/dan//", "subdir///")
self.assertEqual(coll, "/zone/home/dan/subdir")
def test_object_paths_with_dot_and_dotdot__323(self):
normalize = iRODSCollection.normalize_path
session = self.sess
home = helpers.home_collection(session)
# Test requirement for collection names to be absolute
with self.assertRaises(iRODSCollection.AbsolutePathRequired):
normalize("../public", enforce_absolute=True)
# Test '.' and double slashes
public_home = normalize(home, "..//public/.//")
self.assertEqual(public_home, "/{sess.zone}/home/public".format(sess=session))
# Test that '..' cancels last nontrival path element
subpath = normalize(home, "./collA/coll2/./../collB")
self.assertEqual(subpath, home + "/collA/collB")
# Test multiple '..'
home1 = normalize("/zone", "holmes", "public/../..", "home", "user")
self.assertEqual(home1, "/zone/home/user")
home2 = normalize("/zone", "holmes", "..", "home", "public", "..", "user")
self.assertEqual(home2, "/zone/home/user")
def test_update_mtime_of_collection_using_touch_operation_as_non_admin__525(self):
user_session = self.logins.session_for_user(RODSUSER)
# Capture mtime of the home collection.
home_collection_path = helpers.home_collection(user_session)
collection = user_session.collections.get(home_collection_path)
old_mtime = collection.modify_time
# Set the mtime to an earlier time.
new_mtime = 1400000000
user_session.collections.touch(
home_collection_path, seconds_since_epoch=new_mtime
)
# Compare mtimes for correctness.
collection = user_session.collections.get(home_collection_path)
self.assertEqual(
datetime.fromtimestamp(new_mtime, timezone.utc), collection.modify_time
)
self.assertGreater(old_mtime, collection.modify_time)
def test_touch_operation_does_not_create_new_collections__525(self):
user_session = self.logins.session_for_user(RODSUSER)
# The collection should not exist.
home_collection = helpers.home_collection(user_session)
collection_path = "{home_collection}/test_touch_operation_does_not_create_new_collections__525".format(
**locals()
)
with self.assertRaises(CollectionDoesNotExist):
user_session.collections.get(collection_path)
# Show the touch operation throws an exception if the target collection
# does not exist.
with self.assertRaises(CollectionDoesNotExist):
user_session.collections.touch(collection_path)
# Show the touch operation did not create a new collection.
with self.assertRaises(CollectionDoesNotExist):
user_session.collections.get(collection_path)
def test_touch_operation_does_not_work_when_given_a_data_object__525(self):
try:
user_session = self.logins.session_for_user(RODSUSER)
home_collection = helpers.home_collection(user_session)
# Create a data object.
data_object_path = "{home_collection}/test_touch_operation_does_not_work_when_given_a_data_object__525.txt".format(
**locals()
)
self.assertFalse(user_session.data_objects.exists(data_object_path))
user_session.data_objects.touch(data_object_path)
self.assertTrue(user_session.data_objects.exists(data_object_path))
# Show the touch operation for collections throws an exception when
# given a path pointing to a data object.
with self.assertRaises(CollectionDoesNotExist):
user_session.collections.touch(data_object_path)
finally:
user_session.data_objects.unlink(data_object_path, force=True)
def test_touch_operation_ignores_unsupported_options__525(self):
user_session = self.logins.session_for_user(RODSUSER)
home_collection = helpers.home_collection(user_session)
path = "{home_collection}/test_touch_operation_ignores_unsupported_options__525".format(
**locals()
)
try:
# Capture mtime of the home collection.
collection = user_session.collections.create(path)
old_mtime = collection.modify_time
# Capture the current time.
time.sleep(2) # Guarantees the mtime is different.
new_mtime = int(time.time())
# The touch API for the iRODS server will attempt to create a new data object
# if the "no_create" option is set to false. The PRC's collection interface will
# ignore that option if passed.
#
# The following arguments don't make sense for collections and will also be ignored.
#
# - replica_number
# - leaf_resource_name
#
# They are included to prove the PRC handles them appropriately (i.e. unsupported
# parameters are removed from the request).
user_session.collections.touch(
path,
no_create=False,
replica_number=525,
seconds_since_epoch=new_mtime,
leaf_resource_name="ufs525",
)
# Compare mtimes for correctness.
collection = user_session.collections.get(path)
self.assertEqual(
datetime.fromtimestamp(int(new_mtime), timezone.utc),
collection.modify_time,
)
finally:
if collection:
user_session.collections.remove(path, recurse=True, force=True)
def test_subcollections_member_excludes_root_collection__571(self):
root_coll = self.sess.collections.get("/")
# Assert that none of the root collection's immediate children (as listed in the object's
# 'subcollections' property) point to the root subcollection.
self.assertEqual(root_coll.path, "/")
self.assertEqual([], [_ for _ in root_coll.subcollections if _.path == "/"])
if __name__ == "__main__":
# let the tests find the parent irods lib
sys.path.insert(0, os.path.abspath("../.."))
unittest.main()
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