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# BSD Licence
# Copyright (c) 2011, Science & Technology Facilities Council (STFC)
# All rights reserved.
#
# See the LICENSE file in the source distribution of this software for
# the full license text.
import tempfile
import shutil
import sys, os
from glob import glob
from io import StringIO
import datetime
import os.path as op
from unittest import TestCase
from . import gen_drs
from drslib.drs_tree import DRSTree
from drslib.drs import CmipDRS
from drslib.cmip5 import CMIP5FileSystem
from drslib import config
from .drs_tree_shared import TestEg, TestListing
class TestEg1(TestEg):
__test__ = True
def setUp(self):
super(TestEg1, self).setUp()
gen_drs.write_eg1(self.tmpdir)
self.drs_fs = CMIP5FileSystem(self.tmpdir)
def test_1(self):
dt = DRSTree(self.drs_fs)
dt.discover(self.incoming, activity='cmip5',
product='output1', institute='MOHC', model='HadCM3',
experiment='1pctto4x', realm='atmos')
assert len(dt.pub_trees) == 3
k = sorted(list(dt.pub_trees.keys()))[2]
assert k == 'cmip5.output1.MOHC.HadCM3.1pctto4x.day.atmos.day.r3i1p1'
pt = dt.pub_trees[k]
assert pt.versions == {}
assert len(pt._todo) == 15
vars = set(x[1].variable for x in pt._todo)
assert vars == set(('pr', 'rsus', 'tas'))
assert pt.state == pt.STATE_INITIAL
def test_2(self):
dt = DRSTree(self.drs_fs)
dt.discover(self.incoming, activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
assert len(dt.pub_trees) == 3
pt = list(dt.pub_trees.values())[0]
assert pt.drs.realm == 'atmos'
def test_3(self):
dt = DRSTree(self.drs_fs)
dt.discover(self.incoming, activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
pt = list(dt.pub_trees.values())[0]
assert pt.state == pt.STATE_INITIAL
pt.do_version()
assert pt.state == pt.STATE_VERSIONED
assert len(list(pt.versions.keys())) == 1
assert self.today in list(pt.versions.keys())
class TestEg2(TestEg):
__test__ = True
def setUp(self):
super(TestEg2, self).setUp()
gen_drs.write_eg2(self.tmpdir)
self.drs_fs = CMIP5FileSystem(self.tmpdir)
def test_1(self):
dt = DRSTree(self.drs_fs)
dt.discover(self.incoming, activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
assert len(dt.pub_trees) == 2
assert set([x.drs.realm for x in list(dt.pub_trees.values())]) == set(['atmos', 'ocean'])
class TestEg2_1(TestEg2):
__test__ = True
def test_1(self):
"""Test incremental discovery"""
dt = DRSTree(self.drs_fs)
components = dict(activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
# Call discover without incoming_dir
dt.discover(None, **components)
assert len(dt.pub_trees) == 0
# Discover ocean realm
dt.discover_incoming(self.tmpdir, realm='ocean', **components)
assert len(dt.pub_trees) == 1
# Discover atmos realm
dt.discover_incoming(self.tmpdir, realm='atmos', **components)
assert len(dt.pub_trees) == 2
assert set([x.drs.realm for x in list(dt.pub_trees.values())]) == set(['atmos', 'ocean'])
def test_2(self):
"""Test incremental discovery without calling discover() first."""
dt = DRSTree(self.drs_fs)
components = dict(activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
assert len(dt.pub_trees) == 0
# Discover ocean realm
dt.discover_incoming(self.tmpdir, realm='ocean', **components)
assert len(dt.pub_trees) == 1
# Discover atmos realm
dt.discover_incoming(self.tmpdir, realm='atmos', **components)
assert len(dt.pub_trees) == 2
assert set([x.drs.realm for x in list(dt.pub_trees.values())]) == set(['atmos', 'ocean'])
#!TODO: latest
#
# Test Moving from one version to another, adding a variable
#
class TestEg3(TestEg):
__test__ = True
def setUp(self):
super(TestEg3, self).setUp()
self.drs_fs = CMIP5FileSystem(self.tmpdir)
def _cmor1(self):
gen_drs.write_eg3_1(self.tmpdir)
self.dt = DRSTree(self.drs_fs)
self.dt.discover(self.incoming, activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
(self.pt, ) = list(self.dt.pub_trees.values())
def _cmor2(self):
gen_drs.write_eg3_2(self.tmpdir)
self.dt.discover_incoming(self.incoming, activity='cmip5',
product='output1')
def _exists(self, x):
return os.path.exists(os.path.join(self.pt.pub_dir, x))
def _listdir(self, x):
return os.listdir(os.path.join(self.pt.pub_dir, x))
def _listlinks(self, x):
links = glob('%s/*' % os.path.join(self.pt.pub_dir, x))
return [os.readlink(lnk) for lnk in links if os.path.islink(lnk)]
def test_01(self):
self._cmor1()
assert len(self.pt.drs_tree.incoming) > 0
self.pt.do_version()
assert len(self.pt.drs_tree.incoming) == 0
assert self.pt.count_todo() == 0
assert len(list(self.pt.list_todo())) == 0
def test_1(self):
self._cmor1()
self.pt.do_version(20100101)
self._cmor2()
self.pt.do_version(20100102)
assert len(self.pt.drs_tree.incoming) == 0
assert self._exists('files')
assert self._exists('files/rsus_20100102')
assert not self._exists('files/rsus_20100101')
assert self._exists('v20100101/tas')
assert self._exists('v20100101/pr')
assert not self._exists('v20100101/rsus')
assert self._exists('v20100102/rsus')
def test_2(self):
self._cmor1()
self.pt.do_version(20100101)
self._cmor2()
self.pt.do_version(20100102)
assert self._exists('v20100102/pr/pr_day_HadCM3_1pctto4x_r1i1p1_2000010100-2001123114.nc')
def test_3(self):
self._cmor1()
assert self.pt.state == self.pt.STATE_INITIAL
self.pt.do_version()
assert self.pt.state == self.pt.STATE_VERSIONED
self._cmor2()
assert self.pt.state == self.pt.STATE_VERSIONED_TRANS
self.pt.do_version()
assert self.pt.state == self.pt.STATE_VERSIONED
def test_4(self):
# Check all links are to the "files" branch
self._cmor1()
self.pt.do_version()
self._cmor2()
self.pt.do_version()
links = self._listlinks('v2/tas/r1i1p1')
for link in links:
assert '/files/' in link
def test_5(self):
self._cmor1()
self.pt.do_version(20100101)
latest = os.readlink(os.path.join(self.pt.pub_dir, 'latest'))
assert latest == 'v20100101'
self._cmor2()
self.pt.do_version(20100102)
latest = os.readlink(os.path.join(self.pt.pub_dir, 'latest'))
assert latest == 'v20100102'
def test_6(self):
# Test differencing 2 versions
self._cmor1()
self.pt.do_version(20100101)
self._cmor2()
v1 = []
todo = []
for state, path1, path2 in self.pt.diff_version(20100101):
if state == self.pt.DIFF_V1_ONLY:
assert not 'rsus' in path1
v1.append(path1)
elif state == self.pt.DIFF_V2_ONLY:
assert 'rsus' in path2
todo.append(path2)
assert len(v1) == 10
assert len(todo) == 5
class TestEg3_1(TestEg3):
"""Use a separate DRSTree instance for the upgrade to test
TestEg3 still works in this scenario.
"""
__test__ = True
def _cmor2(self):
gen_drs.write_eg3_2(self.tmpdir)
self.dt2 = DRSTree(self.drs_fs)
self.dt2.discover_incoming(self.incoming, activity='cmip5',
product='output1')
(self.pt, ) = list(self.dt2.pub_trees.values())
#
# Test Moving from one version to another, updating a variable
#
class TestEg4(TestEg3):
__test__ = True
def _cmor1(self):
gen_drs.write_eg4_1(self.tmpdir)
self.dt = DRSTree(self.drs_fs)
self.dt.discover(self.incoming, activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
(self.pt, ) = list(self.dt.pub_trees.values())
def _cmor2(self):
gen_drs.write_eg4_2(self.tmpdir)
self.dt.discover_incoming(self.incoming, activity='cmip5',
product='output1')
def test_1(self):
self._cmor1()
self.pt.do_version(20100101)
self._cmor2()
self.pt.do_version(20100102)
assert self._exists('files')
assert self._exists('files/tas_20100102')
assert self._exists('v20100102/tas')
def test_2(self):
self._cmor1()
self.pt.do_version(20100101)
self._cmor2()
self.pt.do_version(20100102)
assert len(self._listdir('files/tas_20100101')) == 3
assert len(self._listdir('files/tas_20100102')) == 2
assert len(self._listdir('v20100101/tas')) == 3
assert len(self._listdir('v20100102/tas')) == 5
# Do test_3 from superclass
# Do test_4 from superclass
def test_6(self):
# Test differencing 2 versions
self._cmor1()
self.pt.do_version(20100101)
self._cmor2()
v1 = []
todo = []
for state, path1, path2 in self.pt.diff_version(20100101):
if state == self.pt.DIFF_V1_ONLY:
v1.append(path1)
elif state == self.pt.DIFF_V2_ONLY:
todo.append(path2)
assert len(v1) == 3
assert len(todo) == 2
class TestEg4_1(TestEg4):
__test__ = True
def _cmor2(self):
gen_drs.write_eg4_2(self.tmpdir)
self.dt2 = DRSTree(self.drs_fs)
self.dt2.discover_incoming(self.incoming, activity='cmip5',
product='output1')
(self.pt, ) = list(self.dt2.pub_trees.values())
#!FIXME: This test is meant to test removing files but needs more work.
# cmor2 creates 2 files that are the same as cmor1. This could
# be interpreted as removing 3 files but do we need to check file
# contents?
class TestEg5(TestEg4):
__test__ = False
def _cmor1(self):
gen_drs.write_eg5_1(self.tmpdir)
self.dt = DRSTree(self.drs_fs)
self.dt.discover(self.incoming, activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
(self.pt, ) = list(self.dt.pub_trees.values())
def _cmor2(self):
gen_drs.write_eg5_2(self.tmpdir)
self.dt.discover_incoming(self.incoming, activity='cmip5',
product='output1')
# Do test1 from superclass
def test_2(self):
self._cmor1()
self.pt.do_version(20100101)
self._cmor2()
self.pt.do_version(20100102)
assert len(self._listdir('files/tas_20100101')) == 5
assert len(self._listdir('files/tas_20100102')) == 2
assert len(self._listdir('v20100101/tas')) == 5
assert len(self._listdir('v20100102/tas')) == 5
# Do test_3 from superclass
# Do test_4 from superclass
def test_6(self):
# Test differencing 2 versions
self._cmor1()
self.pt.do_version(20100101)
self._cmor2()
v1 = []
todo = []
diff = []
same = []
for state, path1, path2 in self.pt.diff_version(20100101):
if state == self.pt.DIFF_V1_ONLY:
v1.append(path1)
elif state == self.pt.DIFF_V2_ONLY:
todo.append(path2)
elif state == self.pt.DIFF_SIZE:
diff.append(path1)
elif state == self.pt.DIFF_NONE:
same.append(path1)
#!TODO: not same? This test needs reviewing.
assert len(v1) == 3
assert len(same) == 2
#!FIXME: See TestEg5
class TestEg5_1(TestEg5):
__test__ = False
def _cmor2(self):
gen_drs.write_eg5_2(self.tmpdir)
self.dt2 = DRSTree(self.drs_fs)
self.dt2.discover_incoming(self.incoming, activity='cmip5',
product='output1')
(self.pt, ) = list(self.dt2.pub_trees.values())
class TestSymlinks(TestEg):
"""
Test that symlinks created during versioning are all relative.
"""
__test__ = True
def setUp(self):
super(TestSymlinks, self).setUp()
gen_drs.write_eg1(self.tmpdir)
self.drs_fs = CMIP5FileSystem(self.tmpdir)
def test_1(self):
dt = DRSTree(self.drs_fs)
dt.discover(self.incoming, activity='cmip5',
product='output1', institute='MOHC', model='HadCM3')
pt = list(dt.pub_trees.values())[0]
assert pt.state == pt.STATE_INITIAL
pt.do_version()
for path, drs in pt.versions[pt.latest]:
lnk = os.readlink(path)
assert not os.path.isabs(lnk)
class TestEg6(TestEg):
__test__ = True
deliveries = [
['clt_day_HadGEM2-ES_rcp26_r1i1p1_20051201-20151130.nc',
'clt_day_HadGEM2-ES_rcp26_r1i1p1_20151201-20251130.nc'],
['huss_day_HadGEM2-ES_rcp26_r1i1p1_20991201-21091130.nc'],
['hur_day_HadGEM2-ES_rcp26_r1i1p1_20991201-20991230.nc',
'hus_day_HadGEM2-ES_rcp26_r1i1p1_20991201-20991230.nc'],
]
def setUp(self):
super(TestEg6, self).setUp()
self.setupIncoming()
self.drs_fs = CMIP5FileSystem(self.tmpdir)
self.dt = DRSTree(self.drs_fs)
for i, delivery in enumerate(self.deliveries):
self.dt.discover_incoming(op.join(self.incoming, str(i)),
activity='cmip5', product='output1', institute='MOHC')
for drs_id, pt in list(self.dt.pub_trees.items()):
pt.do_version(i)
def setupIncoming(self):
# Create incoming files
self.incoming = op.join(self.tmpdir, 'incoming')
os.mkdir(self.incoming)
for i, delivery in enumerate(self.deliveries):
os.mkdir(op.join(self.incoming, str(i)))
for filename in delivery:
gen_drs.write_eg_file(op.join(self.incoming, str(i), filename))
def test_1(self):
assert len(self.dt.pub_trees) == 1
pt = list(self.dt.pub_trees.values())[0]
file_counts = set((k, len(v)) for (k, v) in list(pt.versions.items()))
print (file_counts)
assert file_counts == set([(0, 2), (1, 3), (2, 5)])
class TestEmptyPubdir(TestEg):
# Regression for bug where drs_tool crashes if the PublishTree directory
# exists but is empty
__test__ = True
def setUp(self):
super(TestEmptyPubdir, self).setUp()
pubdir = op.join(self.tmpdir,
'output2/MOHC/HadGEM2-ES/esmControl/day/seaIce/day/r1i1p1')
os.makedirs(pubdir)
self.drs_fs = CMIP5FileSystem(self.tmpdir)
self.dt = DRSTree(self.drs_fs)
def test_1(self):
self.dt.discover()
#----------------------------------------------------------------------------
drs_fs = CMIP5FileSystem('/cmip5')
def test_1():
drs = drs_fs.publication_path_to_drs('/cmip5/output1')
assert drs.product == 'output1'
assert drs.institute == None
def test_2():
drs = drs_fs.publication_path_to_drs('/cmip5/output1/TEST/HadCM3/1pctto4x/day/atmos/day/r1i1p2/foo')
assert drs.institute == 'TEST'
assert drs.experiment == '1pctto4x'
assert drs.table == 'day'
assert drs.ensemble == (1,1,2)
def test_3():
drs = CmipDRS(product='output1', institute='TEST')
path = drs_fs.drs_to_publication_path(drs)
assert path == '/cmip5/output1/TEST/*/*/*/*/*/*'
def test_4():
drs = CmipDRS(product='output1', institute='TEST', ensemble=(1,2,3))
path = drs_fs.drs_to_publication_path(drs)
assert path == '/cmip5/output1/TEST/*/*/*/*/*/r1i2p3'
def test_5():
drs = CmipDRS(product='output1', institute='TEST', model='HadCM3',
frequency='day')
path = drs_fs.drs_to_publication_path(drs)
assert path == '/cmip5/output1/TEST/HadCM3/*/day/*/*/*'
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