sdk/cwl/tests/19109-upload-secondary/*
sdk/cwl/tests/federation/data/*
sdk/cwl/tests/fake-keep-mount/fake_collection_dir/.arvados#collection
+sdk/cwl/tests/container_request_9tee4-xvhdp-kk0ja1cl8b2kr1y-arv-mount.txt
+sdk/cwl/tests/container_request_9tee4-xvhdp-kk0ja1cl8b2kr1y-crunchstat.txt
sdk/go/manifest/testdata/*_manifest
sdk/java/.classpath
sdk/java/pom.xml
if logc is not None:
try:
- summerizer = crunchstat_summary.summarizer.Summarizer(crunchstat_summary.reader.CollectionReader(logc.manifest_locator(), collection_object=logc),
- label=self.name, arv=self.arvrunner.api)
+ summerizer = crunchstat_summary.summarizer.ContainerRequestSummarizer(
+ record,
+ collection_object=logc,
+ label=self.name,
+ arv=self.arvrunner.api)
summerizer.run()
with logc.open("usage_report.html", "wt") as mr:
mr.write(summerizer.html_report())
import sys
import arvados
-from crunchstat_summary import logger, summarizer
+from crunchstat_summary import logger, summarizer, reader
from crunchstat_summary._version import __version__
help='[Deprecated] Look up the specified container find its container request '
'and read its log data from Keep (or from the Arvados event log, '
'if the job is still running)')
- src.add_argument(
- '--pipeline-instance', type=str, metavar='UUID',
- help='[Deprecated] Summarize each component of the given pipeline instance (historical pre-1.4)')
src.add_argument(
'--log-file', type=str,
help='Read log data from a regular file')
'threads': self.args.threads,
'arv': arvados.api('v1')
}
- if self.args.pipeline_instance:
- self.summer = summarizer.NewSummarizer(self.args.pipeline_instance, **kwargs)
- elif self.args.job:
+ if self.args.job:
self.summer = summarizer.NewSummarizer(self.args.job, **kwargs)
elif self.args.container:
self.summer = summarizer.NewSummarizer(self.args.container, **kwargs)
fh = UTF8Decode(gzip.open(self.args.log_file))
else:
fh = open(self.args.log_file, mode = 'r', encoding = 'utf-8')
- self.summer = summarizer.Summarizer(fh, **kwargs)
+ self.summer = summarizer.Summarizer(reader.StubReader(fh), **kwargs)
else:
- self.summer = summarizer.Summarizer(sys.stdin, **kwargs)
+ self.summer = summarizer.Summarizer(reader.StubReader(sys.stdin), **kwargs)
return self.summer.run()
def report(self):
['event_type', 'in', self.event_types]]
try:
while True:
- page = arvados.api().logs().index(
+ page = arvados.api().logs().list(
limit=1000,
order=['id asc'],
filters=filters + [['id','>',str(last_id)]],
def __exit__(self, exc_type, exc_val, exc_tb):
pass
+
+ def node_info(self):
+ return {}
+
+class StubReader(object):
+ def __init__(self, fh):
+ self.fh = fh
+
+ def __str__(self):
+ return ""
+
+ def __iter__(self):
+ return iter(self.fh)
+
+ def __enter__(self):
+ return self
+
+ def __exit__(self, exc_type, exc_val, exc_tb):
+ pass
+
+ def node_info(self):
+ return {}
# constructor will overwrite this with something useful.
self.existing_constraints = {}
self.node_info = {}
+ self.cost = 0
+ self.arv_config = {}
logger.info("%s: logdata %s", self.label, logdata)
self._run(logdata)
def _run(self, logdata):
- self.detected_crunch1 = False
-
if not self.node_info:
self.node_info = logdata.node_info()
for line in logdata:
- if not self.detected_crunch1 and '-8i9sb-' in line:
- self.detected_crunch1 = True
-
- if self.detected_crunch1:
- m = re.search(r'^\S+ \S+ \d+ (?P<seq>\d+) job_task (?P<task_uuid>\S+)$', line)
- if m:
- seq = int(m.group('seq'))
- uuid = m.group('task_uuid')
- self.seq_to_uuid[seq] = uuid
- logger.debug('%s: seq %d is task %s', self.label, seq, uuid)
- continue
-
- m = re.search(r'^\S+ \S+ \d+ (?P<seq>\d+) (success in|failure \(#., permanent\) after) (?P<elapsed>\d+) seconds', line)
- if m:
- task_id = self.seq_to_uuid[int(m.group('seq'))]
- elapsed = int(m.group('elapsed'))
- self.task_stats[task_id]['time'] = {'elapsed': elapsed}
- if elapsed > self.stats_max['time']['elapsed']:
- self.stats_max['time']['elapsed'] = elapsed
- continue
-
- m = re.search(r'^\S+ \S+ \d+ (?P<seq>\d+) stderr Queued job (?P<uuid>\S+)$', line)
- if m:
- uuid = m.group('uuid')
- if self._skip_child_jobs:
- logger.warning('%s: omitting stats from child job %s'
- ' because --skip-child-jobs flag is on',
- self.label, uuid)
- continue
- logger.debug('%s: follow %s', self.label, uuid)
- child_summarizer = NewSummarizer(uuid)
- child_summarizer.stats_max = self.stats_max
- child_summarizer.task_stats = self.task_stats
- child_summarizer.tasks = self.tasks
- child_summarizer.starttime = self.starttime
- child_summarizer.run()
- logger.debug('%s: done %s', self.label, uuid)
- continue
-
- # 2017-12-02_17:15:08 e51c5-8i9sb-mfp68stkxnqdd6m 63676 0 stderr crunchstat: keepcalls 0 put 2576 get -- interval 10.0000 seconds 0 put 2576 get
- m = re.search(r'^(?P<timestamp>[^\s.]+)(\.\d+)? (?P<job_uuid>\S+) \d+ (?P<seq>\d+) stderr (?P<crunchstat>crunchstat: )(?P<category>\S+) (?P<current>.*?)( -- interval (?P<interval>.*))?\n$', line)
- if not m:
- continue
- else:
- # crunch2
- # 2017-12-01T16:56:24.723509200Z crunchstat: keepcalls 0 put 3 get -- interval 10.0000 seconds 0 put 3 get
- m = re.search(r'^(?P<timestamp>\S+) (?P<crunchstat>crunchstat: )?(?P<category>\S+) (?P<current>.*?)( -- interval (?P<interval>.*))?\n$', line)
- if not m:
- continue
+ # crunch2
+ # 2017-12-01T16:56:24.723509200Z crunchstat: keepcalls 0 put 3 get -- interval 10.0000 seconds 0 put 3 get
+ m = re.search(r'^(?P<timestamp>\S+) (?P<crunchstat>crunchstat: )?(?P<category>\S+) (?P<current>.*?)( -- interval (?P<interval>.*))?\n$', line)
+ if not m:
+ continue
if self.label is None:
try:
self.label = m.group('job_uuid')
except IndexError:
self.label = 'label #1'
- category = m.group('category')
- if category.endswith(':'):
- # "stderr crunchstat: notice: ..."
- continue
- elif category in ('error', 'caught'):
- continue
- elif category in ('read', 'open', 'cgroup', 'CID', 'Running'):
- # "stderr crunchstat: read /proc/1234/net/dev: ..."
- # (old logs are less careful with unprefixed error messages)
- continue
- if self.detected_crunch1:
- task_id = self.seq_to_uuid[int(m.group('seq'))]
- else:
- task_id = 'container'
+ task_id = 'container'
task = self.tasks[task_id]
# Use the first and last crunchstat timestamps as
if self.finishtime is None or timestamp > self.finishtime:
self.finishtime = timestamp
- if (not self.detected_crunch1) and task.starttime is not None and task.finishtime is not None:
+ if task.starttime is not None and task.finishtime is not None:
elapsed = (task.finishtime - task.starttime).seconds
self.task_stats[task_id]['time'] = {'elapsed': elapsed}
if elapsed > self.stats_max['time']['elapsed']:
self.stats_max['time']['elapsed'] = elapsed
+ category = m.group('category')
+ if category.endswith(':'):
+ # "stderr crunchstat: notice: ..."
+ continue
+ elif category in ('error', 'caught'):
+ continue
+ elif category in ('read', 'open', 'cgroup', 'CID', 'Running'):
+ # "stderr crunchstat: read /proc/1234/net/dev: ..."
+ # (old logs are less careful with unprefixed error messages)
+ continue
+
this_interval_s = None
for group in ['current', 'interval']:
if not m.group(group):
('Requested CPU cores',
self.existing_constraints.get(self._map_runtime_constraint('vcpus')),
None,
- ''),
+ '') if self.existing_constraints.get(self._map_runtime_constraint('vcpus')) else None,
('Instance VCPUs',
self.node_info.get('VCPUs'),
('Requested RAM',
self.existing_constraints.get(self._map_runtime_constraint('ram')),
lambda x: x / 2**20,
- 'MB'),
+ 'MB') if self.existing_constraints.get(self._map_runtime_constraint('ram')) else None,
('Maximum RAM request for this instance type',
- (self.node_info.get('RAM') - self.arv_config.get('Containers', {}).get('ReserveExtraRAM', {}))*.95,
+ (self.node_info.get('RAM') - self.arv_config.get('Containers', {}).get('ReserveExtraRAM', 0))*.95,
lambda x: x / 2**20,
- 'MB'),
+ 'MB') if self.node_info.get('RAM') else None,
('Max network traffic{}'.format(by_single_task),
self.stats_max['net:eth0']['tx+rx'] +
if used_bytes == float('-Inf'):
logger.warning('%s: no memory usage data', self.label)
return
+ if not self.existing_constraints.get(constraint_key):
+ return
used_mib = math.ceil(float(used_bytes) / MB)
asked_mib = self.existing_constraints.get(constraint_key) / MB
def _runtime_constraint_mem_unit(self):
if hasattr(self, 'runtime_constraint_mem_unit'):
return self.runtime_constraint_mem_unit
- elif self.detected_crunch1:
- return JobSummarizer.runtime_constraint_mem_unit
else:
return ContainerRequestSummarizer.runtime_constraint_mem_unit
def _map_runtime_constraint(self, key):
- if hasattr(self, 'map_runtime_constraint'):
- return self.map_runtime_constraint[key]
- elif self.detected_crunch1:
- return JobSummarizer.map_runtime_constraint[key]
- else:
- return key
+ return key
class CollectionSummarizer(Summarizer):
if process is None:
process = arv.container_requests().get(uuid=uuid).execute()
klass = ContainerRequestTreeSummarizer
- elif '-8i9sb-' in uuid:
- if process is None:
- process = arv.jobs().get(uuid=uuid).execute()
- klass = JobTreeSummarizer
- elif '-d1hrv-' in uuid:
- if process is None:
- process = arv.pipeline_instances().get(uuid=uuid).execute()
- klass = PipelineSummarizer
elif '-4zz18-' in uuid:
return CollectionSummarizer(collection_id=uuid)
else:
log_collection = self.process.get('log', self.process.get('log_uuid'))
if log_collection and self.process.get('state') != 'Uncommitted': # arvados.util.CR_UNCOMMITTED:
try:
- rdr = crunchstat_summary.reader.CollectionReader(log_collection, api_client=arv)
+ rdr = crunchstat_summary.reader.CollectionReader(
+ log_collection,
+ api_client=arv,
+ collection_object=kwargs.get("collection_object"))
except arvados.errors.NotFoundError as e:
logger.warning("Trying event logs after failing to read "
"log collection %s: %s", self.process['log'], e)
self.cost = self.process.get('cost', 0)
-
-class JobSummarizer(ProcessSummarizer):
- runtime_constraint_mem_unit = MB
- map_runtime_constraint = {
- 'keep_cache_ram': 'keep_cache_mb_per_task',
- 'ram': 'min_ram_mb_per_node',
- 'vcpus': 'min_cores_per_node',
- }
-
-
class ContainerRequestSummarizer(ProcessSummarizer):
runtime_constraint_mem_unit = 1
return WEBCHART_CLASS(label, iter(self._descendants().values())).html(tophtml, bottomhtml)
-class JobTreeSummarizer(MultiSummarizer):
- """Summarizes a job and all children listed in its components field."""
- def __init__(self, job, label=None, **kwargs):
- arv = kwargs.get("arv") or arvados.api('v1')
- label = label or job.get('name', job['uuid'])
- children = collections.OrderedDict()
- children[job['uuid']] = JobSummarizer(job, label=label, **kwargs)
- if job.get('components', None):
- preloaded = {}
- for j in arv.jobs().index(
- limit=len(job['components']),
- filters=[['uuid','in',list(job['components'].values())]]).execute()['items']:
- preloaded[j['uuid']] = j
- for cname in sorted(job['components'].keys()):
- child_uuid = job['components'][cname]
- j = (preloaded.get(child_uuid) or
- arv.jobs().get(uuid=child_uuid).execute())
- children[child_uuid] = JobTreeSummarizer(job=j, label=cname, **kwargs)
-
- super(JobTreeSummarizer, self).__init__(
- children=children,
- label=label,
- **kwargs)
-
-
-class PipelineSummarizer(MultiSummarizer):
- def __init__(self, instance, **kwargs):
- children = collections.OrderedDict()
- for cname, component in instance['components'].items():
- if 'job' not in component:
- logger.warning(
- "%s: skipping component with no job assigned", cname)
- else:
- logger.info(
- "%s: job %s", cname, component['job']['uuid'])
- summarizer = JobTreeSummarizer(component['job'], label=cname, **kwargs)
- summarizer.label = '{} {}'.format(
- cname, component['job']['uuid'])
- children[cname] = summarizer
- super(PipelineSummarizer, self).__init__(
- children=children,
- label=instance['uuid'],
- **kwargs)
-
-
class ContainerRequestTreeSummarizer(MultiSummarizer):
def __init__(self, root, skip_child_jobs=False, **kwargs):
arv = kwargs.get("arv") or arvados.api('v1')
statfs total 402611240960 - 402611240960
statfs used 4870303744 52426.18 4866453504
time elapsed 20 - 20
-# Number of tasks: 1
-# Max CPU time spent by a single task: 2.45s
+# Elapsed time: 20s
# Max CPU usage in a single interval: 23.70%
# Overall CPU usage: 12.25%
-# Max memory used by a single task: 0.07GB
-# Max network traffic in a single task: 0.00GB
+# Requested CPU cores: 1
+# Max memory used: 66.30MB
+# Requested RAM: 2500.00MB
+# Max network traffic: 0.00GB
# Max network speed in a single interval: 0.00MB/s
-# Keep cache miss rate 0.00%
-# Keep cache utilization 0.00%
-# Temp disk utilization 1.21%
-#!! container max RSS was 67 MiB -- try reducing runtime_constraints to "ram":1020054732
-#!! container max temp disk utilization was 1% of 383960 MiB -- consider reducing "tmpdirMin" and/or "outdirMin"
+# Keep cache miss rate: 0.00%
+# Keep cache utilization: 0.00%
+# Temp disk utilization: 1.21%
net:keep0 tx 0 0 0
net:keep0 tx+rx 0 0 0
time elapsed 10 - 10
-# Number of tasks: 1
-# Max CPU time spent by a single task: 0s
+# Elapsed time: 10s
# Max CPU usage in a single interval: 0%
# Overall CPU usage: 0.00%
-# Max memory used by a single task: 0.00GB
-# Max network traffic in a single task: 0.00GB
+# Max memory used: 0.00MB
+# Max network traffic: 0.00GB
# Max network speed in a single interval: 0.00MB/s
-# Keep cache miss rate 0.00%
-# Keep cache utilization 0.00%
-# Temp disk utilization 0.00%
+# Keep cache miss rate: 0.00%
+# Keep cache utilization: 0.00%
+# Temp disk utilization: 0.00%
statfs total 402611240960 - 402611240960
statfs used 4870303744 52426.18 4866453504
time elapsed 20 - 20
-# Number of tasks: 1
-# Max CPU time spent by a single task: 2.45s
+# Elapsed time: 20s
# Max CPU usage in a single interval: 23.70%
# Overall CPU usage: 12.25%
-# Max memory used by a single task: 0.07GB
-# Max network traffic in a single task: 0.00GB
+# Max memory used: 66.30MB
+# Max network traffic: 0.00GB
# Max network speed in a single interval: 0.00MB/s
-# Keep cache miss rate 0.00%
-# Keep cache utilization 0.00%
-# Temp disk utilization 1.21%
-#!! label #1 max RSS was 67 MiB -- try reducing runtime_constraints to "ram":1020054732
-#!! label #1 max temp disk utilization was 1% of 383960 MiB -- consider reducing "tmpdirMin" and/or "outdirMin"
+# Keep cache miss rate: 0.00%
+# Keep cache utilization: 0.00%
+# Temp disk utilization: 1.21%
statfs total 402611240960 - 402611240960
statfs used 4870303744 52426.18 4866453504
time elapsed 20 - 20
-# Number of tasks: 1
-# Max CPU time spent by a single task: 2.45s
+# Elapsed time: 20s
# Max CPU usage in a single interval: 23.70%
# Overall CPU usage: 12.25%
-# Max memory used by a single task: 0.07GB
-# Max network traffic in a single task: 0.00GB
+# Requested CPU cores: 1
+# Max memory used: 66.30MB
+# Requested RAM: 2500.00MB
+# Max network traffic: 0.00GB
# Max network speed in a single interval: 0.00MB/s
-# Keep cache miss rate 0.00%
-# Keep cache utilization 0.00%
-# Temp disk utilization 1.21%
-#!! container max RSS was 67 MiB -- try reducing runtime_constraints to "ram":1020054732
-#!! container max temp disk utilization was 1% of 383960 MiB -- consider reducing "tmpdirMin" and/or "outdirMin"
+# Keep cache miss rate: 0.00%
+# Keep cache utilization: 0.00%
+# Temp disk utilization: 1.21%
-2016-01-07_00:15:33 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr
+2016-01-07_00:15:33 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr
2016-01-07_00:15:33 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr old error message:
2016-01-07_00:15:33 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr crunchstat: read /proc/3305/net/dev: open /proc/3305/net/dev: no such file or directory
-2016-01-07_00:15:34 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr
+2016-01-07_00:15:34 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr
2016-01-07_00:15:34 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr new error message:
2016-01-07_00:15:34 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr crunchstat: error reading /proc/3305/net/dev: open /proc/3305/net/dev: no such file or directory
2016-01-07_00:15:34 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr
2016-01-07_00:15:34 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr cancelled job:
-2016-01-07_00:15:34 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr crunchstat: caught signal: interrupt
+2016-01-07_00:15:59 tb05z-8i9sb-khsk5rmf4xjdcbl 20819 0 stderr crunchstat: caught signal: interrupt
+++ /dev/null
-category metric task_max task_max_rate job_total
-blkio:0:0 read 0 0 0
-blkio:0:0 write 0 0 0
-cpu cpus 8.00 - -
-cpu sys 1.92 0.04 1.92
-cpu user 3.83 0.09 3.83
-cpu user+sys 5.75 0.13 5.75
-fuseops read 0 0 0
-fuseops write 0 0 0
-keepcache hit 0 0 0
-keepcache miss 0 0 0
-keepcalls get 0 0 0
-keepcalls put 0 0 0
-mem cache 1678139392 - -
-mem pgmajfault 0 - 0
-mem rss 349814784 - -
-mem swap 0 - -
-net:eth0 rx 1754364530 41658344.87 1754364530
-net:eth0 tx 38837956 920817.97 38837956
-net:eth0 tx+rx 1793202486 42579162.83 1793202486
-net:keep0 rx 0 0 0
-net:keep0 tx 0 0 0
-net:keep0 tx+rx 0 0 0
-time elapsed 80 - 80
-# Number of tasks: 1
-# Max CPU time spent by a single task: 5.75s
-# Max CPU usage in a single interval: 13.00%
-# Overall CPU usage: 7.19%
-# Max memory used by a single task: 0.35GB
-# Max network traffic in a single task: 1.79GB
-# Max network speed in a single interval: 42.58MB/s
-# Keep cache miss rate 0.00%
-# Keep cache utilization 0.00%
-# Temp disk utilization 0.00%
-#!! 4xphq-8i9sb-jq0ekny1xou3zoh max RSS was 334 MiB -- try reducing runtime_constraints to "min_ram_mb_per_node":972
+++ /dev/null
-category metric task_max task_max_rate job_total
-cpu cpus 8.00 - -
-cpu sys 0 - 0.00
-cpu user 0 - 0.00
-cpu user+sys 0 - 0.00
-mem cache 12288 - -
-mem pgmajfault 0 - 0
-mem rss 856064 - -
-mem swap 0 - -
-net:eth0 rx 90 - 90
-net:eth0 tx 90 - 90
-net:eth0 tx+rx 180 - 180
-time elapsed 2 - 4
-# Number of tasks: 2
-# Max CPU time spent by a single task: 0s
-# Max CPU usage in a single interval: 0%
-# Overall CPU usage: 0.00%
-# Max memory used by a single task: 0.00GB
-# Max network traffic in a single task: 0.00GB
-# Max network speed in a single interval: 0.00MB/s
-# Keep cache miss rate 0.00%
-# Keep cache utilization 0.00%
-# Temp disk utilization 0.00%
-#!! 4xphq-8i9sb-zvb2ocfycpomrup max RSS was 1 MiB -- try reducing runtime_constraints to "min_ram_mb_per_node":972
+++ /dev/null
-category metric task_max task_max_rate job_total
-cpu cpus 8.00 - -
-cpu sys 0 - 0.00
-cpu user 0 - 0.00
-cpu user+sys 0 - 0.00
-mem cache 8192 - -
-mem pgmajfault 0 - 0
-mem rss 450560 - -
-mem swap 0 - -
-net:eth0 rx 90 - 90
-net:eth0 tx 90 - 90
-net:eth0 tx+rx 180 - 180
-time elapsed 2 - 3
-# Number of tasks: 2
-# Max CPU time spent by a single task: 0s
-# Max CPU usage in a single interval: 0%
-# Overall CPU usage: 0.00%
-# Max memory used by a single task: 0.00GB
-# Max network traffic in a single task: 0.00GB
-# Max network speed in a single interval: 0.00MB/s
-# Keep cache miss rate 0.00%
-# Keep cache utilization 0.00%
-# Temp disk utilization 0.00%
-#!! 4xphq-8i9sb-v831jm2uq0g2g9x max RSS was 1 MiB -- try reducing runtime_constraints to "min_ram_mb_per_node":972
import unittest
from crunchstat_summary.command import UTF8Decode
-from crunchstat_summary import logger
+from crunchstat_summary import logger, reader
TESTS_DIR = os.path.dirname(os.path.abspath(__file__))
class SummarizeEdgeCases(TestCase):
def test_error_messages(self):
logfile = io.open(os.path.join(TESTS_DIR, 'crunchstat_error_messages.txt'), encoding='utf-8')
- s = crunchstat_summary.summarizer.Summarizer(logfile)
+ s = crunchstat_summary.summarizer.Summarizer(reader.StubReader(logfile))
s.run()
self.assertRegex(self.logbuf.getvalue(), r'CPU stats are missing -- possible cluster configuration issue')
self.assertRegex(self.logbuf.getvalue(), r'memory stats are missing -- possible cluster configuration issue')
self.assertRegex(self.logbuf.getvalue(), r'network I/O stats are missing -- possible cluster configuration issue')
self.assertRegex(self.logbuf.getvalue(), r'storage space stats are missing -- possible cluster configuration issue')
-
class SummarizeContainerCommon(TestCase):
fake_container = {
'uuid': '9tee4-dz642-lymtndkpy39eibk',
@mock.patch('arvados.api')
def check_common(self, mock_api, mock_cr):
items = [ {'items':[self.fake_request]}] + [{'items':[]}] * 100
- # Index and list mean the same thing, but are used in different places in the
- # code. It's fragile, but exploit that fact to distinguish the two uses.
- mock_api().container_requests().index().execute.return_value = {'items': [] } # child_crs
mock_api().container_requests().list().execute.side_effect = items # parent request
mock_api().container_requests().get().execute.return_value = self.fake_request
mock_api().containers().get().execute.return_value = self.fake_container
mock_cr().__iter__.return_value = [
'crunch-run.txt', 'stderr.txt', 'node-info.txt',
'container.json', 'crunchstat.txt', 'arv-mount.txt']
- def _open(n):
+ def _open(n, mode):
if n == "crunchstat.txt":
return UTF8Decode(gzip.open(self.logfile))
elif n == "arv-mount.txt":
return UTF8Decode(gzip.open(self.arvmountlog))
+ elif n == "node.json":
+ return io.StringIO("{}")
mock_cr().open.side_effect = _open
args = crunchstat_summary.command.ArgumentParser().parse_args(
self.arg_strings)
self.check_common()
self.assertNotRegex(self.logbuf.getvalue(), r'stats are missing')
self.assertNotRegex(self.logbuf.getvalue(), r'possible cluster configuration issue')
-
-
-class SummarizeJob(TestCase):
- fake_job_uuid = '4xphq-8i9sb-jq0ekny1xou3zoh'
- fake_log_id = 'fake-log-collection-id'
- fake_job = {
- 'uuid': fake_job_uuid,
- 'log': fake_log_id,
- }
- logfile = os.path.join(TESTS_DIR, 'logfile_20151204190335.txt.gz')
-
- @mock.patch('arvados.collection.CollectionReader')
- @mock.patch('arvados.api')
- def test_job_report(self, mock_api, mock_cr):
- mock_api().jobs().get().execute.return_value = self.fake_job
- mock_cr().__iter__.return_value = ['fake-logfile.txt']
- mock_cr().open.return_value = UTF8Decode(gzip.open(self.logfile))
- args = crunchstat_summary.command.ArgumentParser().parse_args(
- ['--job', self.fake_job_uuid])
- cmd = crunchstat_summary.command.Command(args)
- cmd.run()
- self.diff_known_report(self.logfile, cmd)
- mock_api().jobs().get.assert_called_with(uuid=self.fake_job_uuid)
- mock_cr.assert_called_with(self.fake_log_id)
- mock_cr().open.assert_called_with('fake-logfile.txt')
-
-
-class SummarizePipeline(TestCase):
- fake_instance = {
- 'uuid': 'zzzzz-d1hrv-i3e77t9z5y8j9cc',
- 'owner_uuid': 'zzzzz-tpzed-xurymjxw79nv3jz',
- 'components': collections.OrderedDict([
- ['foo', {
- 'job': {
- 'uuid': 'zzzzz-8i9sb-000000000000000',
- 'log': 'fake-log-pdh-0',
- 'runtime_constraints': {
- 'min_ram_mb_per_node': 900,
- 'min_cores_per_node': 1,
- },
- },
- }],
- ['bar', {
- 'job': {
- 'uuid': 'zzzzz-8i9sb-000000000000001',
- 'log': 'fake-log-pdh-1',
- 'runtime_constraints': {
- 'min_ram_mb_per_node': 900,
- 'min_cores_per_node': 1,
- },
- },
- }],
- ['no-job-assigned', {}],
- ['unfinished-job', {
- 'job': {
- 'uuid': 'zzzzz-8i9sb-xxxxxxxxxxxxxxx',
- },
- }],
- ['baz', {
- 'job': {
- 'uuid': 'zzzzz-8i9sb-000000000000002',
- 'log': 'fake-log-pdh-2',
- 'runtime_constraints': {
- 'min_ram_mb_per_node': 900,
- 'min_cores_per_node': 1,
- },
- },
- }]]),
- }
-
- @mock.patch('arvados.collection.CollectionReader')
- @mock.patch('arvados.api')
- def test_pipeline(self, mock_api, mock_cr):
- logfile = os.path.join(TESTS_DIR, 'logfile_20151204190335.txt.gz')
- mock_api().pipeline_instances().get().execute. \
- return_value = self.fake_instance
- mock_cr().__iter__.return_value = ['fake-logfile.txt']
- mock_cr().open.side_effect = [UTF8Decode(gzip.open(logfile)) for _ in range(3)]
- args = crunchstat_summary.command.ArgumentParser().parse_args(
- ['--pipeline-instance', self.fake_instance['uuid']])
- cmd = crunchstat_summary.command.Command(args)
- cmd.run()
-
- with io.open(logfile+'.report', encoding='utf-8') as f:
- job_report = [line for line in f if not line.startswith('#!! ')]
- expect = (
- ['### Summary for foo (zzzzz-8i9sb-000000000000000)\n'] +
- job_report + ['\n'] +
- ['### Summary for bar (zzzzz-8i9sb-000000000000001)\n'] +
- job_report + ['\n'] +
- ['### Summary for unfinished-job (partial) (zzzzz-8i9sb-xxxxxxxxxxxxxxx)\n',
- '(no report generated)\n',
- '\n'] +
- ['### Summary for baz (zzzzz-8i9sb-000000000000002)\n'] +
- job_report)
- self.diff_report(cmd, expect)
- mock_cr.assert_has_calls(
- [
- mock.call('fake-log-pdh-0'),
- mock.call('fake-log-pdh-1'),
- mock.call('fake-log-pdh-2'),
- ], any_order=True)
- mock_cr().open.assert_called_with('fake-logfile.txt')
-
-
-class SummarizeACRJob(TestCase):
- fake_job = {
- 'uuid': 'zzzzz-8i9sb-i3e77t9z5y8j9cc',
- 'owner_uuid': 'zzzzz-tpzed-xurymjxw79nv3jz',
- 'components': {
- 'foo': 'zzzzz-8i9sb-000000000000000',
- 'bar': 'zzzzz-8i9sb-000000000000001',
- 'unfinished-job': 'zzzzz-8i9sb-xxxxxxxxxxxxxxx',
- 'baz': 'zzzzz-8i9sb-000000000000002',
- }
- }
- fake_jobs_index = { 'items': [
- {
- 'uuid': 'zzzzz-8i9sb-000000000000000',
- 'log': 'fake-log-pdh-0',
- 'runtime_constraints': {
- 'min_ram_mb_per_node': 900,
- 'min_cores_per_node': 1,
- },
- },
- {
- 'uuid': 'zzzzz-8i9sb-000000000000001',
- 'log': 'fake-log-pdh-1',
- 'runtime_constraints': {
- 'min_ram_mb_per_node': 900,
- 'min_cores_per_node': 1,
- },
- },
- {
- 'uuid': 'zzzzz-8i9sb-xxxxxxxxxxxxxxx',
- },
- {
- 'uuid': 'zzzzz-8i9sb-000000000000002',
- 'log': 'fake-log-pdh-2',
- 'runtime_constraints': {
- 'min_ram_mb_per_node': 900,
- 'min_cores_per_node': 1,
- },
- },
- ]}
- @mock.patch('arvados.collection.CollectionReader')
- @mock.patch('arvados.api')
- def test_acr_job(self, mock_api, mock_cr):
- logfile = os.path.join(TESTS_DIR, 'logfile_20151204190335.txt.gz')
- mock_api().jobs().index().execute.return_value = self.fake_jobs_index
- mock_api().jobs().get().execute.return_value = self.fake_job
- mock_cr().__iter__.return_value = ['fake-logfile.txt']
- mock_cr().open.side_effect = [UTF8Decode(gzip.open(logfile)) for _ in range(3)]
- args = crunchstat_summary.command.ArgumentParser().parse_args(
- ['--job', self.fake_job['uuid']])
- cmd = crunchstat_summary.command.Command(args)
- cmd.run()
-
- with io.open(logfile+'.report', encoding='utf-8') as f:
- job_report = [line for line in f if not line.startswith('#!! ')]
- expect = (
- ['### Summary for zzzzz-8i9sb-i3e77t9z5y8j9cc (partial) (zzzzz-8i9sb-i3e77t9z5y8j9cc)\n',
- '(no report generated)\n',
- '\n'] +
- ['### Summary for bar (zzzzz-8i9sb-000000000000001)\n'] +
- job_report + ['\n'] +
- ['### Summary for baz (zzzzz-8i9sb-000000000000002)\n'] +
- job_report + ['\n'] +
- ['### Summary for foo (zzzzz-8i9sb-000000000000000)\n'] +
- job_report + ['\n'] +
- ['### Summary for unfinished-job (partial) (zzzzz-8i9sb-xxxxxxxxxxxxxxx)\n',
- '(no report generated)\n']
- )
- self.diff_report(cmd, expect)
- mock_cr.assert_has_calls(
- [
- mock.call('fake-log-pdh-0'),
- mock.call('fake-log-pdh-1'),
- mock.call('fake-log-pdh-2'),
- ], any_order=True)
- mock_cr().open.assert_called_with('fake-logfile.txt')
projects / arvados.git / commitdiff