Coverage for tests/test_cmdLineFwk.py: 16%
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1# This file is part of ctrl_mpexec.
2#
3# Developed for the LSST Data Management System.
4# This product includes software developed by the LSST Project
5# (https://www.lsst.org).
6# See the COPYRIGHT file at the top-level directory of this distribution
7# for details of code ownership.
8#
9# This program is free software: you can redistribute it and/or modify
10# it under the terms of the GNU General Public License as published by
11# the Free Software Foundation, either version 3 of the License, or
12# (at your option) any later version.
13#
14# This program is distributed in the hope that it will be useful,
15# but WITHOUT ANY WARRANTY; without even the implied warranty of
16# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
17# GNU General Public License for more details.
18#
19# You should have received a copy of the GNU General Public License
20# along with this program. If not, see <https://www.gnu.org/licenses/>.
22"""Simple unit test for cmdLineFwk module.
23"""
25import contextlib
26import copy
27import logging
28import os
29import pickle
30import re
31import shutil
32import tempfile
33import unittest
34from dataclasses import dataclass
35from io import StringIO
36from types import SimpleNamespace
37from typing import NamedTuple
39import click
40import lsst.pex.config as pexConfig
41import lsst.pipe.base.connectionTypes as cT
42import lsst.utils.tests
43from lsst.ctrl.mpexec import CmdLineFwk, MPGraphExecutorError
44from lsst.ctrl.mpexec.cli.opt import run_options
45from lsst.ctrl.mpexec.cli.utils import (
46 _ACTION_ADD_INSTRUMENT,
47 _ACTION_ADD_TASK,
48 _ACTION_CONFIG,
49 _ACTION_CONFIG_FILE,
50 PipetaskCommand,
51)
52from lsst.ctrl.mpexec.showInfo import ShowInfo
53from lsst.daf.butler import (
54 Config,
55 DataCoordinate,
56 DatasetRef,
57 DimensionConfig,
58 DimensionUniverse,
59 Quantum,
60 Registry,
61)
62from lsst.daf.butler.core.datasets.type import DatasetType
63from lsst.daf.butler.registry import RegistryConfig
64from lsst.pipe.base import (
65 Instrument,
66 Pipeline,
67 PipelineTaskConfig,
68 PipelineTaskConnections,
69 QuantumGraph,
70 TaskDef,
71)
72from lsst.pipe.base.graphBuilder import DatasetQueryConstraintVariant as DQCVariant
73from lsst.pipe.base.tests.simpleQGraph import (
74 AddTask,
75 AddTaskFactoryMock,
76 makeSimpleButler,
77 makeSimplePipeline,
78 makeSimpleQGraph,
79 populateButler,
80)
81from lsst.utils.tests import temporaryDirectory
83logging.basicConfig(level=getattr(logging, os.environ.get("UNIT_TEST_LOGGING_LEVEL", "INFO"), logging.INFO))
85# Have to monkey-patch Instrument.fromName() to not retrieve non-existing
86# instrument from registry, these tests can run fine without actual instrument
87# and implementing full mock for Instrument is too complicated.
88Instrument.fromName = lambda name, reg: None 88 ↛ exitline 88 didn't run the lambda on line 88
91@contextlib.contextmanager
92def makeTmpFile(contents=None, suffix=None):
93 """Context manager for generating temporary file name.
95 Temporary file is deleted on exiting context.
97 Parameters
98 ----------
99 contents : `bytes`
100 Data to write into a file.
101 """
102 fd, tmpname = tempfile.mkstemp(suffix=suffix)
103 if contents:
104 os.write(fd, contents)
105 os.close(fd)
106 yield tmpname
107 with contextlib.suppress(OSError):
108 os.remove(tmpname)
111@contextlib.contextmanager
112def makeSQLiteRegistry(create=True, universe=None):
113 """Context manager to create new empty registry database.
115 Yields
116 ------
117 config : `RegistryConfig`
118 Registry configuration for initialized registry database.
119 """
120 dimensionConfig = universe.dimensionConfig if universe is not None else _makeDimensionConfig()
121 with temporaryDirectory() as tmpdir:
122 uri = f"sqlite:///{tmpdir}/gen3.sqlite"
123 config = RegistryConfig()
124 config["db"] = uri
125 if create:
126 Registry.createFromConfig(config, dimensionConfig=dimensionConfig)
127 yield config
130class SimpleConnections(PipelineTaskConnections, dimensions=(), defaultTemplates={"template": "simple"}):
131 schema = cT.InitInput(doc="Schema", name="{template}schema", storageClass="SourceCatalog")
134class SimpleConfig(PipelineTaskConfig, pipelineConnections=SimpleConnections):
135 field = pexConfig.Field(dtype=str, doc="arbitrary string")
137 def setDefaults(self):
138 PipelineTaskConfig.setDefaults(self)
141def _makeArgs(registryConfig=None, **kwargs):
142 """Return parsed command line arguments.
144 By default butler_config is set to `Config` populated with some defaults,
145 it can be overridden completely by keyword argument.
147 Parameters
148 ----------
149 cmd : `str`, optional
150 Produce arguments for this pipetask command.
151 registryConfig : `RegistryConfig`, optional
152 Override for registry configuration.
153 **kwargs
154 Overrides for other arguments.
155 """
156 # Use a mock to get the default value of arguments to 'run'.
158 mock = unittest.mock.Mock()
160 @click.command(cls=PipetaskCommand)
161 @run_options()
162 def fake_run(ctx, **kwargs):
163 """Fake "pipetask run" command for gathering input arguments.
165 The arguments & options should always match the arguments & options in
166 the "real" command function `lsst.ctrl.mpexec.cli.cmd.run`.
167 """
168 mock(**kwargs)
170 runner = click.testing.CliRunner()
171 # --butler-config is the only required option
172 result = runner.invoke(fake_run, "--butler-config /")
173 if result.exit_code != 0:
174 raise RuntimeError(f"Failure getting default args from 'fake_run': {result}")
175 mock.assert_called_once()
176 args = mock.call_args[1]
177 args["enableLsstDebug"] = args.pop("debug")
178 args["execution_butler_location"] = args.pop("save_execution_butler")
179 if "pipeline_actions" not in args:
180 args["pipeline_actions"] = []
181 if "mock_configs" not in args:
182 args["mock_configs"] = []
183 args = SimpleNamespace(**args)
185 # override butler_config with our defaults
186 if "butler_config" not in kwargs:
187 args.butler_config = Config()
188 if registryConfig:
189 args.butler_config["registry"] = registryConfig
190 # The default datastore has a relocatable root, so we need to specify
191 # some root here for it to use
192 args.butler_config.configFile = "."
194 # override arguments from keyword parameters
195 for key, value in kwargs.items():
196 setattr(args, key, value)
197 args.dataset_query_constraint = DQCVariant.fromExpression(args.dataset_query_constraint)
198 return args
201class FakeDSType(NamedTuple):
202 name: str
205@dataclass(frozen=True)
206class FakeDSRef:
207 datasetType: str
208 dataId: tuple
210 def isComponent(self):
211 return False
214# Task class name used by tests, needs to be importable
215_TASK_CLASS = "lsst.pipe.base.tests.simpleQGraph.AddTask"
218def _makeDimensionConfig():
219 """Make a simple dimension universe configuration."""
220 return DimensionConfig(
221 {
222 "version": 1,
223 "namespace": "ctrl_mpexec_test",
224 "skypix": {
225 "common": "htm7",
226 "htm": {
227 "class": "lsst.sphgeom.HtmPixelization",
228 "max_level": 24,
229 },
230 },
231 "elements": {
232 "A": {
233 "keys": [
234 {
235 "name": "id",
236 "type": "int",
237 }
238 ],
239 "storage": {
240 "cls": "lsst.daf.butler.registry.dimensions.table.TableDimensionRecordStorage",
241 },
242 },
243 "B": {
244 "keys": [
245 {
246 "name": "id",
247 "type": "int",
248 }
249 ],
250 "storage": {
251 "cls": "lsst.daf.butler.registry.dimensions.table.TableDimensionRecordStorage",
252 },
253 },
254 },
255 "packers": {},
256 }
257 )
260def _makeQGraph():
261 """Make a trivial QuantumGraph with one quantum.
263 The only thing that we need to do with this quantum graph is to pickle
264 it, the quanta in this graph are not usable for anything else.
266 Returns
267 -------
268 qgraph : `~lsst.pipe.base.QuantumGraph`
269 """
270 universe = DimensionUniverse(config=_makeDimensionConfig())
271 fakeDSType = DatasetType("A", tuple(), storageClass="ExposureF", universe=universe)
272 taskDef = TaskDef(taskName=_TASK_CLASS, config=AddTask.ConfigClass(), taskClass=AddTask)
273 quanta = [
274 Quantum(
275 taskName=_TASK_CLASS,
276 inputs={
277 fakeDSType: [
278 DatasetRef(fakeDSType, DataCoordinate.standardize({"A": 1, "B": 2}, universe=universe))
279 ]
280 },
281 )
282 ] # type: ignore
283 qgraph = QuantumGraph({taskDef: set(quanta)}, universe=universe)
284 return qgraph
287class CmdLineFwkTestCase(unittest.TestCase):
288 """A test case for CmdLineFwk"""
290 def testMakePipeline(self):
291 """Tests for CmdLineFwk.makePipeline method"""
292 fwk = CmdLineFwk()
294 # make empty pipeline
295 args = _makeArgs()
296 pipeline = fwk.makePipeline(args)
297 self.assertIsInstance(pipeline, Pipeline)
298 self.assertEqual(len(pipeline), 0)
300 # few tests with serialization
301 with makeTmpFile() as tmpname:
302 # make empty pipeline and store it in a file
303 args = _makeArgs(save_pipeline=tmpname)
304 pipeline = fwk.makePipeline(args)
305 self.assertIsInstance(pipeline, Pipeline)
307 # read pipeline from a file
308 args = _makeArgs(pipeline=tmpname)
309 pipeline = fwk.makePipeline(args)
310 self.assertIsInstance(pipeline, Pipeline)
311 self.assertEqual(len(pipeline), 0)
313 # single task pipeline, task name can be anything here
314 actions = [_ACTION_ADD_TASK("TaskOne:task1")]
315 args = _makeArgs(pipeline_actions=actions)
316 pipeline = fwk.makePipeline(args)
317 self.assertIsInstance(pipeline, Pipeline)
318 self.assertEqual(len(pipeline), 1)
320 # many task pipeline
321 actions = [
322 _ACTION_ADD_TASK("TaskOne:task1a"),
323 _ACTION_ADD_TASK("TaskTwo:task2"),
324 _ACTION_ADD_TASK("TaskOne:task1b"),
325 ]
326 args = _makeArgs(pipeline_actions=actions)
327 pipeline = fwk.makePipeline(args)
328 self.assertIsInstance(pipeline, Pipeline)
329 self.assertEqual(len(pipeline), 3)
331 # single task pipeline with config overrides, need real task class
332 actions = [_ACTION_ADD_TASK(f"{_TASK_CLASS}:task"), _ACTION_CONFIG("task:addend=100")]
333 args = _makeArgs(pipeline_actions=actions)
334 pipeline = fwk.makePipeline(args)
335 taskDefs = list(pipeline.toExpandedPipeline())
336 self.assertEqual(len(taskDefs), 1)
337 self.assertEqual(taskDefs[0].config.addend, 100)
339 overrides = b"config.addend = 1000\n"
340 with makeTmpFile(overrides) as tmpname:
341 actions = [_ACTION_ADD_TASK(f"{_TASK_CLASS}:task"), _ACTION_CONFIG_FILE("task:" + tmpname)]
342 args = _makeArgs(pipeline_actions=actions)
343 pipeline = fwk.makePipeline(args)
344 taskDefs = list(pipeline.toExpandedPipeline())
345 self.assertEqual(len(taskDefs), 1)
346 self.assertEqual(taskDefs[0].config.addend, 1000)
348 # Check --instrument option, for now it only checks that it does not
349 # crash.
350 actions = [_ACTION_ADD_TASK(f"{_TASK_CLASS}:task"), _ACTION_ADD_INSTRUMENT("Instrument")]
351 args = _makeArgs(pipeline_actions=actions)
352 pipeline = fwk.makePipeline(args)
354 def testMakeGraphFromSave(self):
355 """Tests for CmdLineFwk.makeGraph method.
357 Only most trivial case is tested that does not do actual graph
358 building.
359 """
360 fwk = CmdLineFwk()
362 with makeTmpFile(suffix=".qgraph") as tmpname, makeSQLiteRegistry() as registryConfig:
364 # make non-empty graph and store it in a file
365 qgraph = _makeQGraph()
366 with open(tmpname, "wb") as saveFile:
367 qgraph.save(saveFile)
368 args = _makeArgs(qgraph=tmpname, registryConfig=registryConfig, execution_butler_location=None)
369 qgraph = fwk.makeGraph(None, args)
370 self.assertIsInstance(qgraph, QuantumGraph)
371 self.assertEqual(len(qgraph), 1)
373 # will fail if graph id does not match
374 args = _makeArgs(
375 qgraph=tmpname,
376 qgraph_id="R2-D2 is that you?",
377 registryConfig=registryConfig,
378 execution_butler_location=None,
379 )
380 with self.assertRaisesRegex(ValueError, "graphID does not match"):
381 fwk.makeGraph(None, args)
383 # save with wrong object type
384 with open(tmpname, "wb") as saveFile:
385 pickle.dump({}, saveFile)
386 args = _makeArgs(qgraph=tmpname, registryConfig=registryConfig, execution_butler_location=None)
387 with self.assertRaises(ValueError):
388 fwk.makeGraph(None, args)
390 # reading empty graph from pickle should work but makeGraph()
391 # will return None and make a warning
392 qgraph = QuantumGraph(dict(), universe=DimensionUniverse(_makeDimensionConfig()))
393 with open(tmpname, "wb") as saveFile:
394 qgraph.save(saveFile)
395 args = _makeArgs(qgraph=tmpname, registryConfig=registryConfig, execution_butler_location=None)
396 with self.assertWarnsRegex(UserWarning, "QuantumGraph is empty"):
397 # this also tests that warning is generated for empty graph
398 qgraph = fwk.makeGraph(None, args)
399 self.assertIs(qgraph, None)
401 def testShowPipeline(self):
402 """Test for --show options for pipeline."""
403 fwk = CmdLineFwk()
405 actions = [_ACTION_ADD_TASK(f"{_TASK_CLASS}:task"), _ACTION_CONFIG("task:addend=100")]
406 args = _makeArgs(pipeline_actions=actions)
407 pipeline = fwk.makePipeline(args)
409 with self.assertRaises(ValueError):
410 ShowInfo(["unrecognized", "config"])
412 stream = StringIO()
413 show = ShowInfo(
414 ["pipeline", "config", "history=task::addend", "tasks", "dump-config", "config=task::add*"],
415 stream=stream,
416 )
417 show.show_pipeline_info(pipeline)
418 self.assertEqual(show.unhandled, frozenset({}))
419 stream.seek(0)
420 output = stream.read()
421 self.assertIn("config.addend=100", output) # config option
422 self.assertIn("addend\n3", output) # History output
423 self.assertIn("class: lsst.pipe.base.tests.simpleQGraph.AddTask", output) # pipeline
425 show = ShowInfo(["pipeline", "uri"], stream=stream)
426 show.show_pipeline_info(pipeline)
427 self.assertEqual(show.unhandled, frozenset({"uri"}))
428 self.assertEqual(show.handled, {"pipeline"})
430 stream = StringIO()
431 show = ShowInfo(["config=task::addend.missing"], stream=stream) # No match
432 show.show_pipeline_info(pipeline)
433 stream.seek(0)
434 output = stream.read().strip()
435 self.assertEqual("### Configuration for task `task'", output)
437 stream = StringIO()
438 show = ShowInfo(["config=task::addEnd:NOIGNORECASE"], stream=stream) # No match
439 show.show_pipeline_info(pipeline)
440 stream.seek(0)
441 output = stream.read().strip()
442 self.assertEqual("### Configuration for task `task'", output)
444 stream = StringIO()
445 show = ShowInfo(["config=task::addEnd"], stream=stream) # Match but warns
446 show.show_pipeline_info(pipeline)
447 stream.seek(0)
448 output = stream.read().strip()
449 self.assertIn("NOIGNORECASE", output)
451 show = ShowInfo(["dump-config=notask"])
452 with self.assertRaises(ValueError) as cm:
453 show.show_pipeline_info(pipeline)
454 self.assertIn("Pipeline has no tasks named notask", str(cm.exception))
456 show = ShowInfo(["history"])
457 with self.assertRaises(ValueError) as cm:
458 show.show_pipeline_info(pipeline)
459 self.assertIn("Please provide a value", str(cm.exception))
461 show = ShowInfo(["history=notask::param"])
462 with self.assertRaises(ValueError) as cm:
463 show.show_pipeline_info(pipeline)
464 self.assertIn("Pipeline has no tasks named notask", str(cm.exception))
467class CmdLineFwkTestCaseWithButler(unittest.TestCase):
468 """A test case for CmdLineFwk"""
470 def setUp(self):
471 super().setUpClass()
472 self.root = tempfile.mkdtemp()
473 self.nQuanta = 5
474 self.pipeline = makeSimplePipeline(nQuanta=self.nQuanta)
476 def tearDown(self):
477 shutil.rmtree(self.root, ignore_errors=True)
478 super().tearDownClass()
480 def testSimpleQGraph(self):
481 """Test successfull execution of trivial quantum graph."""
482 args = _makeArgs(butler_config=self.root, input="test", output="output")
483 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
484 populateButler(self.pipeline, butler)
486 fwk = CmdLineFwk()
487 taskFactory = AddTaskFactoryMock()
489 qgraph = fwk.makeGraph(self.pipeline, args)
490 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
491 self.assertEqual(len(qgraph), self.nQuanta)
493 # run whole thing
494 fwk.runPipeline(qgraph, taskFactory, args)
495 self.assertEqual(taskFactory.countExec, self.nQuanta)
497 def testSimpleQGraphNoSkipExisting_inputs(self):
498 """Test for case when output data for one task already appears in
499 _input_ collection, but no ``--extend-run`` or ``-skip-existing``
500 option is present.
501 """
502 args = _makeArgs(
503 butler_config=self.root,
504 input="test",
505 output="output",
506 )
507 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
508 populateButler(
509 self.pipeline,
510 butler,
511 datasetTypes={
512 args.input: [
513 "add_dataset0",
514 "add_dataset1",
515 "add2_dataset1",
516 "add_init_output1",
517 "task0_config",
518 "task0_metadata",
519 "task0_log",
520 ]
521 },
522 )
524 fwk = CmdLineFwk()
525 taskFactory = AddTaskFactoryMock()
527 qgraph = fwk.makeGraph(self.pipeline, args)
528 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
529 # With current implementation graph has all nQuanta quanta, but when
530 # executing one quantum is skipped.
531 self.assertEqual(len(qgraph), self.nQuanta)
533 # run whole thing
534 fwk.runPipeline(qgraph, taskFactory, args)
535 self.assertEqual(taskFactory.countExec, self.nQuanta)
537 def testSimpleQGraphSkipExisting_inputs(self):
538 """Test for ``--skip-existing`` with output data for one task already
539 appears in _input_ collection. No ``--extend-run`` option is needed
540 for this case.
541 """
542 args = _makeArgs(
543 butler_config=self.root,
544 input="test",
545 output="output",
546 skip_existing_in=("test",),
547 )
548 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
549 populateButler(
550 self.pipeline,
551 butler,
552 datasetTypes={
553 args.input: [
554 "add_dataset0",
555 "add_dataset1",
556 "add2_dataset1",
557 "add_init_output1",
558 "task0_config",
559 "task0_metadata",
560 "task0_log",
561 ]
562 },
563 )
565 fwk = CmdLineFwk()
566 taskFactory = AddTaskFactoryMock()
568 qgraph = fwk.makeGraph(self.pipeline, args)
569 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
570 self.assertEqual(len(qgraph), self.nQuanta - 1)
572 # run whole thing
573 fwk.runPipeline(qgraph, taskFactory, args)
574 self.assertEqual(taskFactory.countExec, self.nQuanta - 1)
576 def testSimpleQGraphSkipExisting_outputs(self):
577 """Test for ``--skip-existing`` with output data for one task already
578 appears in _output_ collection. The ``--extend-run`` option is needed
579 for this case.
580 """
581 args = _makeArgs(
582 butler_config=self.root,
583 input="test",
584 output_run="output/run",
585 skip_existing_in=("output/run",),
586 )
587 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
588 populateButler(
589 self.pipeline,
590 butler,
591 datasetTypes={
592 args.input: ["add_dataset0"],
593 args.output_run: [
594 "add_dataset1",
595 "add2_dataset1",
596 "add_init_output1",
597 "task0_metadata",
598 "task0_log",
599 ],
600 },
601 )
603 fwk = CmdLineFwk()
604 taskFactory = AddTaskFactoryMock()
606 # fails without --extend-run
607 with self.assertRaisesRegex(ValueError, "--extend-run was not given"):
608 qgraph = fwk.makeGraph(self.pipeline, args)
610 # retry with --extend-run
611 args.extend_run = True
612 qgraph = fwk.makeGraph(self.pipeline, args)
614 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
615 # Graph does not include quantum for first task
616 self.assertEqual(len(qgraph), self.nQuanta - 1)
618 # run whole thing
619 fwk.runPipeline(qgraph, taskFactory, args)
620 self.assertEqual(taskFactory.countExec, self.nQuanta - 1)
622 def testSimpleQGraphOutputsFail(self):
623 """Test continuing execution of trivial quantum graph with partial
624 outputs.
625 """
626 args = _makeArgs(butler_config=self.root, input="test", output="output")
627 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
628 populateButler(self.pipeline, butler)
630 fwk = CmdLineFwk()
631 taskFactory = AddTaskFactoryMock(stopAt=3)
633 qgraph = fwk.makeGraph(self.pipeline, args)
634 self.assertEqual(len(qgraph), self.nQuanta)
636 # run first three quanta
637 with self.assertRaises(MPGraphExecutorError):
638 fwk.runPipeline(qgraph, taskFactory, args)
639 self.assertEqual(taskFactory.countExec, 3)
641 butler.registry.refresh()
643 # drop one of the two outputs from one task
644 ref1 = butler.registry.findDataset(
645 "add2_dataset2", collections=args.output, instrument="INSTR", detector=0
646 )
647 self.assertIsNotNone(ref1)
648 # also drop the metadata output
649 ref2 = butler.registry.findDataset(
650 "task1_metadata", collections=args.output, instrument="INSTR", detector=0
651 )
652 self.assertIsNotNone(ref2)
653 butler.pruneDatasets([ref1, ref2], disassociate=True, unstore=True, purge=True)
655 taskFactory.stopAt = -1
656 args.skip_existing_in = (args.output,)
657 args.extend_run = True
658 args.no_versions = True
659 with self.assertRaises(MPGraphExecutorError):
660 fwk.runPipeline(qgraph, taskFactory, args)
662 def testSimpleQGraphClobberOutputs(self):
663 """Test continuing execution of trivial quantum graph with
664 --clobber-outputs.
665 """
666 args = _makeArgs(butler_config=self.root, input="test", output="output")
667 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
668 populateButler(self.pipeline, butler)
670 fwk = CmdLineFwk()
671 taskFactory = AddTaskFactoryMock(stopAt=3)
673 qgraph = fwk.makeGraph(self.pipeline, args)
675 # should have one task and number of quanta
676 self.assertEqual(len(qgraph), self.nQuanta)
678 # run first three quanta
679 with self.assertRaises(MPGraphExecutorError):
680 fwk.runPipeline(qgraph, taskFactory, args)
681 self.assertEqual(taskFactory.countExec, 3)
683 butler.registry.refresh()
685 # drop one of the two outputs from one task
686 ref1 = butler.registry.findDataset(
687 "add2_dataset2", collections=args.output, dataId=dict(instrument="INSTR", detector=0)
688 )
689 self.assertIsNotNone(ref1)
690 # also drop the metadata output
691 ref2 = butler.registry.findDataset(
692 "task1_metadata", collections=args.output, dataId=dict(instrument="INSTR", detector=0)
693 )
694 self.assertIsNotNone(ref2)
695 butler.pruneDatasets([ref1, ref2], disassociate=True, unstore=True, purge=True)
697 taskFactory.stopAt = -1
698 args.skip_existing = True
699 args.extend_run = True
700 args.clobber_outputs = True
701 args.no_versions = True
702 fwk.runPipeline(qgraph, taskFactory, args)
703 # number of executed quanta is incremented
704 self.assertEqual(taskFactory.countExec, self.nQuanta + 1)
706 def testSimpleQGraphReplaceRun(self):
707 """Test repeated execution of trivial quantum graph with
708 --replace-run.
709 """
710 args = _makeArgs(butler_config=self.root, input="test", output="output", output_run="output/run1")
711 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
712 populateButler(self.pipeline, butler)
714 fwk = CmdLineFwk()
715 taskFactory = AddTaskFactoryMock()
717 qgraph = fwk.makeGraph(self.pipeline, args)
719 # should have one task and number of quanta
720 self.assertEqual(len(qgraph), self.nQuanta)
722 # deep copy is needed because quanta are updated in place
723 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
724 self.assertEqual(taskFactory.countExec, self.nQuanta)
726 # need to refresh collections explicitly (or make new butler/registry)
727 butler.registry.refresh()
728 collections = set(butler.registry.queryCollections(...))
729 self.assertEqual(collections, {"test", "output", "output/run1"})
731 # number of datasets written by pipeline:
732 # - nQuanta of init_outputs
733 # - nQuanta of configs
734 # - packages (single dataset)
735 # - nQuanta * two output datasets
736 # - nQuanta of metadata
737 # - nQuanta of log output
738 n_outputs = self.nQuanta * 6 + 1
739 refs = butler.registry.queryDatasets(..., collections="output/run1")
740 self.assertEqual(len(list(refs)), n_outputs)
742 # re-run with --replace-run (--inputs is ignored, as long as it hasn't
743 # changed)
744 args.replace_run = True
745 args.output_run = "output/run2"
746 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
748 butler.registry.refresh()
749 collections = set(butler.registry.queryCollections(...))
750 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2"})
752 # new output collection
753 refs = butler.registry.queryDatasets(..., collections="output/run2")
754 self.assertEqual(len(list(refs)), n_outputs)
756 # old output collection is still there
757 refs = butler.registry.queryDatasets(..., collections="output/run1")
758 self.assertEqual(len(list(refs)), n_outputs)
760 # re-run with --replace-run and --prune-replaced=unstore
761 args.replace_run = True
762 args.prune_replaced = "unstore"
763 args.output_run = "output/run3"
764 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
766 butler.registry.refresh()
767 collections = set(butler.registry.queryCollections(...))
768 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2", "output/run3"})
770 # new output collection
771 refs = butler.registry.queryDatasets(..., collections="output/run3")
772 self.assertEqual(len(list(refs)), n_outputs)
774 # old output collection is still there, and it has all datasets but
775 # non-InitOutputs are not in datastore
776 refs = butler.registry.queryDatasets(..., collections="output/run2")
777 refs = list(refs)
778 self.assertEqual(len(refs), n_outputs)
779 initOutNameRe = re.compile("packages|task.*_config|add_init_output.*")
780 for ref in refs:
781 if initOutNameRe.fullmatch(ref.datasetType.name):
782 butler.get(ref, collections="output/run2")
783 else:
784 with self.assertRaises(FileNotFoundError):
785 butler.get(ref, collections="output/run2")
787 # re-run with --replace-run and --prune-replaced=purge
788 # This time also remove --input; passing the same inputs that we
789 # started with and not passing inputs at all should be equivalent.
790 args.input = None
791 args.replace_run = True
792 args.prune_replaced = "purge"
793 args.output_run = "output/run4"
794 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
796 butler.registry.refresh()
797 collections = set(butler.registry.queryCollections(...))
798 # output/run3 should disappear now
799 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2", "output/run4"})
801 # new output collection
802 refs = butler.registry.queryDatasets(..., collections="output/run4")
803 self.assertEqual(len(list(refs)), n_outputs)
805 # Trying to run again with inputs that aren't exactly what we started
806 # with is an error, and the kind that should not modify the data repo.
807 with self.assertRaises(ValueError):
808 args.input = ["test", "output/run2"]
809 args.prune_replaced = None
810 args.replace_run = True
811 args.output_run = "output/run5"
812 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
813 butler.registry.refresh()
814 collections = set(butler.registry.queryCollections(...))
815 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2", "output/run4"})
816 with self.assertRaises(ValueError):
817 args.input = ["output/run2", "test"]
818 args.prune_replaced = None
819 args.replace_run = True
820 args.output_run = "output/run6"
821 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
822 butler.registry.refresh()
823 collections = set(butler.registry.queryCollections(...))
824 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2", "output/run4"})
826 def testMockTask(self):
827 """Test --mock option."""
828 args = _makeArgs(
829 butler_config=self.root, input="test", output="output", mock=True, register_dataset_types=True
830 )
831 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
832 populateButler(self.pipeline, butler)
834 fwk = CmdLineFwk()
835 taskFactory = AddTaskFactoryMock()
837 qgraph = fwk.makeGraph(self.pipeline, args)
838 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
839 self.assertEqual(len(qgraph), self.nQuanta)
841 # run whole thing
842 fwk.runPipeline(qgraph, taskFactory, args)
843 # None of the actual tasks is executed
844 self.assertEqual(taskFactory.countExec, 0)
846 # check dataset types
847 butler.registry.refresh()
848 datasetTypes = list(butler.registry.queryDatasetTypes(re.compile("^_mock_.*")))
849 self.assertEqual(len(datasetTypes), self.nQuanta * 2)
851 def testMockTaskFailure(self):
852 """Test --mock option and configure one of the tasks to fail."""
853 args = _makeArgs(
854 butler_config=self.root,
855 input="test",
856 output="output",
857 mock=True,
858 register_dataset_types=True,
859 mock_configs=[
860 _ACTION_CONFIG("task3-mock:failCondition='detector = 0'"),
861 ],
862 fail_fast=True,
863 )
864 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
865 populateButler(self.pipeline, butler)
867 fwk = CmdLineFwk()
868 taskFactory = AddTaskFactoryMock()
870 qgraph = fwk.makeGraph(self.pipeline, args)
871 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
872 self.assertEqual(len(qgraph), self.nQuanta)
874 with self.assertRaises(MPGraphExecutorError) as cm:
875 fwk.runPipeline(qgraph, taskFactory, args)
877 self.assertIsNotNone(cm.exception.__cause__)
878 self.assertRegex(str(cm.exception.__cause__), "Simulated failure: task=task3")
880 def testSubgraph(self):
881 """Test successful execution of trivial quantum graph."""
882 args = _makeArgs(butler_config=self.root, input="test", output="output")
883 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
884 populateButler(self.pipeline, butler)
886 fwk = CmdLineFwk()
887 qgraph = fwk.makeGraph(self.pipeline, args)
889 # Select first two nodes for execution. This depends on node ordering
890 # which I assume is the same as execution order.
891 nNodes = 2
892 nodeIds = [node.nodeId for node in qgraph]
893 nodeIds = nodeIds[:nNodes]
895 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
896 self.assertEqual(len(qgraph), self.nQuanta)
898 with makeTmpFile(suffix=".qgraph") as tmpname, makeSQLiteRegistry(
899 universe=butler.registry.dimensions
900 ) as registryConfig:
901 with open(tmpname, "wb") as saveFile:
902 qgraph.save(saveFile)
904 args = _makeArgs(
905 qgraph=tmpname,
906 qgraph_node_id=nodeIds,
907 registryConfig=registryConfig,
908 execution_butler_location=None,
909 )
910 fwk = CmdLineFwk()
912 # load graph, should only read a subset
913 qgraph = fwk.makeGraph(pipeline=None, args=args)
914 self.assertEqual(len(qgraph), nNodes)
916 def testShowGraph(self):
917 """Test for --show options for quantum graph."""
918 nQuanta = 2
919 butler, qgraph = makeSimpleQGraph(nQuanta, root=self.root)
921 show = ShowInfo(["graph"])
922 show.show_graph_info(qgraph)
923 self.assertEqual(show.handled, {"graph"})
925 def testShowGraphWorkflow(self):
926 nQuanta = 2
927 butler, qgraph = makeSimpleQGraph(nQuanta, root=self.root)
929 show = ShowInfo(["workflow"])
930 show.show_graph_info(qgraph)
931 self.assertEqual(show.handled, {"workflow"})
933 # TODO: cannot test "uri" option presently, it instantiates
934 # butler from command line options and there is no way to pass butler
935 # mock to that code.
936 show = ShowInfo(["uri"])
937 with self.assertRaises(ValueError): # No args given
938 show.show_graph_info(qgraph)
940 def testSimpleQGraphDatastoreRecords(self):
941 """Test quantum graph generation with --qgraph-datastore-records."""
942 args = _makeArgs(
943 butler_config=self.root, input="test", output="output", qgraph_datastore_records=True
944 )
945 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
946 populateButler(self.pipeline, butler)
948 fwk = CmdLineFwk()
949 qgraph = fwk.makeGraph(self.pipeline, args)
950 self.assertEqual(len(qgraph), self.nQuanta)
951 for i, qnode in enumerate(qgraph):
952 quantum = qnode.quantum
953 self.assertIsNotNone(quantum.datastore_records)
954 # only the first quantum has a pre-existing input
955 if i == 0:
956 datastore_name = "FileDatastore@<butlerRoot>"
957 self.assertEqual(set(quantum.datastore_records.keys()), {datastore_name})
958 records_data = quantum.datastore_records[datastore_name]
959 records = dict(records_data.records)
960 self.assertEqual(len(records), 1)
961 _, records = records.popitem()
962 records = records["file_datastore_records"]
963 self.assertEqual(
964 [record.path for record in records],
965 ["test/add_dataset0/add_dataset0_INSTR_det0_test.pickle"],
966 )
967 else:
968 self.assertEqual(quantum.datastore_records, {})
971class MyMemoryTestCase(lsst.utils.tests.MemoryTestCase):
972 pass
975def setup_module(module):
976 lsst.utils.tests.init()
979if __name__ == "__main__": 979 ↛ 980line 979 didn't jump to line 980, because the condition on line 979 was never true
980 lsst.utils.tests.init()
981 unittest.main()