Coverage for tests/test_cmdLineFwk.py: 14%
492 statements
« prev ^ index » next coverage.py v6.5.0, created at 2022-11-12 02:34 -0800
« prev ^ index » next coverage.py v6.5.0, created at 2022-11-12 02:34 -0800
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.
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 qgraph = fwk.makeGraph(None, args)
397 self.assertIs(qgraph, None)
399 def testShowPipeline(self):
400 """Test for --show options for pipeline."""
401 fwk = CmdLineFwk()
403 actions = [_ACTION_ADD_TASK(f"{_TASK_CLASS}:task"), _ACTION_CONFIG("task:addend=100")]
404 args = _makeArgs(pipeline_actions=actions)
405 pipeline = fwk.makePipeline(args)
407 with self.assertRaises(ValueError):
408 ShowInfo(["unrecognized", "config"])
410 stream = StringIO()
411 show = ShowInfo(
412 ["pipeline", "config", "history=task::addend", "tasks", "dump-config", "config=task::add*"],
413 stream=stream,
414 )
415 show.show_pipeline_info(pipeline)
416 self.assertEqual(show.unhandled, frozenset({}))
417 stream.seek(0)
418 output = stream.read()
419 self.assertIn("config.addend=100", output) # config option
420 self.assertIn("addend\n3", output) # History output
421 self.assertIn("class: lsst.pipe.base.tests.simpleQGraph.AddTask", output) # pipeline
423 show = ShowInfo(["pipeline", "uri"], stream=stream)
424 show.show_pipeline_info(pipeline)
425 self.assertEqual(show.unhandled, frozenset({"uri"}))
426 self.assertEqual(show.handled, {"pipeline"})
428 stream = StringIO()
429 show = ShowInfo(["config=task::addend.missing"], stream=stream) # No match
430 show.show_pipeline_info(pipeline)
431 stream.seek(0)
432 output = stream.read().strip()
433 self.assertEqual("### Configuration for task `task'", output)
435 stream = StringIO()
436 show = ShowInfo(["config=task::addEnd:NOIGNORECASE"], stream=stream) # No match
437 show.show_pipeline_info(pipeline)
438 stream.seek(0)
439 output = stream.read().strip()
440 self.assertEqual("### Configuration for task `task'", output)
442 stream = StringIO()
443 show = ShowInfo(["config=task::addEnd"], stream=stream) # Match but warns
444 show.show_pipeline_info(pipeline)
445 stream.seek(0)
446 output = stream.read().strip()
447 self.assertIn("NOIGNORECASE", output)
449 show = ShowInfo(["dump-config=notask"])
450 with self.assertRaises(ValueError) as cm:
451 show.show_pipeline_info(pipeline)
452 self.assertIn("Pipeline has no tasks named notask", str(cm.exception))
454 show = ShowInfo(["history"])
455 with self.assertRaises(ValueError) as cm:
456 show.show_pipeline_info(pipeline)
457 self.assertIn("Please provide a value", str(cm.exception))
459 show = ShowInfo(["history=notask::param"])
460 with self.assertRaises(ValueError) as cm:
461 show.show_pipeline_info(pipeline)
462 self.assertIn("Pipeline has no tasks named notask", str(cm.exception))
465class CmdLineFwkTestCaseWithButler(unittest.TestCase):
466 """A test case for CmdLineFwk"""
468 def setUp(self):
469 super().setUpClass()
470 self.root = tempfile.mkdtemp()
471 self.nQuanta = 5
472 self.pipeline = makeSimplePipeline(nQuanta=self.nQuanta)
474 def tearDown(self):
475 shutil.rmtree(self.root, ignore_errors=True)
476 super().tearDownClass()
478 def testSimpleQGraph(self):
479 """Test successfull execution of trivial quantum graph."""
480 args = _makeArgs(butler_config=self.root, input="test", output="output")
481 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
482 populateButler(self.pipeline, butler)
484 fwk = CmdLineFwk()
485 taskFactory = AddTaskFactoryMock()
487 qgraph = fwk.makeGraph(self.pipeline, args)
488 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
489 self.assertEqual(len(qgraph), self.nQuanta)
491 # run whole thing
492 fwk.runPipeline(qgraph, taskFactory, args)
493 self.assertEqual(taskFactory.countExec, self.nQuanta)
495 # test that we've disabled implicit threading
496 self.assertEqual(os.environ["OMP_NUM_THREADS"], "1")
498 def testEmptyQGraph(self):
499 """Test that making an empty QG produces the right error messages."""
500 # We make QG generation fail by populating one input collection in the
501 # butler while using a different one (that we only register, not
502 # populate) to make the QG.
503 args = _makeArgs(butler_config=self.root, input="bad_input", output="output")
504 butler = makeSimpleButler(self.root, run="good_input", inMemory=False)
505 butler.registry.registerCollection("bad_input")
506 populateButler(self.pipeline, butler)
508 fwk = CmdLineFwk()
509 with self.assertLogs(level=logging.CRITICAL) as cm:
510 qgraph = fwk.makeGraph(self.pipeline, args)
511 self.assertRegex(
512 cm.output[0], ".*Initial data ID query returned no rows, so QuantumGraph will be empty.*"
513 )
514 self.assertRegex(cm.output[1], ".*No datasets.*bad_input.*")
515 self.assertIsNone(qgraph)
517 def testSimpleQGraphNoSkipExisting_inputs(self):
518 """Test for case when output data for one task already appears in
519 _input_ collection, but no ``--extend-run`` or ``-skip-existing``
520 option is present.
521 """
522 args = _makeArgs(
523 butler_config=self.root,
524 input="test",
525 output="output",
526 )
527 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
528 populateButler(
529 self.pipeline,
530 butler,
531 datasetTypes={
532 args.input: [
533 "add_dataset0",
534 "add_dataset1",
535 "add2_dataset1",
536 "add_init_output1",
537 "task0_config",
538 "task0_metadata",
539 "task0_log",
540 ]
541 },
542 )
544 fwk = CmdLineFwk()
545 taskFactory = AddTaskFactoryMock()
547 qgraph = fwk.makeGraph(self.pipeline, args)
548 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
549 # With current implementation graph has all nQuanta quanta, but when
550 # executing one quantum is skipped.
551 self.assertEqual(len(qgraph), self.nQuanta)
553 # run whole thing
554 fwk.runPipeline(qgraph, taskFactory, args)
555 self.assertEqual(taskFactory.countExec, self.nQuanta)
557 def testSimpleQGraphSkipExisting_inputs(self):
558 """Test for ``--skip-existing`` with output data for one task already
559 appears in _input_ collection. No ``--extend-run`` option is needed
560 for this case.
561 """
562 args = _makeArgs(
563 butler_config=self.root,
564 input="test",
565 output="output",
566 skip_existing_in=("test",),
567 )
568 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
569 populateButler(
570 self.pipeline,
571 butler,
572 datasetTypes={
573 args.input: [
574 "add_dataset0",
575 "add_dataset1",
576 "add2_dataset1",
577 "add_init_output1",
578 "task0_config",
579 "task0_metadata",
580 "task0_log",
581 ]
582 },
583 )
585 fwk = CmdLineFwk()
586 taskFactory = AddTaskFactoryMock()
588 qgraph = fwk.makeGraph(self.pipeline, args)
589 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
590 self.assertEqual(len(qgraph), self.nQuanta - 1)
592 # run whole thing
593 fwk.runPipeline(qgraph, taskFactory, args)
594 self.assertEqual(taskFactory.countExec, self.nQuanta - 1)
596 def testSimpleQGraphSkipExisting_outputs(self):
597 """Test for ``--skip-existing`` with output data for one task already
598 appears in _output_ collection. The ``--extend-run`` option is needed
599 for this case.
600 """
601 args = _makeArgs(
602 butler_config=self.root,
603 input="test",
604 output_run="output/run",
605 skip_existing_in=("output/run",),
606 )
607 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
608 populateButler(
609 self.pipeline,
610 butler,
611 datasetTypes={
612 args.input: ["add_dataset0"],
613 args.output_run: [
614 "add_dataset1",
615 "add2_dataset1",
616 "add_init_output1",
617 "task0_metadata",
618 "task0_log",
619 ],
620 },
621 )
623 fwk = CmdLineFwk()
624 taskFactory = AddTaskFactoryMock()
626 # fails without --extend-run
627 with self.assertRaisesRegex(ValueError, "--extend-run was not given"):
628 qgraph = fwk.makeGraph(self.pipeline, args)
630 # retry with --extend-run
631 args.extend_run = True
632 qgraph = fwk.makeGraph(self.pipeline, args)
634 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
635 # Graph does not include quantum for first task
636 self.assertEqual(len(qgraph), self.nQuanta - 1)
638 # run whole thing
639 fwk.runPipeline(qgraph, taskFactory, args)
640 self.assertEqual(taskFactory.countExec, self.nQuanta - 1)
642 def testSimpleQGraphOutputsFail(self):
643 """Test continuing execution of trivial quantum graph with partial
644 outputs.
645 """
646 args = _makeArgs(butler_config=self.root, input="test", output="output")
647 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
648 populateButler(self.pipeline, butler)
650 fwk = CmdLineFwk()
651 taskFactory = AddTaskFactoryMock(stopAt=3)
653 qgraph = fwk.makeGraph(self.pipeline, args)
654 self.assertEqual(len(qgraph), self.nQuanta)
656 # run first three quanta
657 with self.assertRaises(MPGraphExecutorError):
658 fwk.runPipeline(qgraph, taskFactory, args)
659 self.assertEqual(taskFactory.countExec, 3)
661 butler.registry.refresh()
663 # drop one of the two outputs from one task
664 ref1 = butler.registry.findDataset(
665 "add2_dataset2", collections=args.output, instrument="INSTR", detector=0
666 )
667 self.assertIsNotNone(ref1)
668 # also drop the metadata output
669 ref2 = butler.registry.findDataset(
670 "task1_metadata", collections=args.output, instrument="INSTR", detector=0
671 )
672 self.assertIsNotNone(ref2)
673 butler.pruneDatasets([ref1, ref2], disassociate=True, unstore=True, purge=True)
675 taskFactory.stopAt = -1
676 args.skip_existing_in = (args.output,)
677 args.extend_run = True
678 args.no_versions = True
679 with self.assertRaises(MPGraphExecutorError):
680 fwk.runPipeline(qgraph, taskFactory, args)
682 def testSimpleQGraphClobberOutputs(self):
683 """Test continuing execution of trivial quantum graph with
684 --clobber-outputs.
685 """
686 args = _makeArgs(butler_config=self.root, input="test", output="output")
687 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
688 populateButler(self.pipeline, butler)
690 fwk = CmdLineFwk()
691 taskFactory = AddTaskFactoryMock(stopAt=3)
693 qgraph = fwk.makeGraph(self.pipeline, args)
695 # should have one task and number of quanta
696 self.assertEqual(len(qgraph), self.nQuanta)
698 # run first three quanta
699 with self.assertRaises(MPGraphExecutorError):
700 fwk.runPipeline(qgraph, taskFactory, args)
701 self.assertEqual(taskFactory.countExec, 3)
703 butler.registry.refresh()
705 # drop one of the two outputs from one task
706 ref1 = butler.registry.findDataset(
707 "add2_dataset2", collections=args.output, dataId=dict(instrument="INSTR", detector=0)
708 )
709 self.assertIsNotNone(ref1)
710 # also drop the metadata output
711 ref2 = butler.registry.findDataset(
712 "task1_metadata", collections=args.output, dataId=dict(instrument="INSTR", detector=0)
713 )
714 self.assertIsNotNone(ref2)
715 butler.pruneDatasets([ref1, ref2], disassociate=True, unstore=True, purge=True)
717 taskFactory.stopAt = -1
718 args.skip_existing = True
719 args.extend_run = True
720 args.clobber_outputs = True
721 args.no_versions = True
722 fwk.runPipeline(qgraph, taskFactory, args)
723 # number of executed quanta is incremented
724 self.assertEqual(taskFactory.countExec, self.nQuanta + 1)
726 def testSimpleQGraphReplaceRun(self):
727 """Test repeated execution of trivial quantum graph with
728 --replace-run.
729 """
730 args = _makeArgs(butler_config=self.root, input="test", output="output", output_run="output/run1")
731 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
732 populateButler(self.pipeline, butler)
734 fwk = CmdLineFwk()
735 taskFactory = AddTaskFactoryMock()
737 qgraph = fwk.makeGraph(self.pipeline, args)
739 # should have one task and number of quanta
740 self.assertEqual(len(qgraph), self.nQuanta)
742 # deep copy is needed because quanta are updated in place
743 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
744 self.assertEqual(taskFactory.countExec, self.nQuanta)
746 # need to refresh collections explicitly (or make new butler/registry)
747 butler.registry.refresh()
748 collections = set(butler.registry.queryCollections(...))
749 self.assertEqual(collections, {"test", "output", "output/run1"})
751 # number of datasets written by pipeline:
752 # - nQuanta of init_outputs
753 # - nQuanta of configs
754 # - packages (single dataset)
755 # - nQuanta * two output datasets
756 # - nQuanta of metadata
757 # - nQuanta of log output
758 n_outputs = self.nQuanta * 6 + 1
759 refs = butler.registry.queryDatasets(..., collections="output/run1")
760 self.assertEqual(len(list(refs)), n_outputs)
762 # re-run with --replace-run (--inputs is ignored, as long as it hasn't
763 # changed)
764 args.replace_run = True
765 args.output_run = "output/run2"
766 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
768 butler.registry.refresh()
769 collections = set(butler.registry.queryCollections(...))
770 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2"})
772 # new output collection
773 refs = butler.registry.queryDatasets(..., collections="output/run2")
774 self.assertEqual(len(list(refs)), n_outputs)
776 # old output collection is still there
777 refs = butler.registry.queryDatasets(..., collections="output/run1")
778 self.assertEqual(len(list(refs)), n_outputs)
780 # re-run with --replace-run and --prune-replaced=unstore
781 args.replace_run = True
782 args.prune_replaced = "unstore"
783 args.output_run = "output/run3"
784 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
786 butler.registry.refresh()
787 collections = set(butler.registry.queryCollections(...))
788 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2", "output/run3"})
790 # new output collection
791 refs = butler.registry.queryDatasets(..., collections="output/run3")
792 self.assertEqual(len(list(refs)), n_outputs)
794 # old output collection is still there, and it has all datasets but
795 # non-InitOutputs are not in datastore
796 refs = butler.registry.queryDatasets(..., collections="output/run2")
797 refs = list(refs)
798 self.assertEqual(len(refs), n_outputs)
799 initOutNameRe = re.compile("packages|task.*_config|add_init_output.*")
800 for ref in refs:
801 if initOutNameRe.fullmatch(ref.datasetType.name):
802 butler.get(ref, collections="output/run2")
803 else:
804 with self.assertRaises(FileNotFoundError):
805 butler.get(ref, collections="output/run2")
807 # re-run with --replace-run and --prune-replaced=purge
808 # This time also remove --input; passing the same inputs that we
809 # started with and not passing inputs at all should be equivalent.
810 args.input = None
811 args.replace_run = True
812 args.prune_replaced = "purge"
813 args.output_run = "output/run4"
814 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
816 butler.registry.refresh()
817 collections = set(butler.registry.queryCollections(...))
818 # output/run3 should disappear now
819 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2", "output/run4"})
821 # new output collection
822 refs = butler.registry.queryDatasets(..., collections="output/run4")
823 self.assertEqual(len(list(refs)), n_outputs)
825 # Trying to run again with inputs that aren't exactly what we started
826 # with is an error, and the kind that should not modify the data repo.
827 with self.assertRaises(ValueError):
828 args.input = ["test", "output/run2"]
829 args.prune_replaced = None
830 args.replace_run = True
831 args.output_run = "output/run5"
832 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
833 butler.registry.refresh()
834 collections = set(butler.registry.queryCollections(...))
835 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2", "output/run4"})
836 with self.assertRaises(ValueError):
837 args.input = ["output/run2", "test"]
838 args.prune_replaced = None
839 args.replace_run = True
840 args.output_run = "output/run6"
841 fwk.runPipeline(copy.deepcopy(qgraph), taskFactory, args)
842 butler.registry.refresh()
843 collections = set(butler.registry.queryCollections(...))
844 self.assertEqual(collections, {"test", "output", "output/run1", "output/run2", "output/run4"})
846 def testMockTask(self):
847 """Test --mock option."""
848 args = _makeArgs(
849 butler_config=self.root, input="test", output="output", mock=True, register_dataset_types=True
850 )
851 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
852 populateButler(self.pipeline, butler)
854 fwk = CmdLineFwk()
855 taskFactory = AddTaskFactoryMock()
857 qgraph = fwk.makeGraph(self.pipeline, args)
858 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
859 self.assertEqual(len(qgraph), self.nQuanta)
861 # run whole thing
862 fwk.runPipeline(qgraph, taskFactory, args)
863 # None of the actual tasks is executed
864 self.assertEqual(taskFactory.countExec, 0)
866 # check dataset types
867 butler.registry.refresh()
868 datasetTypes = list(butler.registry.queryDatasetTypes(re.compile("^_mock_.*")))
869 self.assertEqual(len(datasetTypes), self.nQuanta * 2)
871 def testMockTaskFailure(self):
872 """Test --mock option and configure one of the tasks to fail."""
873 args = _makeArgs(
874 butler_config=self.root,
875 input="test",
876 output="output",
877 mock=True,
878 register_dataset_types=True,
879 mock_configs=[
880 _ACTION_CONFIG("task3-mock:failCondition='detector = 0'"),
881 ],
882 fail_fast=True,
883 )
884 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
885 populateButler(self.pipeline, butler)
887 fwk = CmdLineFwk()
888 taskFactory = AddTaskFactoryMock()
890 qgraph = fwk.makeGraph(self.pipeline, args)
891 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
892 self.assertEqual(len(qgraph), self.nQuanta)
894 with self.assertRaises(MPGraphExecutorError) as cm:
895 fwk.runPipeline(qgraph, taskFactory, args)
897 self.assertIsNotNone(cm.exception.__cause__)
898 self.assertRegex(str(cm.exception.__cause__), "Simulated failure: task=task3")
900 def testSubgraph(self):
901 """Test successful execution of trivial quantum graph."""
902 args = _makeArgs(butler_config=self.root, input="test", output="output")
903 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
904 populateButler(self.pipeline, butler)
906 fwk = CmdLineFwk()
907 qgraph = fwk.makeGraph(self.pipeline, args)
909 # Select first two nodes for execution. This depends on node ordering
910 # which I assume is the same as execution order.
911 nNodes = 2
912 nodeIds = [node.nodeId for node in qgraph]
913 nodeIds = nodeIds[:nNodes]
915 self.assertEqual(len(qgraph.taskGraph), self.nQuanta)
916 self.assertEqual(len(qgraph), self.nQuanta)
918 with makeTmpFile(suffix=".qgraph") as tmpname, makeSQLiteRegistry(
919 universe=butler.registry.dimensions
920 ) as registryConfig:
921 with open(tmpname, "wb") as saveFile:
922 qgraph.save(saveFile)
924 args = _makeArgs(
925 qgraph=tmpname,
926 qgraph_node_id=nodeIds,
927 registryConfig=registryConfig,
928 execution_butler_location=None,
929 )
930 fwk = CmdLineFwk()
932 # load graph, should only read a subset
933 qgraph = fwk.makeGraph(pipeline=None, args=args)
934 self.assertEqual(len(qgraph), nNodes)
936 def testShowGraph(self):
937 """Test for --show options for quantum graph."""
938 nQuanta = 2
939 butler, qgraph = makeSimpleQGraph(nQuanta, root=self.root)
941 show = ShowInfo(["graph"])
942 show.show_graph_info(qgraph)
943 self.assertEqual(show.handled, {"graph"})
945 def testShowGraphWorkflow(self):
946 nQuanta = 2
947 butler, qgraph = makeSimpleQGraph(nQuanta, root=self.root)
949 show = ShowInfo(["workflow"])
950 show.show_graph_info(qgraph)
951 self.assertEqual(show.handled, {"workflow"})
953 # TODO: cannot test "uri" option presently, it instantiates
954 # butler from command line options and there is no way to pass butler
955 # mock to that code.
956 show = ShowInfo(["uri"])
957 with self.assertRaises(ValueError): # No args given
958 show.show_graph_info(qgraph)
960 def testSimpleQGraphDatastoreRecords(self):
961 """Test quantum graph generation with --qgraph-datastore-records."""
962 args = _makeArgs(
963 butler_config=self.root, input="test", output="output", qgraph_datastore_records=True
964 )
965 butler = makeSimpleButler(self.root, run=args.input, inMemory=False)
966 populateButler(self.pipeline, butler)
968 fwk = CmdLineFwk()
969 qgraph = fwk.makeGraph(self.pipeline, args)
970 self.assertEqual(len(qgraph), self.nQuanta)
971 for i, qnode in enumerate(qgraph):
972 quantum = qnode.quantum
973 self.assertIsNotNone(quantum.datastore_records)
974 # only the first quantum has a pre-existing input
975 if i == 0:
976 datastore_name = "FileDatastore@<butlerRoot>"
977 self.assertEqual(set(quantum.datastore_records.keys()), {datastore_name})
978 records_data = quantum.datastore_records[datastore_name]
979 records = dict(records_data.records)
980 self.assertEqual(len(records), 1)
981 _, records = records.popitem()
982 records = records["file_datastore_records"]
983 self.assertEqual(
984 [record.path for record in records],
985 ["test/add_dataset0/add_dataset0_INSTR_det0_test.pickle"],
986 )
987 else:
988 self.assertEqual(quantum.datastore_records, {})
991class MyMemoryTestCase(lsst.utils.tests.MemoryTestCase):
992 pass
995def setup_module(module):
996 lsst.utils.tests.init()
999if __name__ == "__main__": 999 ↛ 1000line 999 didn't jump to line 1000, because the condition on line 999 was never true
1000 lsst.utils.tests.init()
1001 unittest.main()