🐛 Compressed stash failures are silently swallowed - #7564
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📝 WalkthroughWalkthroughCompressed stashing now validates each source before compression, handles missing and unmatched sources based on ChangesCompressed stashing behavior
Estimated code review effort: 2 (Simple) | ~15 minutes Merge Risk: 🟡 Moderate · up to Compressed stashes can record files that were not actually archived when missing or non-matching entries are skipped, misleading downstream consumers about stash contents. Merge should wait until the persisted source list reflects only the files actually stashed. Possibly related PRs
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In `@src/aiida/engine/daemon/execmanager.py`:
- Around line 569-572: In the stashing error paths, assign each exception
message to a local `msg` variable before raising `exceptions.StashingError`.
Apply this consistently to the strict glob case guarded by `fail_on_missing`,
the missing-file case, and the compression-error case, then raise each exception
with `msg`.
- Around line 565-588: Maintain a filtered relative source list alongside
source_list_abs while resolving inputs, adding only entries that will be
compressed; preserve glob and missing-entry behavior. Pass this filtered list,
rather than the original source_list, when constructing
RemoteStashCompressedData, and update test_stashing_compress_skips_missing to
verify the stored stash node’s source_list contains only the selected entries.
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src/aiida/engine/daemon/execmanager.pytests/engine/daemon/test_execmanager.py
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Merge `test_stashing_copy_failure_keeps_other_stashes` into the parametrized `test_stashing`: a failed stash must leave pre-existing content in the destination untouched, in every stash mode. Also assert that an existing stash target is never overwritten (compress modes only, since `COPY` has no overwrite guard; see aiidateam#7564).
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| # Suffix the stash job's own UUID: every job then writes a unique archive, so repeated stashes of | ||
| # the same source node cannot collide, while the source-UUID prefix keeps them discoverable on disk. |
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remove the comment
| # the same source node cannot collide, while the source-UUID prefix keeps them discoverable on disk. | ||
| file_name = f'{uuid}_{calculation.uuid}' | ||
| else: | ||
| file_name = uuid |
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because both uuids are the same in this case. redundancy
| # The archive name is unique to this job, so anything at the destination | ||
| # can only be a leftover of a previous attempt of this very job |
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You are changing the filenaming, how does this effect users who already have stashed files the with the old format? Cant u get uniqueness by adapting to our folder structure Remember to update Breaking behavior in Changelog. |
I would not consider this as breaking, because our user api, is
This could only be done for COPY mode. for COMPRESS we need to record the uuid, as far as I remmember. |
I am not worried about it being API breaking, that I agree its not, just a behavior change. My worry is the behavior change. If this works
We can keep the naming if it is needed. What is important that stashing follows the filesystem sharding. Right now it bypasses it. |
yes
I don't understand @agoscinski , can you elaborate |
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It does not follow the separation of the |
Ok but this is irrelevant to this PR, it's been like that since before |
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Sure but if you anyway change the path, you can also fix this problem. you can also separate it into a different PR. Better introduce 1 behavior change than 2. |
Merge `test_stashing_copy_failure_keeps_other_stashes` into the parametrized `test_stashing`: a failed stash must leave pre-existing content in the destination untouched, in every stash mode. Also assert that an existing stash target is never overwritten (compress modes only, since `COPY` has no overwrite guard; see aiidateam#7564).
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ok @agoscinski makes sense |
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Folded in, per @agoscinski's proposal: both modes now shard by the source node and use the stash job's UUID as the leaf — COPY at (Disclaimer: I'm @khsrali's AI assistant, I'm posting with his instructions) |
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Commits fad6aef and 9e40acf are a bit entangled. At least seem to me applying the same logic to different cases. Maybe it makes more sense to extract the changes related to fail_on_missing from fad6aef and merging them into 9e40acf?
Also resolve the source list before compressing, so
fail_on_missing=False
skips missing files as documented, and record on the stash node only what
went into the archive (unstash_calculationrequires an exact match).
RemoteStashFolderData.source_listdocuments "the source files that were
stashed", but withfail_on_missing=Falseit kept the entries skipped for
being missing:
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`compress_async` raises on any missing source, so with `fail_on_missing=False` a compressed stash failed instead of skipping the missing entries as documented: resolve the source list first and compress only what exists. `RemoteStashData.source_list` documents "the source files that were stashed", but both modes kept the entries skipped for being missing: record only what went into the stash (`unstash_calculation` requires an exact match). With `fail_on_missing=True` a non-matching glob silently copied nothing in `COPY` mode: reject glob patterns there too, as the compressed modes do.
`compress_async` errors were logged as a warning and the calculation finished with exit status 0 while nothing was stashed. Raise `StashingError` instead, surfacing as `ERROR_STASHING_FAILED` like in `COPY` mode; the backoff concern behind the swallow was resolved in aiidateam#7140.
`core.stash` archives were named `<source_uuid>.<format>`, so a second stash of the same node to the same `target_base` could never succeed. Place them at `<uu>/<id>/<rest>/<calc_uuid>.<format>`: sharded by the source node like `COPY` already is, and unique per stash job. Anything at that path can then only be a leftover of an earlier attempt of this very job, which no cleanup is guaranteed to have removed (the daemon may have died mid-stash), so pass `overwrite=True` and retries become idempotent. Unstashing reads the recorded `target_basepath` and is unaffected.
A failed `tar` can leave a partial archive that a retry would trip over. The archive name is unique to the stash job, so the file is safe to delete.
The `COPY` target directory of a `core.stash` job is sharded by the source node UUID, so a second stash of the same node silently merged into and overwrote the first, both stash nodes recording the same `target_basepath`. Add the stash job UUID as a final directory level, mirroring the compressed archives, so every job gets its own.
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| try: | ||
| await _do_copy() | ||
| stashed_source_list = await _do_copy() |
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execmanager.py:603-605 (compress) has an early return that COPY (:547-560) lacks:
if not source_list_abs:
EXEC_LOGGER.warning(f'None of {source_list} exist in {source_basepath}. Nothing to stash.')
returnWith fail_on_missing=False and nothing resolving, _do_copy returns [], makedirs_async has already created target_basepath on the remote, and a RemoteStashFolderData is stored with source_list=[] and linked CREATE to the calculation. Verified:
>>> mode=copy stash_nodes=1 source_list=[] target exists on disk: True
>>> tree: stash/d0/a3/bb26-…-ead0552de5cc/d0a3bb26-b9e0-4d16-ad72-ead0552de5cc
>>> mode=tar.gz stash_nodes=0
>>> tree: []
This is the pattern the PR exists to remove, one layer down: a provenance node asserting a stash that did not happen. Release-blocking rather than cosmetic because those nodes are immutable and land in users' databases.
tests/calculations/test_stash.py:637-643 already runs this exact scenario for both modes and asserts only node.is_finished_ok, which is why nothing catches it. Give COPY the same early return, and extend that test to assert the stash-node count rather than just the exit code.
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Hm... If nothing gets stashed but I put stashing in my calculation, as a user I would still assume that I create a RemoteStashNode. It tells me that just no files where stashed. I don't see a problem with this behavior. I am tending to rather change the existing behavior in https://github.com/khsrali/aiida-core/blob/97476b228f05130d60eeac40d48e9b65c4719329/src/aiida/engine/daemon/execmanager.py#L603-L605
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I'd say this is ok, an empty directory won't hurt anyone.
@agoscinski
In this case no RemoteStashNode is created, it's just an empty directory.
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yes but logic is inconsistent. In one case you dont create a node when its empty and in another you create a node when its empty. I tend to the latter, but the problem is more that the logic is inconsistent
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On second thought, als leaning a bit more in the direction of @agoscinski than my original comment, as the node being present records that stashing was requested (even if there was no output). Indeed, should just be consistent.
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@khsrali one factual point, since I think it is what is driving the disagreement: COPY does create the node. Re-checked on 97476b228, copy gives stash_nodes=1 with source_list=[] while tar.gz gives 0, so it is not just an empty directory. Compress creates nothing because it returns before the node is ever built:
aiida-core/src/aiida/engine/daemon/execmanager.py
Lines 603 to 614 in 97476b2
Worth knowing before picking a direction: dropping that early return alone will not unify them, because with nothing resolved tar gets no operands and refuses.
tar: Cowardly refusing to create an empty archive
exit: 2
So compress would also need to skip the tar call and store a node whose target_basepath names a file that was never written.
| target_basepath=target_destination, | ||
| stash_mode=StashMode(stash_mode), | ||
| source_list=source_list, | ||
| source_list=stashed_source_list, |
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Storing only the entries that actually resolved means an unstash configured with the list the user asked to stash no longer matches it, so the job aborts with nothing restored.
unstash_calculation requires exact equality against source_node.source_list (execmanager.py:730-735):
if sorted(source_list) != sorted(source_node.source_list):
EXEC_LOGGER.error(
f'Failed to stash. When stash_mode is {stash_mode}, '
f'{sorted(source_list)} has to be exactly euqual to {sorted(source_node.source_list)}'
)
returnSo stashing ['present.out', 'missing.out'] with fail_on_missing=False and then unstashing with the same list — the list the user wrote — aborts. Verified:
>>> requested=[present.out, missing.out] recorded=['present.out']
>>> unstash errors=["Failed to stash. When stash_mode is tar.gz, ['missing.out', 'present.out'] has to be exactly euqual to ['present.out']"]
>>> restored=[]
The unstash job finishes [0] with nothing restored and an ERROR only in the daemon log: the same silent-success failure this PR is fixing, one step further along. Nothing covers it — grep -n unstash tests/engine/daemon/test_execmanager.py returns nothing.
The round-trip needs a test (fail_on_missing=False stash → unstash) and a changelog line. The message is pre-existing, but this PR is what makes it reachable in normal use, so it is worth fixing here: it says "Failed to stash" during an unstash, contains euqual, and tells a researcher nothing about what to do. The unstash source_list must match exactly what was stashed. Requested {…}, but the stash contains {…}. would at least point at the fix.
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True, if fail_on_missing=False we should not error out, but should continue the stashing. We still can log a warning.
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well, first of all the source_node.source_list is the source of truth not what user requested while having fail_on_missing=False. I'd say this is accepted.
second of all, this is a minimal price to pay for consistency. It's better than keeping missing files in source_node.source_list which means falsely claiming those files.
we already log a warning:
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well, first of all the
source_node.source_listis the source of truth not what user requested while havingfail_on_missing=False. I'd say this is accepted.
Fully agree, and I am not asking to keep the missing entries in it. (The warning you linked, 529-531, is the stash-side one in the COPY copy loop.)
That is about what the node stores though; my point is what unstash_calculation does when the caller passes something else. If the node is the source of truth, unstash should consult it rather than make the caller reproduce it exactly and silently abort when they do not. This returns on any mismatch, so the job finishes [0] with nothing restored and the error only in the daemon log:
aiida-core/src/aiida/engine/daemon/execmanager.py
Lines 732 to 737 in 97476b2
That check is not enforcing source-of-truth either. It rejects a strict subset, with nothing missing and fail_on_missing never involved:
stashed: ['a.out', 'b.out']
unstash asked for ['a.out'] -> "['a.out'] has to be exactly euqual to ['a.out', 'b.out']"
restored: []
It is a pre-existing guard for compressed extraction being all-or-nothing. This PR does not create it, it makes it reachable on the normal path. @agoscinski's warn-and-continue covers both cases.
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sure but these are other issues, could be addressed in another PR, I'd say
| if has_magic(str(source_filepath)): | ||
| if fail_on_missing: | ||
| msg = 'Stashing with glob patterns is not supported when fail_on_missing is True. Stashing failed.' | ||
| raise exceptions.StashingError(msg) |
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fail_on_missing docstring says whether stashing should fail if any files are missing. The reason you fail here is due to an invalid stash option (that should never happen due to validation). It seems reasonable to error here independent of fail_on_missing. Similarly we still raise when a failure happened due to some other reason.
aiida-core/src/aiida/engine/daemon/execmanager.py
Lines 533 to 535 in 955580e
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The reason you fail here is due to an invalid stash option (that should never happen due to validation).
please elaborate why and which invalid stash option ? here it fails because file not found.
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@khsrali I think the line @agoscinski means is the glob rejection, not the file-not-found one:
aiida-core/src/aiida/engine/daemon/execmanager.py
Lines 585 to 588 in 97476b2
That combination is already rejected at submission by validate_stash_options with "cannot contain glob patterns when fail_on_missing is True, but found pattern: ...", so reaching the raise here means an invalid option got past validation, which is a bug rather than a policy call. The file-not-found raise you are describing is the separate branch at 597-599.
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| @pytest.mark.parametrize('stash_mode', [StashMode.COPY.value, StashMode.COMPRESS_TARGZ.value]) | ||
| @pytest.mark.asyncio | ||
| async def test_stashing_skips_missing(generate_calcjob_node, stash_mode, tmp_path, monkeypatch): |
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Nit, non-blocking: the MockAuthInfo stub is only needed because the fixture node has no computer, and it's dead weight for the copy parametrisation, which never calls get_authinfo. Giving the node a computer of its own drops the stub and exercises the real AuthInfo. It also means .format(username=...) actually gets a workdir to substitute into, which the stub silently no-opped. aiida_computer_local() rather than aiida_localhost so the workdir change can't leak into other tests. Passes for both modes.
Patch
@@ -817,12 +817,18 @@ async def test_stashing(
@pytest.mark.parametrize('stash_mode', [StashMode.COPY.value, StashMode.COMPRESS_TARGZ.value])
@pytest.mark.asyncio
-async def test_stashing_skips_missing(generate_calcjob_node, stash_mode, tmp_path, monkeypatch):
+async def test_stashing_skips_missing(generate_calcjob_node, aiida_computer_local, stash_mode, tmp_path):
"""With ``fail_on_missing=False`` missing sources are skipped and the stash node records only what was stashed."""
- node = generate_calcjob_node()
workdir = tmp_path / 'workdir'
workdir.mkdir()
(workdir / 'present.out').write_text('present')
+
+ # a computer of its own, so pointing its workdir at ``tmp_path`` cannot leak into other tests
+ computer = aiida_computer_local()
+ computer.set_workdir(str(workdir))
+
+ node = generate_calcjob_node()
+ node.computer = computer
node.set_remote_workdir(str(workdir))
target_base = tmp_path / 'stash'
node.set_option(
@@ -835,11 +841,6 @@ async def test_stashing_skips_missing(generate_calcjob_node, stash_mode, tmp_pat
},
)
- class MockAuthInfo:
- def get_workdir(self, *args, **kwargs):
- return str(workdir)
-
- monkeypatch.setattr(node, 'get_authinfo', MockAuthInfo)
node.store()
with LocalTransport() as transport:Same applies to test_stashing_fail_on_missing_rejects_glob and test_stashing_same_source_twice, which carry their own copies of the stub, but happy to leave all three for a follow-up if you'd rather not touch tests now.
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I want to smash my keyboard.. but that would cost me money :'( |
3 participants
In the
COMPRESS_*stash modes, errors fromcompress_asyncwere logged as a warning and swallowed: the calculation finished with exit status 0 while nothing was stashed. The justification (#6789, exponential backoff) is obsolete since #7140.One commit each:
fail_on_missingas documented, in both modes:compress_asyncraises on any missing source, so withfail_on_missing=Falsea compressed stash failed instead of skipping the missing entries; the source list is now resolved first. Both modes record on the stash node only what was actually stashed, andCOPYwithfail_on_missing=Truerejects glob patterns instead of silently copying nothing, like the compressed modes. First in the stack, since the raise below exposes the compress half of this bug.StashingErroron compress failures, surfacing asERROR_STASHING_FAILEDlikeCOPY.<target_base>/<source_uuid>.<format>to<target_base>/uu/id/rest/<calc_uuid>.<format>, sharded by the source node likeCOPYand unique per stash job, so repeated stashes of the same node no longer collide. The per-job path makesoverwrite=Truesafe, so retries are idempotent. Unstashing reads the recordedtarget_basepathand is unaffected, existing stashes included; the layout is documented nowhere and not user-configurable.COPY:core.stashCOPY jobs of the same node merged into and overwrote each other's directory; the stash job UUID is now a final directory level,<target_base>/uu/id/rest/<calc_uuid>/, mirroring the archives.New tests are parametrized over both modes:
test_stashing_same_source_twice,test_stashing_skips_missing,test_stashing_fail_on_missing_rejects_glob.(Disclaimer: I'm @khsrali's AI assistant, I'm posting with his instructions)