mvdbeek
a351bd1ce9
Merge branch 'release_22.05' into dev
2022-08-09 15:12:15 +02:00
John Davis
def882932d
Add verify_db_is_initialized function; tests
2022-07-13 16:10:58 -04:00
John Davis
1e75d85fd4
Prevent accessing LegacyScripts.database before processing script args
2022-07-13 15:40:42 -04:00
Nicola Soranzo
d8f123f647
Code cleanups from pyupgrade
...
Found by running:
```
ack --type=python -f | grep -v '^tools/' | xargs pyupgrade --py37-plus
```
2022-07-12 13:40:36 +01:00
John Davis
1f3849bd1f
Rename test
2022-07-08 13:41:40 -04:00
Nicola Soranzo
cdaa23cea6
Merge branch 'release_22.05' into dev
2022-07-06 11:47:54 +01:00
Evan Bolyen
184f0d8eaf
TST: fix qiime2.tabular auto-upload test
2022-07-05 09:43:30 -07:00
Evan Bolyen
9c06e232e1
lint: make format is neat
2022-07-05 09:43:30 -07:00
Evan Bolyen
88fed0ffff
TST: added more tests
2022-07-05 09:43:30 -07:00
Oddant1
38b1bfc417
QIIME 2: Strip properties from semantic types ( #2 )
2022-07-05 09:43:30 -07:00
Nicola Soranzo
14b1730eb2
Combine "as" imports with other "from" imports
2022-06-20 20:06:30 +01:00
Nate Coraor
a9047f848d
Fix overlapping method/var name in domain validation
2022-06-16 21:09:59 -04:00
Sergey Golitsynskiy
bf91dc5b75
Remove column update_time from model, tests
2022-06-01 18:30:30 -04:00
Nate Coraor
1f299a5cbf
Test with quoted @ in local part of email (technically valid but we're
...
not allowing it)
2022-05-26 15:05:30 -04:00
Nate Coraor
d1e79e0441
Test split without @
2022-05-26 15:05:30 -04:00
Nate Coraor
37edbaf74c
Trim spaces from around email addresses and usernames when registering.
...
Additionally, include a stricter email address validation.
2022-05-26 14:55:27 -04:00
John Chilton
c5bf63bc91
Add DEFERRED datasets to Galaxy
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- Improves options and display around discarded datasets.
- Adds new APIs for importing model stores.
- Adds support to model store layer for importing/exporting workflow invocations and APIs and tests to support this.
- Add new DEFERRED dataset state - with APIs for materializing them or the option to defer them on the worker node if using tool_evaluation_strategy=remote on the job destination.
- UI and API options for uploading deferred datasets individually or into collections.
2022-05-23 19:48:47 -04:00
Sergey Golitsynskiy
34e8b182d4
Map Dataset declaratively
2022-04-29 13:37:32 -04:00
Sergey Golitsynskiy
cc1c2e4b94
Enable postgresql testing for new annotations module
2022-04-20 22:16:40 -04:00
Sergey Golitsynskiy
e9eb6c1500
Proof of concept: replace annotation mapping tests
2022-04-20 18:14:43 -04:00
Sergey Golitsynskiy
254830a33b
Add fixture for WorkflowStepAnnotationAssociation
2022-04-20 17:48:37 -04:00
Sergey Golitsynskiy
ed2798e044
Fix module path for remote unit tests
2022-04-20 17:03:03 -04:00
Sergey Golitsynskiy
52bb6c90e6
Fix linting
2022-04-20 16:23:05 -04:00
Sergey Golitsynskiy
95a4fd5667
Use plugins instead of importing fixtures directly
...
Also handle setting the fully qualified module name depending on wht's
the cwd from which the test is executed.
2022-04-20 15:50:52 -04:00
Sergey Golitsynskiy
c9e3d340f6
Move tmp_dir fixture one level up
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Otherwise url_factory is not usable outside of migrations
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
1228bfa769
Refactor code for dropping postgres
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
495dd6daaf
Move last context managers out of migrations
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
c3059de4a5
Move disposing_engine out of migrations
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
eec0a87028
Move url_factory out of migrations
...
Make available for use in other testing contexts.
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
476da34b7a
Move test revisions into testing_utils
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
f5c962d8d7
Move common.py to testing_utils
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
d2ecb7ee68
Fix linting (unused import)
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
0a7d2113bd
Factor out helper function (kill more dups)
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
9ae2d4e08f
Simplify (no need for scoped_session), consolidate redundant fixtures
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
1a95857271
Rename test modules for testing_utils
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
9e4cb1176c
Fix linting errors
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
7278126dd6
Move model testing utils into designated dir
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
de4498c3c3
Factor out model fixtures, adjust tests
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
a037b22f6e
Move mapping testing utils into designated dir
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
90288acaf0
Distribute tests following prev. commit, fix imports
2022-04-20 10:28:03 -04:00
Sergey Golitsynskiy
0a4610c74d
Split model test utils into common and mapping-specific
2022-04-20 10:28:03 -04:00
Nicola Soranzo
f24e3863d7
Better test for kombu-only tables in database
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Fix https://github.com/galaxyproject/galaxy/issues/13689 .
2022-04-11 14:09:41 +01:00
Marius van den Beek
a6cbabc829
Merge pull request #13700 from ic4f/dev_alembic6
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Treat db with kombu tables same as empty; adjust tests
2022-04-10 18:34:04 +02:00
Sergey Golitsynskiy
6547d2608a
Don't create/drop the same db twice
2022-04-09 18:27:52 -04:00
Sergey Golitsynskiy
11e5418d21
Treat db with kombu tables as empty; adjust tests
2022-04-08 14:55:58 -04:00
Sergey Golitsynskiy
40179f6825
Fix bug in tests: version should be outdated, not empty
2022-04-08 12:57:39 -04:00
John Chilton
96f55574b4
Disable implicitly attaching HDAs to histories.
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This is bad and we should be explicit about it... if we want it to happen gotta make sure it has an HID and such.
2022-04-06 11:36:47 -04:00
Nicola Soranzo
d11bbf219d
Update mypy to 0.942 . Fix new mypy errors.
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Remove unused `optional()` decorator function that had an annotation issue.
2022-03-31 18:47:52 +01:00
John Chilton
4e01cfe3eb
Merge pull request #13562 from ic4f/dev_sa20_3
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Misc. SQLAlchemy 2.0 upgrades
2022-03-20 18:37:17 -04:00
Nicola Soranzo
00f7522e7e
Merge branch 'release_22.01' into dev
2022-03-19 01:57:33 +00:00
mvdbeek