661194e0a5
Merge pull request #1 from yarikoptic/enh-codespell
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Add codespell support (config, workflow to detect/not fix) and make it fix few typos
2024-04-17 17:05:10 -06:00
Yaroslav Halchenko
2e2ecf10c0
[DATALAD RUNCMD] Do interactive fixing of leftover ambigous typos
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=== Do not change lines below ===
{
"chain": [],
"cmd": "codespell -w -i 3 -C 2",
"exit": 0,
"extra_inputs": [],
"inputs": [],
"outputs": [],
"pwd": "."
}
^^^ Do not change lines above ^^^
2024-04-17 16:00:34 -04:00
Yaroslav Halchenko
63a405f4aa
[DATALAD RUNCMD] run codespell throughout fixing typo automagically but ignoring the failure due to ambigous typos
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=== Do not change lines below ===
{
"chain": [],
"cmd": "codespell -w || :",
"exit": 0,
"extra_inputs": [],
"inputs": [],
"outputs": [],
"pwd": "."
}
^^^ Do not change lines above ^^^
2024-04-17 15:59:53 -04:00
Yaroslav Halchenko
e315ccbf35
Skip folders with produced dumps from nwb schemas
2024-04-17 15:59:48 -04:00
Yaroslav Halchenko
190a5de0e3
Use _ for a variable which is not used
2024-04-17 15:55:52 -04:00
Yaroslav Halchenko
2564f90947
Add rudimentary codespell config
2024-04-17 15:54:16 -04:00
Yaroslav Halchenko
57b37a2d95
Add github action to codespell main on push and PRs
2024-04-17 15:54:16 -04:00
4ee97263ed
Cleanup ndarray validator
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Remove outdated comments, rename inner function to match
2024-01-16 02:06:08 -08:00
eac5ef4c80
more docs work
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move conftest to root so we find doctests? maybe we don't want to keep that tho
2023-10-19 21:20:50 -07:00
23a5412854
remove unused code
2023-10-19 04:01:48 -07:00
e331b8756e
minimal fix
2023-10-19 03:08:38 -07:00
e4eb77fe06
ipywidgets
2023-10-19 03:07:16 -07:00
c4fc342ff2
use poetry kernel and default kernel for rtd?
2023-10-19 03:00:34 -07:00
2276a7b501
docs, but need to sleep, come back in morning
2023-10-19 02:52:15 -07:00
dd956b35c3
Still working on docs!
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Added ability to index datasets wtih arrays with getitem
2023-10-18 21:18:02 -07:00
a1d2924fd3
Some headers to outline next sections
2023-10-18 01:15:23 -07:00
af5b947d12
a bunch of docs stuff
2023-10-18 01:01:15 -07:00
464d95d64d
omfg another one. i'm done
2023-10-12 00:19:40 -07:00
d2185ee1c3
for pydantic provider test by escaping additional bad chars in numpy field name
2023-10-12 00:02:52 -07:00
3101797b0d
don't render jinja template as having a literal "keys" attr instead of item
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also remove unnecessary warnings
2023-10-11 23:28:22 -07:00
fee86135a3
omfg i hate this bug so much if this works i'll be so mad
2023-10-11 22:38:46 -07:00
92b1a6aac0
holy hell it was a TYPE COERCION in the way linkml handles annotations and a version mismatch between CI and local
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https://github.com/linkml/linkml-model/pull/162
2023-10-11 22:30:26 -07:00
0d29ed279f
hold up can this really be the bug
2023-10-11 22:21:44 -07:00
338369a540
trying to debug on CI by abusing warnings lol
2023-10-11 22:07:01 -07:00
f54f5a8153
trying to debug on CI by abusing warnings lol
2023-10-11 21:57:39 -07:00
3164f92387
trying to debug on CI by abusing warnings lol
2023-10-11 21:49:45 -07:00
282acc063e
trying to debug on CI by abusing warnings lol
2023-10-11 21:38:29 -07:00
3a426454c6
trying to debug on CI by abusing warnings lol
2023-10-11 21:31:00 -07:00
52754112aa
make allow_repo an instance-level setting
2023-10-11 20:55:03 -07:00
38d83f3279
fix JsonObj bug https://github.com/linkml/linkml/issues/1665
2023-10-11 20:42:27 -07:00
d4493146b5
give language elements a schema annotation
2023-10-11 20:09:22 -07:00
d9d62618bc
Add source namespace to all generated linkml schemas
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change `namespace` annotation to `is_namespace` and use `namespace` for name of namespace
dont change commit when commit is None - otherwise always reset to recent version when we don't intend to
2023-10-11 20:03:08 -07:00
c6ca97e010
Correctly clone fixed versions in tests, adjusted fixed values to match, set default git clone temp dir from config variables
2023-10-11 19:24:08 -07:00
c4d42cdacf
remove split from schema adapter because it turned out to be a bad idea, we just use tree_root instead
2023-10-11 18:32:31 -07:00
615b006e4a
updating nwb_schema_language to have proper single/multi fields for author/contact
2023-10-10 01:08:25 -07:00
825b5914db
allow lists and singletons in generator
2023-10-10 00:50:51 -07:00
2d1fe3ad96
read is functional again, calling it a night.
2023-10-10 00:12:33 -07:00
729da40dfd
install hdf5
2023-10-09 23:40:31 -07:00
0508e3b620
re-enable truncate file test
2023-10-09 23:30:39 -07:00
91875dabb2
re-enable janky hdmf mapping test just to have it on the board for morale
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Fix serializing datasets
2023-10-09 23:27:33 -07:00
f071705ac8
remove translate
2023-10-09 23:15:46 -07:00
42e64dce75
Refactor dataset adapter to use check/apply style maps!
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General cleaning around maps module, getting ready to remove translate module
2023-10-09 23:06:24 -07:00
adaf939497
classes adapter
2023-10-09 20:13:42 -07:00
79397ec398
dict not list
2023-10-09 19:05:08 -07:00
2b530c4b33
don't require warning when at wrong git version
2023-10-09 19:04:00 -07:00
a7b0f8880e
fix tests, cant assign to tuple
2023-10-09 18:59:53 -07:00
6f32a5bfd3
super annoying you have to import all fixtures and dependencies manually
2023-10-09 16:37:07 -07:00
edf7a4c445
[tests] - test adapter + results
2023-10-09 16:33:02 -07:00
0de6535c5a
Schema language v0.1.2 - trivial rebuild to change date to datetime type and update linkml deps
2023-10-09 15:10:29 -07:00
39c600fda1
Regenerate nwb_schema_language models
2023-10-09 15:06:53 -07:00
