38 commits

Author	SHA1	Message	Date
sneakers-the-rat	4672f54630	fix generics with defaults, use typing_extensions	2024-10-03 00:11:38 -07:00
sneakers-the-rat	f9f1d49fca	working complete, strict validating io :)	2024-09-26 01:02:16 -07:00
sneakers-the-rat	0eeea4c517	lint	2024-09-11 21:17:46 -07:00
sneakers-the-rat	91b2abf07e	working thru tests for nwb file	2024-09-11 21:04:41 -07:00
sneakers-the-rat	d31ac29294	clean up old hdf5 reader methods, fix truncate_hdf5 method, make proper'd test data files with working references	2024-09-11 19:02:15 -07:00
sneakers-the-rat	000ddde000	Updating model generation methods to make both loader tests and hdmf include unit tests pass (pending following model update commit)	2024-09-11 15:44:57 -07:00
sneakers-the-rat	27b5dddfdd	updating model generation methods, still some models being converted to str instead of being inlined, but almost there	2024-09-04 00:04:21 -07:00
sneakers-the-rat	8078492f90	CHECKPOINT WITH IT WORKING before cleanup and model regeneration	2024-09-03 17:48:36 -07:00
sneakers-the-rat	d1498a3733	checkpointing working on model loading. it's a sloggggggggg	2024-09-03 00:54:56 -07:00
sneakers-the-rat	3641d33cc8	split up fixtures and nwb fixture in particular, add --clean pytest option	2024-09-02 13:40:46 -07:00
sneakers-the-rat	49585e467a	working on grpah loading of nwb files	2024-08-31 01:47:42 -07:00
sneakers-the-rat	b555ccb199	testing nwb file, and experimenting with yaml format	2024-08-30 00:39:10 -07:00
sneakers-the-rat	3d8403e9e3	lint	2024-07-24 22:49:35 -07:00
sneakers-the-rat	2e7670a2bd	yaml peek to quickly find the value of a key	2024-07-19 20:50:18 -07:00
sneakers-the-rat	2e40506443	requests caching, python 10	2024-07-02 00:34:01 -07:00
sneakers-the-rat	07aa879bb9	ruff automatic fixes	2024-07-01 21:44:35 -07:00
sneakers-the-rat	79fc7f23ad	black formatting	2024-07-01 21:23:31 -07:00
sneakers-the-rat	1eddf04400	get tests running again	2024-07-01 18:59:21 -07:00
sneakers-the-rat	4296b27538	catchup with prior work	2024-07-01 15:44:26 -07:00
sneakers-the-rat	92b1a6aac0	holy hell it was a TYPE COERCION in the way linkml handles annotations and a version mismatch between CI and local ... https://github.com/linkml/linkml-model/pull/162	2023-10-11 22:30:26 -07:00
sneakers-the-rat	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
sneakers-the-rat	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
sneakers-the-rat	2d1fe3ad96	read is functional again, calling it a night.	2023-10-10 00:12:33 -07:00
sneakers-the-rat	0508e3b620	re-enable truncate file test	2023-10-09 23:30:39 -07:00
sneakers-the-rat	6da6ef281f	nevermind need to still fix model generation	2023-10-05 22:15:33 -07:00
sneakers-the-rat	06311b21bd	[tests] cheap read test	2023-10-05 22:12:27 -07:00
sneakers-the-rat	3b11afded6	fix truncate hdf5 file to not try and write while iterating	2023-10-04 20:19:54 -07:00
sneakers-the-rat	f672b931e5	Correctly handle container classes, use dicts instead of lists to be able to index by name. overriding __getitem__ and __getattr__ later	2023-09-26 20:50:11 -07:00
sneakers-the-rat	50e816bad4	Working on finalizing the mapping operation... doing it single threaded for now and it's very slow but it completes up until the stage where we need to zip up the orphaned objects and other things that can be inferred from the model. ... Need to make a proxytable model like proxyarray because reading all these tables takes way too fuckin long and it's not what we want to do anyway.	2023-09-25 22:03:53 -07:00
sneakers-the-rat	aac0c7abdd	need 2 stop for the night but its sort of happening	2023-09-22 02:48:40 -07:00
sneakers-the-rat	40984a6582	figuring out the strategy here... ... - added linkml_meta classvar to store additional linkml properties if needed - injecting path field to metaclass - sketch of doing a queue-based read - prune datasets & example allen institute data	2023-09-22 00:31:34 -07:00
sneakers-the-rat	e6a41415f5	successfully building many versions of nwb schema. ... working on hdf5 importing, come back to it when fresh, just sorta poking at it because it's so close.	2023-09-14 02:45:01 -07:00
sneakers-the-rat	095d0bc6a9	fixing tests by using temp directory and changing random prior commit hash from nwb core schema	2023-09-11 19:55:45 -07:00
sneakers-the-rat	2e87fa0556	working generation from provider	2023-09-08 19:46:42 -07:00
sneakers-the-rat	0b0fb6c67a	cute progress bar and also linkml provider works	2023-09-08 16:12:19 -07:00
sneakers-the-rat	2b828082e0	perf enhancements to pydantic generation	2023-09-06 22:48:47 -07:00
sneakers-the-rat	6a9d612b41	i'm just sorta making a mess here. coming back tomorrow	2023-09-06 00:50:49 -07:00
sneakers-the-rat	da2eaea51e	some baseline tests, fixing imports, coverage reports	2023-09-05 21:47:41 -07:00