youainti
/
ClinicalTrialsDataProcessing
1
0
Fork 0
Code Issues 3 Pull Requests Packages Projects Releases 6 Wiki Activity

Commit Graph

  • d1d0dc87a7 recording logs main Will King 2025-01-13 10:26:59 -0800
  • 1782372a45 Fixed the restore script. Will King 2025-01-07 14:37:40 -0800
  • fc478517ac Backing up current dataset Will King 2025-01-07 13:53:04 -0800
  • d912408456 Got counts of competing drugs back Will King 2025-01-07 13:37:05 -0800
  • 2488cceebc Merge branch 'main' of https://git.youainti.com/youainti/ClinicalTrialsDataProcessing Will King 2025-01-07 11:48:39 -0800
  • eca4795d2f Began redoing lost formularies work llm-extraction Will King 2025-01-06 19:25:19 -0800
  • 87074aa42b Worked on error preventing restore Will King 2025-01-06 12:51:04 -0800
  • 3311159ab6 Merge remote-tracking branch 'refs/remotes/origin/main' Adjusted some git lfs stuff. will king 2024-10-08 17:56:51 -0700
  • bb374dbde9 Mergeing orign/main and home-pc/main will king 2024-10-08 17:01:39 -0700
  • 635cfe42d9 added new data on reasons for terminating trials will king 2024-10-07 11:29:48 -0700
  • 79902f400a added some work on extracting data with LLMs Will King 2024-10-01 12:27:39 -0700
  • 495955170c changed data setup path for clarity will king 2024-09-07 10:20:06 -0700
  • de3698052b Merging work from different computers. FF merge. Includes a lot of data and updates to various files. will king 2024-09-07 10:16:05 -0700
  • dfb041d12b Adding sql that was sitting on home computer will king 2024-09-07 10:00:38 -0700
  • 9aaf007791 removed accidental includion of .dbeaver configuration will king 2024-09-07 09:59:10 -0700
  • b4a3cec7e6 Updated modefile Will King 2024-08-28 14:45:57 -0700
  • 211151e223 added modelfile for llama3.1-extractor:2024-08-28.1 Will King 2024-08-28 14:17:21 -0700
  • d90539a679 updated data-restoration script. Currently working Will King 2024-08-24 16:19:40 -0700
  • 142670d08a added some data that had been left untracked Will King 2024-08-24 13:33:48 -0700
  • 6a931b3a49 added USP MMG data youainti 2023-09-07 13:17:44 -0700
  • 1c3d749ef4 added VA and USP DC datasets youainti 2023-09-07 11:58:01 -0700
  • ef68adae89 Added backup of the aact_db youainti 2023-09-06 11:12:22 -0700
  • a336fb92d9 Linking again after changing remotes youainti 2023-09-06 11:11:07 -0700
  • 05a96a3a29 adding scripts v1.0.1 will king 2023-06-07 13:03:21 -0700
  • 256177e569 Updated to what I am using so far will king 2023-04-13 12:41:24 -0700
  • b7290c271b Merge branch 'main' of ssh://gitea.kgjk.icu:3022/Research/ClinicalTrialsDataProcessing into main youainti 2023-03-31 16:57:13 -0700
  • c4b8484cab added submission date to extractor v1.0.0 will king 2023-03-31 16:57:02 -0700
  • 2a9b8349ba storing local details youainti 2023-03-31 16:56:05 -0700
  • 9a718f72a0 Adding sql queries that I need for the analysis will king 2023-03-31 10:26:25 -0700
  • e88f450b8c minor updates will king 2023-03-29 12:16:11 -0700
  • 4643351305 minor adjustments to improve workflow will king 2023-03-29 11:54:34 -0700
  • c1f9f6e528 Updated to be able to run as webpage. will king 2023-03-28 15:52:08 -0700
  • 277b5b9bd5 Working validation tool will king 2023-03-28 13:28:45 -0700
  • 1de1ff9e4a Minor updates to umls_... to add progress bars. Got the main features of validation running. will king 2023-03-27 19:18:07 -0700
  • 47996ba607 updated import-icd10... to use execute_values to speed up insert. will king 2023-03-27 16:14:44 -0700
  • 9ac4cffe61 Nearly finished interface to manually review icd-10 codes. will king 2023-03-27 15:26:02 -0700
  • 5600ad932d Got the basics for matching and importing icd->GBD data will king 2023-03-24 17:15:11 -0700
  • d1edac3c4f Merge branch 'main' of ssh://gitea.kgjk.icu:3022/Research/ClinicalTrialsDataProcessing into main youainti 2023-03-23 16:08:30 -0700
  • e2edf1eb6b created base of umls linking script youainti 2023-03-23 16:08:08 -0700
  • c5f3bfcdec Merging work from other computer into home. will king 2023-03-23 09:48:55 -0700
  • 12c3c69304 added Glbal burden fo disease data will king 2023-03-23 09:48:21 -0700
  • 29644a0ad5 Connected Global Burdens of Disease Data to ICD-10 Codes youainti 2023-03-20 16:47:35 -0700
  • 123fe3b5e4 Merge completed: Merged working versions from home and office PCs youainti 2023-03-20 14:21:10 -0700
  • 470dfc2611 got a working merge of the who icd10 and cms icd10cm code spaces. This merge has a single entry for each code, prefering the WHO version when available. youainti 2023-03-20 14:07:51 -0700
  • 6876779c17 Merged two commits because I initially forgot to include the deleted paths. youainti 2023-03-20 12:42:50 -0700
  • bbdd7552a8 adding various changed for which I don't remember the details. I'm adding it to avoid loosing it. youainti 2023-03-20 12:31:08 -0700
  • 4831864805 adjusted paths and started writing something to link GBD and ICD10 youainti 2023-03-20 12:29:51 -0700
  • 6b5a48c77a added GlobalBurden of Disease connections to ICD-10 youainti 2023-03-20 12:28:28 -0700
  • 2aba3469d3 adding WHO ICD-10 Data youainti 2023-03-20 12:25:24 -0700
  • ef7ed7001b added info for setting up the db from DrugCentral.org v0.5.0 will king 2023-03-10 15:32:11 -0800
  • 2ec314180f Merge remote-tracking branch 'refs/remotes/origin/main' Will King 2023-03-08 15:17:51 -0800
  • f6b56da261 Got working connection between trials and NDA/ANDA start times Will King 2023-03-08 15:17:25 -0800
  • ed49d8728a Update 'README.md' Will King 2023-03-07 17:39:10 -0800
  • 39397cc224 reorganized python scripts into package, added requisit sql, and added shell scripts to notify me when the systems are up again. youainti 2023-02-08 16:58:43 -0800
  • 804a90c247 lots of updates while integrating rxnav and aact into one dockerfile youainti 2023-02-07 15:45:08 -0800
  • 8dbf4e8c2e removed unused files, began adjusting docker-composes so that they will work together. youainti 2023-02-07 13:04:58 -0800
  • 1a106a553e moved containers to single location, ignored raw data youainti 2023-02-07 11:57:49 -0800
  • f6f687fff5 removed old code (orangebook and old rxnorm_mappings) and adjusted the AACT_downloader to use a local directory when launching youainti 2023-02-07 11:01:53 -0800
  • 016a449258 merged the two settings youainti 2023-02-07 10:19:48 -0800
  • 091fd63366 committing results youainti 2023-02-07 09:51:45 -0800
  • bbf8c77e6d more work on linking market data will king 2023-02-06 19:50:23 -0800
  • 4283719d3d added stashed changes youainti 2023-02-03 11:20:42 -0800
  • 52f8152afd merging results youainti 2023-02-03 11:00:11 -0800
  • 23826fb576 recording local changes youainti 2023-02-02 14:57:37 -0800
  • 966171c840 checking in incremental work. Figured out how to get dates. will king 2023-02-01 12:00:25 -0800
  • f5788051f7 removed (reasonably successful) attempt at using API. I favor migrading db tables will king 2023-01-31 17:01:15 -0800
  • 97af862419 added RxNavInABox mariadb -> postgres importation and some of the views etc I am developing. will king 2023-01-26 11:06:47 -0800
  • 4cc4c5c99f Got some basic api testing done. youainti 2023-01-20 17:12:47 -0800
  • fa37dccfff setup downloader and tool to load nsde data to database youainti 2023-01-19 12:01:03 -0800
  • 339a83117e updated justfile and added a sample .env file youainti 2023-01-10 12:15:02 -0800
  • 266c1c9686 Created downloader, table, and loader for market data youainti 2023-01-09 22:41:52 -0800
  • dfbd82de54 Added instructions to README, improved downloader and adjusted justfile recipe to accomodate downloader v0.4.0 youainti 2023-01-03 13:44:44 -0800
  • fc38a2e92c Fixed bug related to statuses sometimes containing notes youainti 2023-01-03 12:43:42 -0800
  • 3eb9a4130a Got parsing updated to new format youainti 2022-12-30 00:26:36 -0800
  • ee3e37e834 Added history schema, got extraction_lib to read and write from db youainti 2022-12-29 17:44:24 -0800
  • 4ae3064bf2 Got the historical downloader working (fixed an sql issue) and setup tools to select trials. v0.3.0 youainti 2022-12-29 13:15:08 -0800
  • 61dc377e0a reworked docker compose youainti 2022-12-29 11:38:46 -0800
  • 321e756cc6 Merge branch 'parser' of ssh://gitea.kgjk.icu:3022/Research/ClinicalTrialsDataProcessing into main youainti 2022-12-29 11:29:42 -0800
  • 5d2140accd simplified and renamed justfile recipes v0.2.0 youainti 2022-12-27 15:20:37 -0800
  • 9b26cd99df Simplified the DB creation process by running a postgres container directly youainti 2022-12-27 15:08:36 -0800
  • 1bdcc2fd83 added documentation youainti 2022-12-27 13:55:57 -0800
  • 4a2b1ea2ed justfile will download, create, and populate db with AACT data v0.1.0 youainti 2022-12-27 00:36:37 -0800
  • 91eeea100e got downloads working youainti 2022-12-26 18:12:39 -0800
  • e240fff07c Added a justfile, adjusted docker networks, restructured how data is downloaded youainti 2022-12-26 17:05:09 -0800
  • a2c0e4dcc7 added graph of data linkages youainti 2022-09-19 15:23:34 -0700
  • e4971ae2f6 checking everything in parser youainti 2022-07-26 13:44:30 -0700
  • f3d73a5ac1 Added instructions on extracting other data youainti 2022-06-29 13:50:06 -0700
  • 9d5a726494 added feature to extract start_date. deleted unused files and modified others for ease of use. youainti 2022-06-28 12:42:39 -0700
  • 453e82974e extraction-lib as a functional module and the associated history file. youainti 2022-06-28 10:12:46 -0700
  • a9027c9467 added another test file will king 2022-06-23 11:30:44 -0700
  • b1c146d550 Mostly working data extraction, removed dependency on text processing (will remove in future commit) will king 2022-06-18 18:19:34 -0700
  • 71e87a9abe Saving current status. will king 2022-06-08 19:04:47 -0700
  • d8d00101fa Started building data extraction tools will king 2022-06-07 17:13:24 -0700
  • 9850f4c677 setting up the extraction tools and including test cases. youainti 2022-06-07 13:55:46 -0700
  • ff2c5b9ddd Added rate limiting functionality. Not tested as things ran just fine for the 1700 trials I downloaded. history-download youainti 2022-06-03 18:09:20 -0700
  • e849ee50be added a test for downloading issues youainti 2022-06-03 13:16:41 -0700
  • 4bf9b4fab9 Testing if db_connection will work over tailscale. It does. will king 2022-06-03 13:08:50 -0700
  • 40a34ae1c3 Merging something I accidentally committed into main instead of history-download will king 2022-06-03 13:08:11 -0700
  • bf28ad30b2 Fixed version extraction will king 2022-06-03 12:11:47 -0700
  • d3f20ca817 Fixed trial reservation issues by adjusting when the reservation querey is written to the db youainti 2022-06-02 12:20:08 -0700