356cc6e7f0
updates observation text
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closes #635 , #640
2024-04-12 12:20:22 -04:00
1889e31e1f
Update drug_concept_id text
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closes #637
2024-04-12 12:12:13 -04:00
4aaf0140c5
update measurement_concept_Id text
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closes #638
2024-04-12 12:10:18 -04:00
f9ebc22848
Updates to measurement unit concept id text
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closes #642
2024-04-12 11:58:29 -04:00
8971ed2f66
Update gender_source_concept_id text
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closes #631
2024-04-12 11:55:22 -04:00
611e810dbe
Update gender_source_value text
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closes #632
2024-04-12 11:53:36 -04:00
c6fbdd6077
care site table description update
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closes #633
2024-04-12 11:51:23 -04:00
dceb3a182b
[DATALAD RUNCMD] run codespell throughout fixing typos automagically
...
=== Do not change lines below ===
{
"chain": [],
"cmd": "codespell -w",
"exit": 0,
"extra_inputs": [],
"inputs": [],
"outputs": [],
"pwd": "."
}
^^^ Do not change lines above ^^^
2024-03-28 15:31:24 -04:00
8b74e16ce0
closes #546
2024-03-28 15:28:11 -04:00
8ed7a3908e
closes #550
2024-03-28 15:25:28 -04:00
22fe755ae0
Fixing typos
2024-03-28 14:37:46 -04:00
4145f5bd97
closes #625
2024-03-28 13:41:01 -04:00
f1d1c3a23d
closes #604
2024-03-28 13:39:03 -04:00
47eced44c9
closes #617
2024-03-28 13:26:52 -04:00
6333928fe0
Closes #587
2024-03-28 13:16:30 -04:00
03ce1d5260
Closes OHDSI/Themis 77
2024-03-28 13:09:11 -04:00
4e90a3529e
closes #595
2024-03-28 12:54:26 -04:00
d9dfaff735
Merge branch 'main' of https://github.com/OHDSI/CommonDataModel
2024-03-28 12:44:12 -04:00
7be2cd2a84
closes #599
2024-03-28 12:38:20 -04:00
95fef98c90
Closes #603
2024-03-28 12:34:04 -04:00
46e13a1a3c
update days supply convention to v5.3 and v6.0
2023-12-09 10:57:32 +01:00
4a764dcca1
Update days_supply description and convention
2023-10-06 21:19:43 +02:00
f39870c7d5
correct build of new files
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includes consistent case for table names
proper directory structure
2023-09-06 13:22:41 -04:00
3b5f6819a5
Fixing an issue in PROCEDURE_OCCURRENCE documentation
2022-04-22 15:25:25 -04:00
477fb8a191
Fixes to CDM v5.4 constraints
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Removed an incorrect linkage of person.person_id as a foreign key to payer_plan_period.payer_plan_period_id
2022-01-21 15:32:48 -05:00
8fecffb215
Fix to CDM v5.3 Constraints
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Removed constraint linking person.person_id as a foreign key to payer_plan_period.payer_plan_period_id
2022-01-21 15:30:53 -05:00
09fe23fd44
Fixes mismatches in data types (removes bigints)
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closes #453
2022-01-13 12:34:30 -05:00
80eebce2b6
Merge pull request #472 from OHDSI/master
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Rebase Jan2022_fixes branch
2022-01-13 12:19:58 -05:00
7e092bc44e
Merge pull request #460 from flying-burrito/era-dates
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Update v5.3 / v5.4 docs for Era tables: use date type for *_date fields
2022-01-13 12:15:43 -05:00
247a1fe0c1
Adds version queries for the cdm and vocab
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closes #463
2022-01-13 11:49:47 -05:00
6b53641c83
Clarifies CARE_SITE_ID description
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closes #468
2022-01-13 11:09:21 -05:00
c66a27e3db
Add link to vocab wiki about type concepts
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closes #470
2022-01-13 11:07:21 -05:00
15f5fb1ed5
Update OMOP_CDMv5.4_Field_Level.csv
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Fixing PK issue in cohort and cohort definition
2021-12-21 10:07:32 -05:00
f5841f55e4
upd: v5.3 / v5.4 docs for Era tables, use date type for *_date fields
2021-11-17 16:51:11 +01:00
9e4b5978c8
Bugfix to cdm v6.0
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VISIT_DETAIL.admitting_source_value and admitting_souce_concept_id were renamed to admitted_from_concept_id and admitted_from_source_value.
2021-09-23 15:26:59 -04:00
4c8f054784
Fix to CDM v6.0 to add back cohort table
2021-09-23 10:52:05 -04:00
5927b49a53
Multiple fixes
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Fixed issue in CDM v5.3 field level csv, formatted rmd files, fixed documentation of the buildReleaseZip() function.
2021-09-23 10:42:24 -04:00
46da3238af
Documentation updates to support CDM v5.4
2021-09-22 15:39:44 -04:00
041291eb27
Foreign key fixes
2021-08-19 15:52:33 -04:00
c1a4422dd1
Changed bigint to integer for consistency
2021-08-19 14:54:44 -04:00
7067be34ac
Hack-a-thon updates
...
Closes #81 , #387 , #239 , #412 , #391 , #330 , #408 , #365 , #306 , #264
2021-08-19 14:42:18 -04:00
d73a0f426d
Merge branch 'v5.4' into v5.4
2021-08-19 13:30:50 -04:00
7036b0e0f3
resolving merge issue on field level csv
2021-08-19 13:14:23 -04:00
c9463d0cf1
Adding EPISODE and EPISODE event tables
2021-08-19 12:58:41 -04:00
a2812b85e5
Added EPISODE and EPISODE_EVENT tables to table_level_5.4
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Also update the oncology extension documents to align with the table level file for v5.4
2021-08-19 12:45:44 -04:00
19462d322d
Add tests, github actions, and executeDdl function ( #425 )
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* Add github actions workflow to build package and run tests.
* update Description file
* rename .Rproj file.
* Consolidate 'create' functions into one file.
* Add tests for create functions.
* update description
* removed spaces in file and folder names. Regenerated ddl output. Tried to fix Field_Level.csv file.
* consolidate write functions into one file. Add execute function.
* update docs
* add tests for write and execute functions
* update documentation
* Add windows and linux runners in github actions.
* update github actions
* download drivers before running tests
* fix small error in setup test file.
* debug github actions
* debug github actions
* debug github actions
* debug github actions
* fix tiny bug
* comment out execute ddl test
* fix bug in test
* Add execute test back in
* revert accidental change in description
* add print statement for debugging schema error on github actions.
* Fix schema environment variable name
* Add comment to github actions workflow file.
* remove placeholder text in function documentation.
* Rename createdDdl.R to createDdl.R
Co-authored-by: Adam Black <adam.black@odysseusinc.com>
2021-08-19 11:49:36 -04:00
918b57bcca
Merge branch 'v5.4' into v5.4_cleanup
2021-08-18 16:06:08 -04:00
a4bfeccf83
function naming & additional cleanup
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made create and write functions consistent
fixed render issue that was not including dialect name in generated files
added loop to codeToRun to generate all scripts.
2021-08-18 15:30:04 -04:00
ea0fc0f80b
Merge branch 'v5.4' into v5.4
2021-08-18 15:05:14 -04:00
b4661f637d
Issue #149 saved fix for nullables in vocabulary table (vocabulary_reference and vocabulary_version both have isRequired=No)
2021-08-18 14:37:43 -04:00
Clair Blacketer
Yaroslav Halchenko
Maxim Moinat
Frank DeFalco
Clair Blacketer
clairblacketer
flying-burrito
Alan Andryc
Andryc
Adam Black
Frank DeFalco
unknown