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updating website #479

Merged
merged 345 commits into from
Sep 9, 2024
Merged

updating website #479

merged 345 commits into from
Sep 9, 2024

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jreps
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@jreps jreps commented Sep 9, 2024

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solis9753 and others added 30 commits August 25, 2022 12:56
- fixing mistake when attempting to fix bug for the input/output of a…
- fixed check messages about using if class(x) is string
- fixed check issues with dplyr code not using .data
- fixed small bug that occurred if the plp model did not do FE or preprocessing
- renamed covariateData to plpData in applyFeatureengineering (as it was using the plpData)
updating version number
- see news.md
- hack to bypass bug with ParallelLogger's json saving
Fixing bugs, issue #313
updating the shiny setting inputs to be correct with updates to OhdsiShinyModules (these were updated to be consistent with other OHDSI shiny apps)
- updated default cohort naming when missing to be consistent with development and validation
- added model_development flag (1=T, 0=F) to performance table to prevent valdiation on the same databases overwriting development
- fixed sqlite for Validation to save to development database location if saving to the Validation subfolder
- updated the results cohort and database tables to enable the shiny viewer to use the plp versions or shared versions (if running strategus)
- updated results spec (fixed some typos and missing columns)
- fixing create table typos
- added databaseId to plp objects
Issue#327: Resolve an issue with coefficient's data structure
egillax and others added 28 commits August 25, 2023 15:51
* fix because of addition of new parameter for decision trees in scikit-learn 1.3
* more consistent python environments in CI
- adding benchmark tasks and constrained predictors to website
- fixing result upload issue when there is a ' in a cohort's name
adding more details about constrained predictors
bug fix in ohdsi shiny modules version check
remove r-reticulate activation from actions since it messes up python version
* Update DESCRIPTION

* only resrtict to first if many observations per subjectId

* fix assignment operator in configurePython (#421)

* Tibble dependancy removal (#422)

* remove unnecessary remotes (#423)

* Study population improvements (#424)

* assign population if existing and added a test (#428)

* 429 save cdm database name (#430)

* save dev database name and schema in trainDetails (#434)

* preserve attributes when splitting data

* Prevent plpData from being evaluated during do.call (#436)

* test improvements (#438)

* fix duplicate vignette titles

---------

Co-authored-by: jreps <[email protected]>
Co-authored-by: Henrik <[email protected]>
* new external validation function based on validationDesign

* fix imports of sklearn modules and classes (#442)

* remove version from is_installed (#444)

* fix NOTES about documentation

* preserve randomness in table generation in tests
add conda setup step - macOS runners stopped supplying default conda
updating website docs
@jreps jreps merged commit 4206806 into gh-pages Sep 9, 2024
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codecov bot commented Sep 9, 2024

Codecov Report

Attention: Patch coverage is 85.86533% with 762 lines in your changes missing coverage. Please review.

Project coverage is 86.51%. Comparing base (f0cdc5c) to head (9d1fb8c).
Report is 428 commits behind head on gh-pages.

Files with missing lines Patch % Lines
R/ExternalValidatePlp.R 34.58% 157 Missing ⚠️
R/ImportFromCsv.R 57.83% 140 Missing ⚠️
R/ViewShinyPlp.R 0.00% 80 Missing ⚠️
R/DiagnosePlp.R 89.38% 50 Missing ⚠️
R/uploadToDatabase.R 93.76% 43 Missing ⚠️
R/CyclopsModels.R 64.00% 36 Missing ⚠️
R/KNN.R 0.00% 28 Missing ⚠️
R/HelperFunctions.R 70.11% 26 Missing ⚠️
R/uploadToDatabaseModelDesign.R 96.29% 23 Missing ⚠️
R/uploadToDatabaseDiagnostics.R 91.14% 17 Missing ⚠️
... and 18 more
Additional details and impacted files
@@             Coverage Diff              @@
##           gh-pages     #479      +/-   ##
============================================
- Coverage     88.74%   86.51%   -2.24%     
============================================
  Files            43       49       +6     
  Lines          8034    10086    +2052     
============================================
+ Hits           7130     8726    +1596     
- Misses          904     1360     +456     

☔ View full report in Codecov by Sentry.
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9 participants