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Merge in STAT/prestogp from testing to master * commit 'a6d1d1b06e9f640140bad7f03746d14ef0629af4': Added new testing files Added new testthat tests
* commit '2dd74a21380be960918b6067abec8ec163721853': Added a simulation file for testing Fixed likelihood function and added additional tests Fixed likelihood function and added additional test
…-and-Toxicology/PrestoGP
…-and-Toxicology/PrestoGP
…at/prestogp into testing Conflicts: DESCRIPTION man/prestogp_fit-PrestoGPModel-method.Rd tests/testthat/test-Log_Likelihood.R Fixed merge conflicts.
Merge in STAT/prestogp from testing to master * commit '895100db78d89c5082ddfcf1411dad69bdf1b6c5': Fixed another sparseNN bug and updated tests Fixed a bug in SparseNN Added more likelihood and maxmin ordering tests
Merge in STAT/prestogp from build-workflow to master * commit '2c9c2ede3d40e6e5af24b38a6acfc2dfb2994975': Add USAN/ASAN pipeline Pull request #14: Additional Testing Additional Testing Add UBSAN/ASAN sanitizers
…-and-Toxicology/PrestoGP
…ode for R and C++ Merge in STAT/prestogp from build-workflow to master * commit '11771e4ccbd6311aa35334c5ab4b7e4299a8db56': Added missing imports Ran auto-formatter/linter for R and C++ in vscode. Added some missing imports
Merge in STAT/prestogp from build-workflow to master * commit '8dac09511058405d630121ca13c589781c932bf4': R CMD check fixes Add new files to Collate section in DESCRIPTION file
…at/prestogp into testing Conflicts: NAMESPACE R/Log_Likelihood.R R/PrestoGP_Full.R R/PrestoGP_Full_Spatial.R R/PrestoGP_Model.R R/PrestoGP_Multivariate_Vecchia.R R/PrestoGP_Vecchia_Spatial.R R/PrestoGP_Vecchia_Spatiotemporal.R tests/testthat/Multivariate-Sims-RandomFields.R tests/testthat/helper.R tests/testthat/spatial_simulation_simple_example.R tests/testthat/test-Log_Likelihood.R tests/testthat/test-PrestoGP_Multivariate_Vecchia_Model.R tests/testthat/test-PrestoGP_Spatial_Full_Model.R tests/testthat/test-PrestoGP_Spatial_Model.R tests/testthat/test-PrestoGP_Spatiotemporal_Full_Model.R tests/testthat/test-PrestoGP_Spatiotemporal_Model.R
…at/prestogp into testing Conflicts: NAMESPACE R/Log_Likelihood.R R/PrestoGP_Full.R R/PrestoGP_Full_Spatial.R R/PrestoGP_Model.R R/PrestoGP_Multivariate_Vecchia.R R/PrestoGP_Vecchia_Spatial.R R/PrestoGP_Vecchia_Spatiotemporal.R tests/testthat/Multivariate-Sims-RandomFields.R tests/testthat/helper.R tests/testthat/spatial_simulation_simple_example.R tests/testthat/test-Log_Likelihood.R tests/testthat/test-PrestoGP_Multivariate_Vecchia_Model.R tests/testthat/test-PrestoGP_Spatial_Full_Model.R tests/testthat/test-PrestoGP_Spatial_Model.R tests/testthat/test-PrestoGP_Spatiotemporal_Full_Model.R tests/testthat/test-PrestoGP_Spatiotemporal_Model.R
Merge in STAT/prestogp from testing to master * commit '04e3f9d681c45f31fd34d00ce7b4fa0bbf50e0f4': Updated outdated DESCRIPTION file Merge branch 'master' of http://192.168.167.103:7990/bitbucket/scm/stat/prestogp into testing Merge branch 'master' of http://192.168.167.103:7990/bitbucket/scm/stat/prestogp into testing Added new files for testing/documentation More test, univariate code fixed
* commit '82eab4427a8fe3b65d2d7d212b394c7feac840ce': Auto-formatting changes
Merge in STAT/prestogp from eb-dev to master * commit 'd361f2e67bcf05e306a14a99ba9b7a57a18a281b': Added a data file for testing Univariate prediction, more testing
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@ericbair-sciome The tests are failing - test-coverage, R-CMD-build, and others seem related to the installation of "pak", so if that is resolved, it may be help a lot of these.
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@ericbair-sciome Let me know if it would be helpful to go ahead and merge into main without the tests passing. We would do that if there are key updates (which clearly there are) and then isolate the test checks/passing in a separate pull request. |
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Go ahead and accept the pull request. I think this is a GitHub issue. All of the testthat tests pass when you run devtools::test() from within R. Maybe @shail-choksi has some idea what is causing his and how to fix it. If not, I'll do some research myself. (The R CMD check tests are going to fail for the time being regardless due to a number of issues that I haven't had time to fix yet, such as incomplete documentation. That is next on my list to fix.) |
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Merge in STAT/prestogp from master to to-git
Squashed commit of the following:
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Merge: 55607e2 7da2588
Author: Eric Bair <eric.bair@sciome.com>
Date: Sat Jan 13 12:11:56 2024 -0500
Pull request #29: Fixed some bugs caused by the linter
Merge in STAT/prestogp from eb-dev to master
* commit '7da2588abba4491c1ff490de95e834d00f5df88e':
Fixed some bugs caused by the linter
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Fixed some bugs caused by the linter
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Pull request #28: Final linting fixes
Merge in STAT/prestogp from build-workflow to master
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Fix remaining linting issues
Fix all indentation errors
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Date: Fri Jan 12 19:02:59 2024 -0500
Pull request #27: Lintr fixes. Added release and sanitizer actions
Merge in STAT/prestogp from build-workflow to master
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enable linting on build-workflow
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Merge pull request #44 from Spatiotemporal-Exposures-and-Toxicology/main-sciome
Sciome Update 1/10/2024
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Merge in STAT/prestogp from master to to-git
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Pull request #32: Fixed some testthat issues
Merge in STAT/prestogp from eb-dev to master
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Fixed some testthat issues
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Pull request #29: Fixed some bugs caused by the linter
Merge in STAT/prestogp from eb-dev to master
* commit '7da2588abba4491c1ff490de95e834d00f5df88e':
Fixed some bugs caused by the linter
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Fixed some bugs caused by the linter
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Merge: c7ed481 81b675d
Author: Shail Choksi <shail.choksi@sciome.com>
Date: Fri Jan 12 19:37:55 2024 -0500
Pull request #28: Final linting fixes
Merge in STAT/prestogp from build-workflow to master
* commit '81b675dda9b57f2a362c34876364adf5bcf45560':
Fix remaining linting issues
Fix all indentation errors
Add indentation_linter configuration to lintr config file
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Author: sciome-bot <software.tools@sciome.com>
Date: Fri Jan 12 19:36:05 2024 -0500
Fix remaining linting issues
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Fix all indentation errors
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Author: Shail Choksi <shail.choksi@sciome.com>
Date: Fri Jan 12 19:02:59 2024 -0500
Pull request #27: Lintr fixes. Added release and sanitizer actions
Merge in STAT/prestogp from build-workflow to master
* commit '7bcfa1aca78cc6b994cc0227c083357c58d50ca0': (21 commits)
Add R_LINTR_LINTER_FILE to lint action to point to global .lintr file
More lintr fixes for 1:length, 1:nrow and line length. Disabled object_length_linter
WIP: Fix linter warnings for 1:nrow, 1:ncol and 1:length. Increase line length to 160 chars
Don't build vignettes during the release action
Move release action file to correct directory
Add release action
Reorder imports in RcppExports file
Add missing dependency in Namespace/Description
Remove unneeded exports from NAMESPACE
Add missing comma in Imports section of DESCRIPTION
Add missing comma in imports section of DESCRIPTION
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WIP - linting
Add ignore rules for .lintr and .github for R build
remove linter options from lint action as we have added .lintr project file. Fix all vector_logic_linter warnings
Remove line length linter to see the remaining errors/warnings
workaround for lintr bug: REditorSupport/languageserver#89
Run auto-lint on vscode
enable linting on build-workflow
Add missing imports in DESCRIPTION
...
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Add indentation_linter configuration to lintr config file
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Add R_LINTR_LINTER_FILE to lint action to point to global .lintr file
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Merge pull request #44 from Spatiotemporal-Exposures-and-Toxicology/main-sciome
Sciome Update 1/10/2024
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Pull request #35: Eb dev
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Date: Wed Apr 10 09:51:12 2024 -0400
Merge branch 'main-sciome' of sciome-bot-git:NIEHS/PrestoGP
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Merge: cb9236b e0c9039
Author: Shail Choksi <shail.choksi@sciome.com>
Date: Tue Apr 9 17:17:39 2024 -0400
Pull request #44: Revert execute permissions on all files
Merge in STAT/prestogp from shail-dev-2 to master
* commit 'e0c90391f290dd2f6ebe62f6a69db8ec006c1872':
chmod changes
Implement imputation beta
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Date: Tue Apr 9 17:16:29 2024 -0400
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Author: Eric Bair <eric.bair@sciome.com>
Date: Tue Apr 9 17:03:10 2024 -0400
Pull request #42: Fixed a documentation issue
Merge in STAT/prestogp from eb-dev to master
* commit '218a18a6cd2891c7c4975e408f7308243c11abbf':
Fixed a documentation issue
commit 218a18a6cd2891c7c4975e408f7308243c11abbf
Author: Eric Bair <eric.bair@sciome.com>
Date: Mon Apr 8 02:18:24 2024 -0400
Fixed a documentation issue
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Merge: c15c519 6bafe5c
Author: Eric Bair <eric.bair@sciome.com>
Date: Fri Apr 5 16:38:34 2024 -0400
Pull request #40: Imputation beta
Merge in STAT/prestogp from eb-dev to master
* commit '6bafe5cf9d5574074bdcb0288e4b48efb87a8840':
Imputation beta implemented
Updated version number
commit 6bafe5cf9d5574074bdcb0288e4b48efb87a8840
Author: Eric Bair <eric.bair@sciome.com>
Date: Thu Apr 4 00:17:45 2024 -0400
Imputation beta implemented
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Date: Sun Mar 17 16:36:13 2024 -0400
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Author: sciome-bot <software.tools@sciome.com>
Date: Thu Feb 8 14:25:12 2024 -0500
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Date: Thu Feb 8 14:24:34 2024 -0500
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Author: Eric Bair <eric.bair@sciome.com>
Date: Thu Feb 8 14:19:24 2024 -0500
Pull request #38: Removed vignette, fixed lint issues
Merge in STAT/prestogp from eb-dev to master
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Removed vignette, fixed lint issues
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Author: sciome-bot <software.tools@sciome.com>
Date: Thu Feb 8 14:18:48 2024 -0500
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Date: Thu Feb 8 14:07:54 2024 -0500
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Date: Thu Feb 8 13:56:38 2024 -0500
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Author: sciome-bot <software.tools@sciome.com>
Date: Wed Feb 7 23:25:05 2024 -0500
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Merge: 439790c 59baf72
Author: Eric Bair <eric.bair@sciome.com>
Date: Wed Feb 7 23:19:54 2024 -0500
Pull request #35: Eb dev
Merge in STAT/prestogp from eb-dev to master
* commit '59baf720737abe59a04c98705c950ef1c7b63321':
Fixed some documentation issues
Removed C++11 compiler flag
Added RandomFields data sets to PrestoGP
Added knitr to Suggests in DESCRIPTION
Documentation, R-cmd-check fixes, binomial regression
... and 37 more commits
sciome-bot
added a commit
that referenced
this pull request
Apr 26, 2024
Squashed commit of the following:
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Pull request #48: Eb dev
Merge in STAT/prestogp from eb-dev to master
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Observation-level lod, imputation tests, updated README
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Observation-level lod, imputation tests, updated README
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Date: Wed Apr 10 09:51:12 2024 -0400
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Merge: cb9236b e0c9039
Author: Shail Choksi <shail.choksi@sciome.com>
Date: Tue Apr 9 17:17:39 2024 -0400
Pull request #44: Revert execute permissions on all files
Merge in STAT/prestogp from shail-dev-2 to master
* commit 'e0c90391f290dd2f6ebe62f6a69db8ec006c1872':
chmod changes
Implement imputation beta
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Author: Eric Bair <eric.bair@sciome.com>
Date: Tue Apr 9 17:03:10 2024 -0400
Pull request #42: Fixed a documentation issue
Merge in STAT/prestogp from eb-dev to master
* commit '218a18a6cd2891c7c4975e408f7308243c11abbf':
Fixed a documentation issue
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Date: Mon Apr 8 02:18:24 2024 -0400
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Merge: c15c519 6bafe5c
Author: Eric Bair <eric.bair@sciome.com>
Date: Fri Apr 5 16:38:34 2024 -0400
Pull request #40: Imputation beta
Merge in STAT/prestogp from eb-dev to master
* commit '6bafe5cf9d5574074bdcb0288e4b48efb87a8840':
Imputation beta implemented
Updated version number
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Author: Eric Bair <eric.bair@sciome.com>
Date: Thu Apr 4 00:17:45 2024 -0400
Imputation beta implemented
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Date: Thu Feb 8 14:24:34 2024 -0500
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... and 43 more commits
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This release contains a number of improvements and bug fixes. The main enhancements are listed below: