Additional documentation for the development branch #90
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
![github-actions[bot]](https://avatars.githubusercontent.com/in/15368?s=60&v=4){kind=small}
Jennit07
approved these changes
Aug 19, 2024
github-merge-queue bot
added a commit
that referenced
this pull request
Aug 19, 2024
* Update to dev version * Make testthat run in parallel * Fix build tests (#63) * Update variables to pass tests * Update indiv number of variables * Change exists tests to read * Set an environment var to make testthat use multiple CPUs --------- Co-authored-by: James McMahon <[email protected]> * Bug/tidyselect not working (#85) * Allow using tidyselect helpers with `col_select` * Add some tests for tidyselect helpers * Update documentation * recid and partnership filter allow for recid and partnership filter when they are not specified to select in columns * Style package * update tests --------- Co-authored-by: Moohan <[email protected]> Co-authored-by: Zihao Li <[email protected]> Co-authored-by: lizihao-anu <[email protected]> * Documentation (#88) * Update maintainer to Megan (#69) * Update README.Rmd (#64) Co-authored-by: Jennit07 <[email protected]> * Bug - speed up `get_chi()` (#68) * Update to dev version * Make testthat run in parallel * Update variables to pass tests * Update indiv number of variables * Change exists tests to read * Set an environment var to make testthat use multiple CPUs * Revert changes and deal with NA chi/anon_chi * Update documentation * Style package * Update tests so that they pass * Style package * fix tests * Render `README.md` after changes to the `.Rmd` version * exclude from tests for now --------- Co-authored-by: James McMahon <[email protected]> Co-authored-by: Jennit07 <[email protected]> * Render `README.md` after changes to the `.Rmd` version (#70) Co-authored-by: github-merge-queue[bot] <github-merge-queue[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump actions/checkout from 3 to 4 (#66) Bumps [actions/checkout](https://github.com/actions/checkout) from 3 to 4. - [Release notes](https://github.com/actions/checkout/releases) - [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md) - [Commits](actions/checkout@v3...v4) --- updated-dependencies: - dependency-name: actions/checkout dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump peter-evans/create-pull-request from 4 to 5 (#65) Bumps [peter-evans/create-pull-request](https://github.com/peter-evans/create-pull-request) from 4 to 5. - [Release notes](https://github.com/peter-evans/create-pull-request/releases) - [Commits](peter-evans/create-pull-request@v4...v5) --- updated-dependencies: - dependency-name: peter-evans/create-pull-request dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump stefanzweifel/git-auto-commit-action from 4 to 5 (#67) Bumps [stefanzweifel/git-auto-commit-action](https://github.com/stefanzweifel/git-auto-commit-action) from 4 to 5. - [Release notes](https://github.com/stefanzweifel/git-auto-commit-action/releases) - [Changelog](https://github.com/stefanzweifel/git-auto-commit-action/blob/master/CHANGELOG.md) - [Commits](stefanzweifel/git-auto-commit-action@v4...v5) --- updated-dependencies: - dependency-name: stefanzweifel/git-auto-commit-action dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump JamesIves/github-pages-deploy-action from 4.4.3 to 4.5.0 (#71) Bumps [JamesIves/github-pages-deploy-action](https://github.com/jamesives/github-pages-deploy-action) from 4.4.3 to 4.5.0. - [Release notes](https://github.com/jamesives/github-pages-deploy-action/releases) - [Commits](JamesIves/github-pages-deploy-action@v4.4.3...v4.5.0) --- updated-dependencies: - dependency-name: JamesIves/github-pages-deploy-action dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump actions/upload-artifact from 3 to 4 (#72) Bumps [actions/upload-artifact](https://github.com/actions/upload-artifact) from 3 to 4. - [Release notes](https://github.com/actions/upload-artifact/releases) - [Commits](actions/upload-artifact@v3...v4) --- updated-dependencies: - dependency-name: actions/upload-artifact dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump peter-evans/create-pull-request from 5 to 6 (#74) Bumps [peter-evans/create-pull-request](https://github.com/peter-evans/create-pull-request) from 5 to 6. - [Release notes](https://github.com/peter-evans/create-pull-request/releases) - [Commits](peter-evans/create-pull-request@v5...v6) --- updated-dependencies: - dependency-name: peter-evans/create-pull-request dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump actions/cache from 3 to 4 (#73) Bumps [actions/cache](https://github.com/actions/cache) from 3 to 4. - [Release notes](https://github.com/actions/cache/releases) - [Changelog](https://github.com/actions/cache/blob/main/RELEASES.md) - [Commits](actions/cache@v3...v4) --- updated-dependencies: - dependency-name: actions/cache dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Update README.md (#75) Updated to include reading in LTC 'catch all' variables * change in episode file cost variable vector (#76) Co-authored-by: marjom02 <[email protected]> * force keytime format to hms (#77) * force keytime format to hms * Update documentation * visible binding for global variables like ‘keytime1’ * minor changes * fix keytime in column names * import hms --------- Co-authored-by: lizihao-anu <[email protected]> * Bump JamesIves/github-pages-deploy-action from 4.5.0 to 4.6.0 (#79) Bumps [JamesIves/github-pages-deploy-action](https://github.com/jamesives/github-pages-deploy-action) from 4.5.0 to 4.6.0. - [Release notes](https://github.com/jamesives/github-pages-deploy-action/releases) - [Commits](JamesIves/github-pages-deploy-action@v4.5.0...v4.6.0) --- updated-dependencies: - dependency-name: JamesIves/github-pages-deploy-action dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * add vignette for SLFhelper documentation * Style package * Hide messages * remove conflict * Style package * Split up documentation into 3 vignettes * add a comparison table to show the efficiency improvement * Update - round memory size * replace columns by col_select and add tidyselect * Style package * update ep_file_vars and indiv_file_vars * add session memory recommendation * Update R-CMD-check.yaml * fix cmd build error --------- Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: James McMahon <[email protected]> Co-authored-by: Jennit07 <[email protected]> Co-authored-by: Jennit07 <[email protected]> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: github-merge-queue[bot] <github-merge-queue[bot]@users.noreply.github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Megan McNicol <[email protected]> Co-authored-by: marjom02 <[email protected]> Co-authored-by: lizihao-anu <[email protected]> Co-authored-by: Jennifer Thom <[email protected]> * Update documentation (#90) Co-authored-by: github-merge-queue[bot] <118344674+github-merge-queue[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump JamesIves/github-pages-deploy-action from 4.6.0 to 4.6.3 (#82) Bumps [JamesIves/github-pages-deploy-action](https://github.com/jamesives/github-pages-deploy-action) from 4.6.0 to 4.6.3. - [Release notes](https://github.com/jamesives/github-pages-deploy-action/releases) - [Commits](JamesIves/github-pages-deploy-action@v4.6.0...v4.6.3) --- updated-dependencies: - dependency-name: JamesIves/github-pages-deploy-action dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Increment version number to 0.10.2 (#81) * Increment version number to 0.10.2 * update description * Update R-CMD-check.yaml * Update yaml --------- Co-authored-by: Zihao Li <[email protected]> --------- Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: James McMahon <[email protected]> Co-authored-by: Jennit07 <[email protected]> Co-authored-by: Moohan <[email protected]> Co-authored-by: lizihao-anu <[email protected]> Co-authored-by: Jennit07 <[email protected]> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: github-merge-queue[bot] <github-merge-queue[bot]@users.noreply.github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Megan McNicol <[email protected]> Co-authored-by: marjom02 <[email protected]> Co-authored-by: Jennifer Thom <[email protected]> Co-authored-by: github-merge-queue[bot] <118344674+github-merge-queue[bot]@users.noreply.github.com>
github-merge-queue bot
added a commit
that referenced
this pull request
Sep 9, 2024
* Update to dev version * Make testthat run in parallel * Fix build tests (#63) * Update variables to pass tests * Update indiv number of variables * Change exists tests to read * Set an environment var to make testthat use multiple CPUs --------- Co-authored-by: James McMahon <[email protected]> * Bug/tidyselect not working (#85) * Allow using tidyselect helpers with `col_select` * Add some tests for tidyselect helpers * Update documentation * recid and partnership filter allow for recid and partnership filter when they are not specified to select in columns * Style package * update tests --------- Co-authored-by: Moohan <[email protected]> Co-authored-by: Zihao Li <[email protected]> Co-authored-by: lizihao-anu <[email protected]> * Documentation (#88) * Update maintainer to Megan (#69) * Update README.Rmd (#64) Co-authored-by: Jennit07 <[email protected]> * Bug - speed up `get_chi()` (#68) * Update to dev version * Make testthat run in parallel * Update variables to pass tests * Update indiv number of variables * Change exists tests to read * Set an environment var to make testthat use multiple CPUs * Revert changes and deal with NA chi/anon_chi * Update documentation * Style package * Update tests so that they pass * Style package * fix tests * Render `README.md` after changes to the `.Rmd` version * exclude from tests for now --------- Co-authored-by: James McMahon <[email protected]> Co-authored-by: Jennit07 <[email protected]> * Render `README.md` after changes to the `.Rmd` version (#70) Co-authored-by: github-merge-queue[bot] <github-merge-queue[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump actions/checkout from 3 to 4 (#66) Bumps [actions/checkout](https://github.com/actions/checkout) from 3 to 4. - [Release notes](https://github.com/actions/checkout/releases) - [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md) - [Commits](actions/checkout@v3...v4) --- updated-dependencies: - dependency-name: actions/checkout dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump peter-evans/create-pull-request from 4 to 5 (#65) Bumps [peter-evans/create-pull-request](https://github.com/peter-evans/create-pull-request) from 4 to 5. - [Release notes](https://github.com/peter-evans/create-pull-request/releases) - [Commits](peter-evans/create-pull-request@v4...v5) --- updated-dependencies: - dependency-name: peter-evans/create-pull-request dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump stefanzweifel/git-auto-commit-action from 4 to 5 (#67) Bumps [stefanzweifel/git-auto-commit-action](https://github.com/stefanzweifel/git-auto-commit-action) from 4 to 5. - [Release notes](https://github.com/stefanzweifel/git-auto-commit-action/releases) - [Changelog](https://github.com/stefanzweifel/git-auto-commit-action/blob/master/CHANGELOG.md) - [Commits](stefanzweifel/git-auto-commit-action@v4...v5) --- updated-dependencies: - dependency-name: stefanzweifel/git-auto-commit-action dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump JamesIves/github-pages-deploy-action from 4.4.3 to 4.5.0 (#71) Bumps [JamesIves/github-pages-deploy-action](https://github.com/jamesives/github-pages-deploy-action) from 4.4.3 to 4.5.0. - [Release notes](https://github.com/jamesives/github-pages-deploy-action/releases) - [Commits](JamesIves/github-pages-deploy-action@v4.4.3...v4.5.0) --- updated-dependencies: - dependency-name: JamesIves/github-pages-deploy-action dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump actions/upload-artifact from 3 to 4 (#72) Bumps [actions/upload-artifact](https://github.com/actions/upload-artifact) from 3 to 4. - [Release notes](https://github.com/actions/upload-artifact/releases) - [Commits](actions/upload-artifact@v3...v4) --- updated-dependencies: - dependency-name: actions/upload-artifact dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump peter-evans/create-pull-request from 5 to 6 (#74) Bumps [peter-evans/create-pull-request](https://github.com/peter-evans/create-pull-request) from 5 to 6. - [Release notes](https://github.com/peter-evans/create-pull-request/releases) - [Commits](peter-evans/create-pull-request@v5...v6) --- updated-dependencies: - dependency-name: peter-evans/create-pull-request dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump actions/cache from 3 to 4 (#73) Bumps [actions/cache](https://github.com/actions/cache) from 3 to 4. - [Release notes](https://github.com/actions/cache/releases) - [Changelog](https://github.com/actions/cache/blob/main/RELEASES.md) - [Commits](actions/cache@v3...v4) --- updated-dependencies: - dependency-name: actions/cache dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Update README.md (#75) Updated to include reading in LTC 'catch all' variables * change in episode file cost variable vector (#76) Co-authored-by: marjom02 <[email protected]> * force keytime format to hms (#77) * force keytime format to hms * Update documentation * visible binding for global variables like ‘keytime1’ * minor changes * fix keytime in column names * import hms --------- Co-authored-by: lizihao-anu <[email protected]> * Bump JamesIves/github-pages-deploy-action from 4.5.0 to 4.6.0 (#79) Bumps [JamesIves/github-pages-deploy-action](https://github.com/jamesives/github-pages-deploy-action) from 4.5.0 to 4.6.0. - [Release notes](https://github.com/jamesives/github-pages-deploy-action/releases) - [Commits](JamesIves/github-pages-deploy-action@v4.5.0...v4.6.0) --- updated-dependencies: - dependency-name: JamesIves/github-pages-deploy-action dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * add vignette for SLFhelper documentation * Style package * Hide messages * remove conflict * Style package * Split up documentation into 3 vignettes * add a comparison table to show the efficiency improvement * Update - round memory size * replace columns by col_select and add tidyselect * Style package * update ep_file_vars and indiv_file_vars * add session memory recommendation * Update R-CMD-check.yaml * fix cmd build error --------- Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: James McMahon <[email protected]> Co-authored-by: Jennit07 <[email protected]> Co-authored-by: Jennit07 <[email protected]> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: github-merge-queue[bot] <github-merge-queue[bot]@users.noreply.github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Megan McNicol <[email protected]> Co-authored-by: marjom02 <[email protected]> Co-authored-by: lizihao-anu <[email protected]> Co-authored-by: Jennifer Thom <[email protected]> * Update documentation (#90) Co-authored-by: github-merge-queue[bot] <118344674+github-merge-queue[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Bump JamesIves/github-pages-deploy-action from 4.6.0 to 4.6.3 (#82) Bumps [JamesIves/github-pages-deploy-action](https://github.com/jamesives/github-pages-deploy-action) from 4.6.0 to 4.6.3. - [Release notes](https://github.com/jamesives/github-pages-deploy-action/releases) - [Commits](JamesIves/github-pages-deploy-action@v4.6.0...v4.6.3) --- updated-dependencies: - dependency-name: JamesIves/github-pages-deploy-action dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Jennit07 <[email protected]> * Increment version number to 0.10.2 (#81) * Increment version number to 0.10.2 * update description * Update R-CMD-check.yaml * Update yaml --------- Co-authored-by: Zihao Li <[email protected]> * Fix the tidyselect feature bug (#95) * reconstruct read_slf to fix bug of selecting feature * Update documentation * remove TODO add a filter by recid as it has been done * Style package * update ep and individual file variables --------- Co-authored-by: lizihao-anu <[email protected]> Co-authored-by: Jennit07 <[email protected]> * Increment version number to 0.10.4 * Update NEWS --------- Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: James McMahon <[email protected]> Co-authored-by: Moohan <[email protected]> Co-authored-by: Zihao Li <[email protected]> Co-authored-by: lizihao-anu <[email protected]> Co-authored-by: Zihao Li <[email protected]> Co-authored-by: Jennit07 <[email protected]> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: github-merge-queue[bot] <github-merge-queue[bot]@users.noreply.github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Megan McNicol <[email protected]> Co-authored-by: marjom02 <[email protected]> Co-authored-by: github-merge-queue[bot] <118344674+github-merge-queue[bot]@users.noreply.github.com>
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Automated changes by create-pull-request GitHub action