diff --git a/.Rbuildignore b/.Rbuildignore index 3691233..65a2911 100644 --- a/.Rbuildignore +++ b/.Rbuildignore @@ -60,3 +60,4 @@ Rplots.pdf$ ^docs ^pkgdown [.]Rdump +^\.github$ diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml index 9fc741a..3261b97 100644 --- a/.github/workflows/R-CMD-check.yaml +++ b/.github/workflows/R-CMD-check.yaml @@ -26,7 +26,8 @@ jobs: - {os: ubuntu-latest, r: 'release' } - {os: ubuntu-latest, r: 'oldrel' } - {os: ubuntu-latest, r: 'oldrel-1' } - - {os: ubuntu-latest, r: '3.5' } + - {os: ubuntu-latest, r: 'oldrel-2' } + - {os: ubuntu-latest, r: '3.6' } - {os: ubuntu-latest, r: 'release' , language: ko, label: ko } - {os: ubuntu-latest, r: 'release' , globals_keepWhere: true, label: 'keepWhere' } - {os: ubuntu-latest, r: 'release' , globals_keepWhere: false, label: '!keepWhere' } @@ -39,8 +40,6 @@ jobs: LANGUAGE: ${{ matrix.config.language }} ## R CMD check _R_CHECK_CRAN_INCOMING_: false - _R_CHECK_LENGTH_1_CONDITION_: true - _R_CHECK_LENGTH_1_LOGIC2_: true _R_CHECK_MATRIX_DATA_: true _R_CHECK_SUGGESTS_ONLY_: true _R_CHECK_THINGS_IN_TEMP_DIR_: true @@ -88,17 +87,16 @@ jobs: - name: Check run: | - if (nzchar(Sys.getenv("R_FUTURE_PLAN")) || getRversion() < "3.5.0") Sys.setenv(RCMDCHECK_ERROR_ON = "error") + if (nzchar(Sys.getenv("R_FUTURE_PLAN"))) Sys.setenv(RCMDCHECK_ERROR_ON = "error") rcmdcheck::rcmdcheck( - build_args = if (getRversion() < "3.5.0") "--no-build-vignettes", - args = c("--no-manual", "--as-cran", if (getRversion() < "3.5.0") c("--no-vignettes", "--no-build-vignettes", "--ignore-vignettes")), + args = c("--no-manual", "--as-cran"), check_dir = "check" ) shell: Rscript {0} - name: Upload check results if: failure() - uses: actions/upload-artifact@v3 + uses: actions/upload-artifact@v4 with: name: ${{ runner.os }}-r${{ matrix.config.r }}-results path: check diff --git a/.github/workflows/covr.yaml b/.github/workflows/covr.yaml deleted file mode 100644 index 375c21f..0000000 --- a/.github/workflows/covr.yaml +++ /dev/null @@ -1,82 +0,0 @@ -on: [push] - -name: covr - -jobs: - covr: - if: "! contains(github.event.head_commit.message, '[ci skip]')" - - timeout-minutes: 20 - - runs-on: ubuntu-latest - - name: covr - - strategy: - fail-fast: false - - env: - GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} - RSPM: https://packagemanager.rstudio.com/cran/__linux__/jammy/latest - R_REMOTES_NO_ERRORS_FROM_WARNINGS: true - ## R CMD check - _R_CHECK_LENGTH_1_CONDITION_: true - _R_CHECK_LENGTH_1_LOGIC2_: true - _R_CHECK_MATRIX_DATA_: true - _R_CHECK_CRAN_INCOMING_: false - - steps: - - uses: actions/checkout@v4 - - - uses: r-lib/actions/setup-pandoc@v2 - - - uses: r-lib/actions/setup-r@v2 - with: - r-version: release - - - name: Query dependencies - run: | - install.packages('remotes') - saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) - writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") - shell: Rscript {0} - - - name: Cache R packages - uses: actions/cache@v1 - with: - path: ${{ env.R_LIBS_USER }} - key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }} - restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1- - - - name: Install system dependencies - env: - RHUB_PLATFORM: linux-x86_64-ubuntu-gcc - run: | - Rscript -e "remotes::install_github('r-hub/sysreqs')" - sysreqs=$(Rscript -e "cat(sysreqs::sysreq_commands('DESCRIPTION'))") - sudo -s eval "$sysreqs" - - - name: Install dependencies - run: | - install.packages(c("covr", "sessioninfo")) - remotes::install_deps(dependencies = TRUE) - install.packages(".", repos=NULL, type="source") - shell: Rscript {0} - - - name: Session info - run: | - options(width = 100) - pkgs <- installed.packages()[, "Package"] - sessioninfo::session_info(pkgs, include_base = TRUE) - shell: Rscript {0} - - - name: Test coverage - run: | - ## 1. Get 'Repository Upload Token' from Codecov: - ## https://app.codecov.io/gh///settings - ## 2. Set 'CODECOV_TOKEN' in GitHub Secrets: - ## https://github.com///settings/environments/ - coverage <- covr::package_coverage() - print(coverage) - covr::codecov(coverage = coverage, token="${{secrets.CODECOV_TOKEN}}") - shell: Rscript {0} diff --git a/.github/workflows/rhub.yaml b/.github/workflows/rhub.yaml new file mode 100644 index 0000000..74ec7b0 --- /dev/null +++ b/.github/workflows/rhub.yaml @@ -0,0 +1,95 @@ +# R-hub's generic GitHub Actions workflow file. It's canonical location is at +# https://github.com/r-hub/actions/blob/v1/workflows/rhub.yaml +# You can update this file to a newer version using the rhub2 package: +# +# rhub::rhub_setup() +# +# It is unlikely that you need to modify this file manually. + +name: R-hub +run-name: "${{ github.event.inputs.id }}: ${{ github.event.inputs.name || format('Manually run by {0}', github.triggering_actor) }}" + +on: + workflow_dispatch: + inputs: + config: + description: 'A comma separated list of R-hub platforms to use.' + type: string + default: 'linux,windows,macos' + name: + description: 'Run name. You can leave this empty now.' + type: string + id: + description: 'Unique ID. You can leave this empty now.' + type: string + +jobs: + + setup: + runs-on: ubuntu-latest + outputs: + containers: ${{ steps.rhub-setup.outputs.containers }} + platforms: ${{ steps.rhub-setup.outputs.platforms }} + + steps: + # NO NEED TO CHECKOUT HERE + - uses: r-hub/actions/setup@v1 + with: + config: ${{ github.event.inputs.config }} + id: rhub-setup + + linux-containers: + needs: setup + if: ${{ needs.setup.outputs.containers != '[]' }} + runs-on: ubuntu-latest + name: ${{ matrix.config.label }} + strategy: + fail-fast: false + matrix: + config: ${{ fromJson(needs.setup.outputs.containers) }} + container: + image: ${{ matrix.config.container }} + + steps: + - uses: r-hub/actions/checkout@v1 + - uses: r-hub/actions/platform-info@v1 + with: + token: ${{ secrets.RHUB_TOKEN }} + job-config: ${{ matrix.config.job-config }} + - uses: r-hub/actions/setup-deps@v1 + with: + token: ${{ secrets.RHUB_TOKEN }} + job-config: ${{ matrix.config.job-config }} + - uses: r-hub/actions/run-check@v1 + with: + token: ${{ secrets.RHUB_TOKEN }} + job-config: ${{ matrix.config.job-config }} + + other-platforms: + needs: setup + if: ${{ needs.setup.outputs.platforms != '[]' }} + runs-on: ${{ matrix.config.os }} + name: ${{ matrix.config.label }} + strategy: + fail-fast: false + matrix: + config: ${{ fromJson(needs.setup.outputs.platforms) }} + + steps: + - uses: r-hub/actions/checkout@v1 + - uses: r-hub/actions/setup-r@v1 + with: + job-config: ${{ matrix.config.job-config }} + token: ${{ secrets.RHUB_TOKEN }} + - uses: r-hub/actions/platform-info@v1 + with: + token: ${{ secrets.RHUB_TOKEN }} + job-config: ${{ matrix.config.job-config }} + - uses: r-hub/actions/setup-deps@v1 + with: + job-config: ${{ matrix.config.job-config }} + token: ${{ secrets.RHUB_TOKEN }} + - uses: r-hub/actions/run-check@v1 + with: + job-config: ${{ matrix.config.job-config }} + token: ${{ secrets.RHUB_TOKEN }} diff --git a/.github/workflows/test-coverage.yaml b/.github/workflows/test-coverage.yaml new file mode 100644 index 0000000..cd2c74a --- /dev/null +++ b/.github/workflows/test-coverage.yaml @@ -0,0 +1,56 @@ +on: [push] + +name: test-coverage.yaml + +permissions: read-all + +jobs: + test-coverage: + runs-on: ubuntu-latest + env: + GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} + + steps: + - uses: actions/checkout@v4 + + - name: Assert CODECOV_TOKEN is set + run: | + if [[ -z "${{secrets.CODECOV_TOKEN}}" ]]; then + >&2 echo "::error::ERROR: 'secrets.CODECOV_TOKEN' not set" + exit 1 + fi + + - uses: r-lib/actions/setup-r@v2 + with: + use-public-rspm: true + + - uses: r-lib/actions/setup-r-dependencies@v2 + with: + extra-packages: any::covr, any::xml2 + needs: coverage + + - name: Test coverage + run: | + cov <- covr::package_coverage( + quiet = FALSE, + clean = FALSE, + install_path = file.path(normalizePath(Sys.getenv("RUNNER_TEMP"), winslash = "/"), "package") + ) + print(cov) + covr::to_cobertura(cov) + shell: Rscript {0} + + - uses: codecov/codecov-action@v4 + with: + fail_ci_if_error: ${{ github.event_name != 'pull_request' && true || false }} + file: ./cobertura.xml + plugin: noop + disable_search: true + token: ${{ secrets.CODECOV_TOKEN }} + + - name: Upload test results + if: failure() + uses: actions/upload-artifact@v4 + with: + name: coverage-test-failures + path: ${{ runner.temp }}/package diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md index 041e5ef..c2265cc 100644 --- a/CONTRIBUTING.md +++ b/CONTRIBUTING.md @@ -1,8 +1,8 @@ # Contributing to the 'future.apply' package -This Git repository uses the [Git Flow](https://nvie.com/posts/a-successful-git-branching-model/) branching model (the [`git flow`](https://github.com/petervanderdoes/gitflow-avh) extension is useful for this). The [`develop`](https://github.com/HenrikBengtsson/future.apply/tree/develop) branch contains the latest contributions and other code that will appear in the next release, and the [`master`](https://github.com/HenrikBengtsson/future.apply) branch contains the code of the latest release, which is exactly what is currently on [CRAN](https://cran.r-project.org/package=future.apply). +This Git repository uses the [Git Flow](https://nvie.com/posts/a-successful-git-branching-model/) branching model (the [`git flow`](https://github.com/petervanderdoes/gitflow-avh) extension is useful for this). The [`develop`](https://github.com/futureverse/future.apply/tree/develop) branch contains the latest contributions and other code that will appear in the next release, and the [`master`](https://github.com/futureverse/future.apply) branch contains the code of the latest release, which is exactly what is currently on [CRAN](https://cran.r-project.org/package=future.apply). -Contributing to this package is easy. Just send a [pull request](https://help.github.com/articles/using-pull-requests/). When you send your PR, make sure `develop` is the destination branch on the [future.apply repository](https://github.com/HenrikBengtsson/future.apply). Your PR should pass `R CMD check --as-cran`, which will also be checked by GitHub Actions and when the PR is submitted. +Contributing to this package is easy. Just send a [pull request](https://help.github.com/articles/using-pull-requests/). When you send your PR, make sure `develop` is the destination branch on the [future.apply repository](https://github.com/futureverse/future.apply). Your PR should pass `R CMD check --as-cran`, which will also be checked by GitHub Actions and when the PR is submitted. We abide to the [Code of Conduct](https://www.contributor-covenant.org/version/2/0/code_of_conduct/) of Contributor Covenant. diff --git a/DESCRIPTION b/DESCRIPTION index 427b571..43d508a 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,5 +1,5 @@ Package: future.apply -Version: 1.11.2 +Version: 1.11.3 Title: Apply Function to Elements in Parallel using Futures Depends: R (>= 3.2.0), @@ -21,10 +21,10 @@ Authors@R: c(person("Henrik", "Bengtsson", email = "henrikb@braju.com", comment = c(ORCID = "0000-0002-7579-5165")), person("R Core Team", role = c("cph", "ctb"))) -Description: Implementations of apply(), by(), eapply(), lapply(), Map(), .mapply(), mapply(), replicate(), sapply(), tapply(), and vapply() that can be resolved using any future-supported backend, e.g. parallel on the local machine or distributed on a compute cluster. These future_*apply() functions come with the same pros and cons as the corresponding base-R *apply() functions but with the additional feature of being able to be processed via the future framework. +Description: Implementations of apply(), by(), eapply(), lapply(), Map(), .mapply(), mapply(), replicate(), sapply(), tapply(), and vapply() that can be resolved using any future-supported backend, e.g. parallel on the local machine or distributed on a compute cluster. These future_*apply() functions come with the same pros and cons as the corresponding base-R *apply() functions but with the additional feature of being able to be processed via the future framework . License: GPL (>= 2) LazyLoad: TRUE -URL: https://future.apply.futureverse.org, https://github.com/HenrikBengtsson/future.apply -BugReports: https://github.com/HenrikBengtsson/future.apply/issues -RoxygenNote: 7.3.1 +URL: https://future.apply.futureverse.org, https://github.com/futureverse/future.apply +BugReports: https://github.com/futureverse/future.apply/issues +RoxygenNote: 7.3.2 Roxygen: list(markdown = TRUE) diff --git a/NEWS.md b/NEWS.md index fdc73ca..0d4cc20 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,3 +1,11 @@ +# Version 1.11.3 [2024-10-27] + +## Bug Fixes + + * Use of `future.seed = TRUE` could result in an error + `!any(seed_next != seed) is not TRUE` in rare cases. + + # Version 1.11.2 [2024-03-27] ## Miscellaneous diff --git a/R/future.apply-package.R b/R/future.apply-package.R index 62880cb..3c1c30f 100644 --- a/R/future.apply-package.R +++ b/R/future.apply-package.R @@ -88,7 +88,6 @@ #' #' @keywords manip programming iteration #' -#' @docType package #' @aliases future.apply-package #' @name future.apply -NULL +"_PACKAGE" diff --git a/R/future_xapply.R b/R/future_xapply.R index 8de4d87..6cb6777 100644 --- a/R/future_xapply.R +++ b/R/future_xapply.R @@ -191,7 +191,7 @@ future_xapply <- local({ ## than one element is processed per future. The adjustment is done by ## scaling up the limit by the number of elements in the chunk. This is ## a "good enough" approach. - ## (https://github.com/HenrikBengtsson/future.apply/issues/8). + ## (https://github.com/futureverse/future.apply/issues/8). if (length(chunks) > 1L) { options(future.globals.maxSize = length(chunks) * globals.maxSize.default) if (debug) mdebugf(" - Adjusted option 'future.globals.maxSize': %.0f -> %d * %.0f = %.0f (bytes)", globals.maxSize.default, length(chunks), globals.maxSize.default, getOption("future.globals.maxSize")) diff --git a/R/rng_utils.R b/R/rng_utils.R index ca5e1e9..50b2ca4 100644 --- a/R/rng_utils.R +++ b/R/rng_utils.R @@ -58,7 +58,10 @@ set_random_seed <- function(seed) { next_random_seed <- function(seed = get_random_seed()) { sample.int(n = 1L, size = 1L, replace = FALSE) seed_next <- get_random_seed() - stop_if_not(!any(seed_next != seed)) + + ## Assert RNG state changed + stop_if_not(identical(seed_next, seed)) + invisible(seed_next) } diff --git a/README.md b/README.md index 8214490..36a9d71 100644 --- a/README.md +++ b/README.md @@ -1,7 +1,7 @@
-CRAN check status R CMD check status Coverage Status +CRAN check status R CMD check status
# future.apply: Apply Function to Elements in Parallel using Futures @@ -173,7 +173,7 @@ install.packages("future.apply") To install the pre-release version that is available in Git branch `develop` on GitHub, use: ```r -remotes::install_github("HenrikBengtsson/future.apply", ref="develop") +remotes::install_github("futureverse/future.apply", ref="develop") ``` This will install the package from source. diff --git a/cran-comments.md b/cran-comments.md index 4797f8a..ce02406 100644 --- a/cran-comments.md +++ b/cran-comments.md @@ -1,6 +1,9 @@ -# CRAN submission future.apply 1.11.2 +# CRAN submission future.apply 1.11.3 + +on 2024-10-27 + +I've verified this submission has no negative impact on any of the 168 reverse package dependencies available on CRAN (n=161) and Bioconductor (n=7). -on 2024-03-27 ## Notes not sent to CRAN @@ -8,27 +11,15 @@ on 2024-03-27 The package has been verified using `R CMD check --as-cran` on: -| R version | GitHub | R-hub | mac/win-builder | -| ------------- | ------ | ----- | --------------- | -| 3.5.x | L | | | -| 4.1.x | L | | | -| 4.2.x | L M W | | | -| 4.3.x | L M . | . . | M1 W | -| devel | L M . | . | . | +| R version | GitHub | mac/win-builder | +| ------------- | ------ | --------------- | +| 3.6.x | L | | +| 4.1.x | L | | +| 4.2.x | L | | +| 4.3.x | L M W | W | +| 4.4.x | L M W | M1 W | +| devel | L M W | W | *Legend: OS: L = Linux, M = macOS, M1 = macOS M1, W = Windows* - -R-hub checks: - -```r -res <- rhub::check(platforms = c( - "debian-clang-devel", - "debian-gcc-patched", - "fedora-gcc-devel", - "windows-x86_64-release" -)) -print(res) -``` - -Skipped. +It has also be verified using various R-hub v2 checks. diff --git a/man/future.apply.Rd b/man/future.apply.Rd index be9f5a3..faaba42 100644 --- a/man/future.apply.Rd +++ b/man/future.apply.Rd @@ -96,8 +96,8 @@ section on the Useful links: \itemize{ \item \url{https://future.apply.futureverse.org} - \item \url{https://github.com/HenrikBengtsson/future.apply} - \item Report bugs at \url{https://github.com/HenrikBengtsson/future.apply/issues} + \item \url{https://github.com/futureverse/future.apply} + \item Report bugs at \url{https://github.com/futureverse/future.apply/issues} } } diff --git a/pkgdown/_pkgdown.yml b/pkgdown/_pkgdown.yml index 4b617bb..ffd6b63 100644 --- a/pkgdown/_pkgdown.yml +++ b/pkgdown/_pkgdown.yml @@ -3,7 +3,7 @@ url: https://future.apply.futureverse.org home: links: - text: Roadmap/Milestones - href: https://github.com/HenrikBengtsson/future.apply/milestones + href: https://github.com/futureverse/future.apply/milestones - text: The Futureverse Project href: https://www.futureverse.org/ - text: Futureverse User Forum @@ -19,18 +19,20 @@ navbar: pkgs: text: Packages menu: - - text: doFuture + - text: doFuture (map-reduce) href: https://doFuture.futureverse.org - - text: furrr + - text: furrr (map-reduce) href: https://furrr.futureverse.org - text: future href: https://future.futureverse.org - - text: future.apply + - text: future.apply (map-reduce) href: https://future.apply.futureverse.org - - text: future.batchtools + - text: future.batchtools (backend) href: https://future.batchtools.futureverse.org - - text: future.callr + - text: future.callr (backend) href: https://future.callr.futureverse.org + - text: future.mirai (backend) + href: https://future.mirai.futureverse.org - text: future.tests href: https://future.tests.futureverse.org - text: globals @@ -45,8 +47,6 @@ navbar: href: https://BiocParallel.FutureParam.futureverse.org - text: future.tools (experimental) href: https://future.tools.futureverse.org - - text: future.mirai (experimental) - href: https://future.mirai.futureverse.org - text: future.mapreduce (experimental) href: https://future.mapreduce.futureverse.org - text: marshal (experimental) diff --git a/pkgdown/_pkgdown.yml.rsp b/pkgdown/_pkgdown.yml.rsp index 6d931ca..fe85ef5 100644 --- a/pkgdown/_pkgdown.yml.rsp +++ b/pkgdown/_pkgdown.yml.rsp @@ -1,6 +1,8 @@ <% -pkgs <- c("globals", "listenv", "parallelly", "future", "future.apply", "furrr", "future.tests", "future.callr", "future.batchtools", "doFuture", "progressr") -pkgs_extra <- c("BiocParallel.FutureParam", "future.tools", "future.mirai", "future.mapreduce", "marshal") +pkgs_mapreduce <- c("future.apply", "doFuture", "furrr") +pkgs_backend <- c("future.batchtools", "future.callr", "future.mirai") +pkgs <- c("globals", "listenv", "parallelly", "future", "future.tests", "progressr", pkgs_mapreduce, pkgs_backend) +pkgs_extra <- c("BiocParallel.FutureParam", "future.tools", "future.mapreduce", "marshal") pkgs <- c(sort(pkgs), pkgs_extra) urls <- sprintf("https://%s.futureverse.org", pkgs) names(urls) <- pkgs @@ -16,7 +18,7 @@ url: https://<%= pkg %>.futureverse.org home: links: - text: Roadmap/Milestones - href: https://github.com/HenrikBengtsson/<%= pkg %>/milestones + href: https://github.com/<%= gsub("(^.*:|[.]git$)", "", subset(gert::git_remote_list(), name == "origin")$url) %>/milestones - text: The Futureverse Project href: https://www.futureverse.org/ - text: Futureverse User Forum @@ -33,7 +35,7 @@ navbar: text: Packages menu: <% for (name in names(urls)) { %> - - text: <%= name %> <% if (name %in% pkgs_extra) { %>(experimental)<% } %> + - text: <%= name %> <% if (name %in% pkgs_extra) { %>(experimental)<% } else if (name %in% pkgs_backend) { %>(backend)<% } else if (name %in% pkgs_mapreduce) { %>(map-reduce)<% } %> href: <%= urls[name] %> <% } %> cran: diff --git a/revdep/README.md b/revdep/README.md index 7033210..c2dfb1a 100644 --- a/revdep/README.md +++ b/revdep/README.md @@ -1,191 +1,208 @@ # Platform -|field |value | -|:--------|:---------------------------------------------------------------| -|version |R version 4.3.3 (2024-02-29) | -|os |CentOS Linux 7 (Core) | -|system |x86_64, linux-gnu | -|ui |X11 | -|language |en | -|collate |en_US.UTF-8 | -|ctype |en_US.UTF-8 | -|tz |America/Los_Angeles | -|date |2024-03-27 | -|pandoc |3.1.11.1 @ /software/c4/cbi/software/pandoc-3.1.11.1/bin/pandoc | +|field |value | +|:--------|:-----------------------------------------------------| +|version |R version 4.4.1 (2024-06-14) | +|os |Rocky Linux 8.10 (Green Obsidian) | +|system |x86_64, linux-gnu | +|ui |X11 | +|language |en | +|collate |en_US.UTF-8 | +|ctype |en_US.UTF-8 | +|tz |America/Los_Angeles | +|date |2024-10-27 | +|pandoc |3.5 @ /software/c4/cbi/software/pandoc-3.5/bin/pandoc | # Dependencies |package |old |new |Δ | |:------------|:------|:-----------|:--| -|future.apply |1.11.1 |1.11.1-9002 |* | -|codetools |0.2-19 |0.2-19 | | -|digest |0.6.35 |0.6.35 | | -|future |1.33.2 |1.33.2 | | +|future.apply |1.11.2 |1.11.2-9002 |* | +|codetools |0.2-20 |0.2-20 | | +|digest |0.6.37 |0.6.37 | | +|future |1.34.0 |1.34.0 | | |globals |0.16.3 |0.16.3 | | |listenv |0.9.1 |0.9.1 | | -|parallelly |1.37.1 |1.37.1 | | +|parallelly |1.38.0 |1.38.0 | | # Revdeps ## New problems (1) -|package |version |error |warning |note | -|:-------|:-------|:-----------|:-------|:----| -|[stars](problems.md#stars)|0.6-4 |1 -1 __+1__ | |2 | +|package |version |error |warning |note | +|:-------|:-------|:-----|:-------|:------| +|[bcmaps](problems.md#bcmaps)|2.2.0 | | |__+1__ | -## All (151) +## All (168) -|package |version |error |warning |note | -|:--------------------------|:----------|:-----------|:-------|:----| -|adestr |0.5.0 | | | | -|[AIPW](problems.md#aipw) |0.6.3.2 | | |1 | -|alphaci |1.0.1 | | | | -|[altdoc](problems.md#altdoc)|0.3.0 |1 | | | -|[arkdb](problems.md#arkdb) |0.0.18 |1 | | | -|aroma.cn |1.7.1 | | | | -|ARPALData |1.5.2 | | | | -|[BAMBI](problems.md#bambi) |2.3.5 | |1 |1 | -|bcmaps |2.2.0 | | | | -|[BEKKs](problems.md#bekks) |1.4.4 | |1 |1 | -|[bigDM](problems.md#bigdm) |0.5.3 | | |2 | -|[blavaan](problems.md#blavaan)|0.5-3 | | |3 | -|bolasso |0.2.0 | | | | -|[brms](problems.md#brms) |2.21.0 | | |2 | -|bsitar |0.2.1 | | | | -|calmr |0.6.1 | | | | -|canaper |1.0.1 | | | | -|[clickR](problems.md#clickr)|0.9.39 | | |1 | -|ClustIRR |1.0.0 | | | | -|codalm |0.1.2 | | | | -|[collinear](problems.md#collinear)|1.1.1 | | |1 | -|conformalInference.fd |1.1.1 | | | | -|conformalInference.multi |1.1.1 | | | | -|[cSEM](problems.md#csem) |0.5.0 | | |1 | -|cvCovEst |1.2.2 | | | | -|DeclareDesign |1.0.8 | | | | -|[deseats](problems.md#deseats)|1.0.0 | |1 |1 | -|[dipsaus](problems.md#dipsaus)|0.2.8 | | |1 | -|disk.frame |0.8.3 | | | | -|doFuture |1.0.1 | | | | -|DQAstats |0.3.3 | | | | -|drtmle |1.1.2 | | | | -|dsos |0.1.2 | | | | -|eCV |0.0.2 | | | | -|[EFAtools](problems.md#efatools)|0.4.4 | |1 |3 | -|EGAnet |2.0.5 | | | | -|[EpiNow2](problems.md#epinow2)|1.4.0 | | |2 | -|epwshiftr |0.1.4 | | | | -|fabletools |0.4.1 | | | | -|fitlandr |0.1.0 | | | | -|[forecastML](problems.md#forecastml)|0.9.0 | | |1 | -|fundiversity |1.1.1 | | | | -|future.batchtools |0.12.1 | | | | -|future.callr |0.8.2 | | | | -|[genBaRcode](problems.md#genbarcode)|1.2.7 | |1 | | -|[geocmeans](problems.md#geocmeans)|0.3.4 | |1 |1 | -|[geohabnet](problems.md#geohabnet)|2.0.0 |1 | | | -|gsdensity |0.1.2 | | | | -|gstat |2.1-1 | | | | -|gWQS |3.0.5 | | | | -|[hackeRnews](problems.md#hackernews)|0.1.0 | | |1 | -|hacksig |0.1.2 | | | | -|haldensify |0.2.3 | | | | -|[hbamr](problems.md#hbamr) |2.2.1 | | |2 | -|[hero](problems.md#hero) |0.6 | | |1 | -|hydroloom |1.0.2 | | | | -|iml |0.11.1 | | | | -|incubate |1.2.1 | | | | -|iNEXT.beta3D |1.0.1 | | | | -|inlinedocs |2023.9.4 | | | | -|[InPAS](problems.md#inpas) |2.10.0 | | |1 | -|isopam |2.0 | | | | -|[ivmte](problems.md#ivmte) |1.4.0 | | |1 | -|kernelboot |0.1.10 | | | | -|[keyATM](problems.md#keyatm)|0.5.1 | | |1 | -|LandComp |0.0.5 | | | | -|lava |1.8.0 | | | | -|LexFindR |1.0.2 | | | | -|lgr |0.4.4 | | | | -|lightr |1.7.1 | | | | -|LTFHPlus |2.1.1 | | | | -|[MAI](problems.md#mai) |1.8.0 | | |1 | -|malariaAtlas |1.5.1 | | | | -|MAMS |2.0.1 | | | | -|mcmcensemble |3.1.0 | | | | -|mcp |0.3.4 | | | | -|merTools |0.6.2 | | | | -|[metabolomicsR](problems.md#metabolomicsr)|1.0.0 | |1 |1 | -|mikropml |1.6.1 | | | | -|[MineICA](problems.md#mineica)|1.42.0 | |3 |4 | -|[missSBM](problems.md#misssbm)|1.0.4 | |1 |1 | -|mlr3 |0.18.0 | | | | -|mlr3db |0.5.2 | | | | -|modelsummary |1.4.5 | | | | -|[MOSS](problems.md#moss) |0.2.2 | |1 | | -|mrgsim.parallel |0.2.1 | | | | -|multiverse |0.6.1 | | | | -|NetSimR |0.1.5 | | | | -|optic |1.0.1 | | | | -|OptimalGoldstandardDesigns |1.0.1 | | | | -|optimLanduse |1.2.1 | | | | -|origami |1.0.7 | | | | -|[pavo](problems.md#pavo) |2.9.0 | |1 |1 | -|pbapply |1.7-2 | | | | -|PeakSegDisk |2023.11.27 | | | | -|penaltyLearning |2024.1.25 | | | | -|[phylolm](problems.md#phylolm)|2.6.2 | | |2 | -|phylopath |1.2.1 | | | | -|[PLNmodels](problems.md#plnmodels)|1.2.0 | |1 |1 | -|polle |1.3 | | | | -|[portvine](problems.md#portvine)|1.0.3 | | |1 | -|progressr |0.14.0 | | | | -|qape |2.1 | | | | -|[QDNAseq](problems.md#qdnaseq)|1.38.0 | | |1 | -|qgcomp |2.15.2 | | | | -|qgcompint |0.7.0 | | | | -|rangeMapper |2.0.3 | | | | -|rBiasCorrection |0.3.4 | | | | -|[receptiviti](problems.md#receptiviti)|0.1.7 |1 | | | -|refineR |1.6.1 | | | | -|[robotstxt](problems.md#robotstxt)|0.7.13 | | |2 | -|rsi |0.1.2 | | | | -|RTransferEntropy |0.2.21 | | | | -|s3fs |0.1.5 | | | | -|scBubbletree |1.4.0 | | | | -|scDiffCom |1.0.0 | | | | -|[sctransform](problems.md#sctransform)|0.4.1 | |1 |1 | -|[sdmApp](problems.md#sdmapp)|0.0.2 | | |1 | -|[sdmTMB](problems.md#sdmtmb)|0.4.3 |1 | |1 | -|semTests |0.5.0 | | | | -|semtree |0.9.19 | | | | -|[sentopics](problems.md#sentopics)|0.7.2 |1 |1 |3 | -|[Seurat](problems.md#seurat)|5.0.3 | | |3 | -|[SeuratObject](problems.md#seuratobject)|5.0.1 | | |3 | -|[sharp](problems.md#sharp) |1.4.6 | | |2 | -|[Signac](problems.md#signac)|1.12.0 | | |1 | -|[signeR](problems.md#signer)|2.4.0 | |1 |4 | -|[SimDesign](problems.md#simdesign)|2.14 |-1 | |1 | -|simglm |0.8.9 | | | | -|sims |0.0.3 | | | | -|[smoots](problems.md#smoots)|1.1.4 | |1 | | -|sNPLS |1.0.27 | | | | -|[solitude](problems.md#solitude)|1.1.3 | | |1 | -|[spaMM](problems.md#spamm) |4.4.16 | | |2 | -|[SPARSEMODr](problems.md#sparsemodr)|1.2.0 | | |1 | -|[spatialwarnings](problems.md#spatialwarnings)|3.0.3 | |2 |1 | -|sperrorest |3.0.5 | | | | -|[spNetwork](problems.md#spnetwork)|0.4.3.8 | |1 |1 | -|[stars](problems.md#stars) |0.6-4 |1 -1 __+1__ | |2 | -|steps |1.3.0 | | | | -|[stppSim](problems.md#stppsim)|1.3.2 | |1 | | -|supercells |1.0.0 | | | | -|[targeted](problems.md#targeted)|0.5 | |1 |1 | -|TaxaNorm |2.4 | | | | -|tidySEM |0.2.6 | | | | -|[TreeMineR](problems.md#treeminer)|1.0.0 | | |1 | -|[tsdistributions](problems.md#tsdistributions)|1.0.0 | |1 |1 | -|[txshift](problems.md#txshift)|0.3.8 | | |1 | -|wildmeta |0.3.2 | | | | -|xegaPopulation |1.0.0.0 | | | | -|[XNAString](problems.md#xnastring)|1.10.0 | |1 |3 | +|package |version |error |warning |note | +|:--------------------------|:---------|:-----|:-------|:------| +|adestr |1.0.0 | | | | +|[AIPW](problems.md#aipw) |0.6.3.2 | | |1 | +|alphaci |1.0.1 | | | | +|[altdoc](problems.md#altdoc)|0.4.0 |1 | | | +|amadeus |1.1.3 | | | | +|ao |1.1.0 | | | | +|arkdb |0.0.18 | | | | +|aroma.cn |1.7.1 | | | | +|ARPALData |1.6.0 | | | | +|[BAMBI](problems.md#bambi) |2.3.6 | | |1 | +|[bcmaps](problems.md#bcmaps)|2.2.0 | | |__+1__ | +|[BEKKs](problems.md#bekks) |1.4.4 | | |1 | +|[bigDM](problems.md#bigdm) |0.5.5 | | |2 | +|[blavaan](problems.md#blavaan)|0.5-6 | | |3 | +|bolasso |0.2.0 | | | | +|[brms](problems.md#brms) |2.22.0 | | |2 | +|bsitar |0.2.1 | | | | +|calmr |0.6.1 | | | | +|canaper |1.0.1 | | | | +|clickR |0.9.43 | | | | +|[codalm](problems.md#codalm)|0.1.2 | | |1 | +|[collinear](problems.md#collinear)|1.1.1 | | |1 | +|conformalInference.fd |1.1.1 | | | | +|conformalInference.multi |1.1.1 | | | | +|[cSEM](problems.md#csem) |0.5.0 | | |2 | +|cvCovEst |1.2.2 | | | | +|DeclareDesign |1.0.10 | | | | +|[deseats](problems.md#deseats)|1.1.0 | | |1 | +|[dipsaus](problems.md#dipsaus)|0.2.9 | | |1 | +|[disk.frame](problems.md#diskframe)|0.8.3 | | |1 | +|doFuture |1.0.1 | | | | +|DQAstats |0.3.5 | | | | +|drtmle |1.1.2 | | | | +|dsos |0.1.2 | | | | +|eCV |0.0.2 | | | | +|[EFAtools](problems.md#efatools)|0.4.4 | | |3 | +|EGAnet |2.0.8 | | | | +|[EpiNow2](problems.md#epinow2)|1.6.0 | | |4 | +|epwshiftr |0.1.4 | | | | +|fabletools |0.5.0 | | | | +|ferrn |0.1.0 | | | | +|fitlandr |0.1.0 | | | | +|[forecastML](problems.md#forecastml)|0.9.0 | | |1 | +|fundiversity |1.1.1 | | | | +|future.batchtools |0.12.1 | | | | +|future.callr |0.8.2 | | | | +|future.mirai |0.2.2 | | | | +|futureverse |0.1.0 | | | | +|genBaRcode |1.2.7 | | | | +|[geocmeans](problems.md#geocmeans)|0.3.4 | | |1 | +|geohabnet |2.1.3 | | | | +|GPCsign |0.1.0 | | | | +|gstat |2.1-2 | | | | +|gWQS |3.0.5 | | | | +|[hackeRnews](problems.md#hackernews)|0.1.0 | | |1 | +|hacksig |0.1.2 | | | | +|haldensify |0.2.3 | | | | +|[hbamr](problems.md#hbamr) |2.3.2 | | |2 | +|[hero](problems.md#hero) |0.6 | | |3 | +|[hydroloom](problems.md#hydroloom)|1.1.0 | | |1 | +|iml |0.11.3 | | | | +|incubate |1.3.0 | | | | +|iNEXT.beta3D |1.0.2 | | | | +|inlinedocs |2023.9.4 | | | | +|[InPAS](problems.md#inpas) |2.12.0 | |1 |2 | +|isopam |2.0 | | | | +|[ivmte](problems.md#ivmte) |1.4.0 | | |2 | +|kappaGold |0.3.2 | | | | +|kernelboot |0.1.10 | | | | +|[keyATM](problems.md#keyatm)|0.5.2 | | |1 | +|[kmeRtone](problems.md#kmertone)|1.0 | | |2 | +|LandComp |0.0.5 | | | | +|[lava](problems.md#lava) |1.8.0 | | |1 | +|LexFindR |1.1.0 | | | | +|lgr |0.4.4 | | | | +|[lightr](problems.md#lightr)|1.7.1 | | |2 | +|LTFHPlus |2.1.1 | | | | +|[MAI](problems.md#mai) |1.10.0 | | |1 | +|malariaAtlas |1.6.3 | | | | +|MAMS |3.0.0 | | | | +|marginaleffects |0.23.0 | | | | +|mcmcensemble |3.1.0 | | | | +|[mcp](problems.md#mcp) |0.3.4 |1 | | | +|merTools |0.6.2 | | | | +|[mikropml](problems.md#mikropml)|1.6.1 | | |1 | +|[MineICA](problems.md#mineica)|1.44.0 | |4 |4 | +|[missSBM](problems.md#misssbm)|1.0.4 | | |1 | +|mlr3 |0.21.1 | | | | +|mlr3db |0.5.2 | | | | +|mlr3summary |0.1.0 | | | | +|modelsummary |2.2.0 | | | | +|[MOSS](problems.md#moss) |0.2.2 | | |2 | +|mrgsim.parallel |0.2.1 | | | | +|NetSimR |0.1.5 | | | | +|[nhdplusTools](problems.md#nhdplustools)|1.2.1 | | |1 | +|nixtlar |0.6.1 | | | | +|optic |1.0.1 | | | | +|[OptimalGoldstandardDesigns](problems.md#optimalgoldstandarddesigns)|1.0.1 | | |1 | +|optimLanduse |1.2.1 | | | | +|origami |1.0.7 | | | | +|[pavo](problems.md#pavo) |2.9.0 | |1 | | +|pbapply |1.7-2 | | | | +|PeakSegDisk |2024.10.1 | | | | +|penaltyLearning |2024.9.3 | | | | +|[phylolm](problems.md#phylolm)|2.6.5 | | |1 | +|phylopath |1.3.0 | | | | +|[PLNmodels](problems.md#plnmodels)|1.2.0 | | |1 | +|polle |1.5 | | | | +|[portvine](problems.md#portvine)|1.0.3 | | |1 | +|powRICLPM |0.2.1 | | | | +|progressr |0.14.0 | | | | +|[qape](problems.md#qape) |2.1 | | |1 | +|QBMS |1.5.0 | | | | +|[QDNAseq](problems.md#qdnaseq)|1.40.0 | |1 |1 | +|[qgcomp](problems.md#qgcomp)|2.15.2 | | |1 | +|qgcompint |0.7.0 | | | | +|rangeMapper |2.0.3 | | | | +|rBiasCorrection |0.3.4 | | | | +|readsdr |0.3.0 | | | | +|[receptiviti](problems.md#receptiviti)|0.1.8 |1 | | | +|refineR |1.6.2 | | |-1 | +|restriktor |0.5-90 | | | | +|robotstxt |0.7.15 | | | | +|rsi |0.3.1 | | | | +|RTransferEntropy |0.2.21 | | | | +|s3fs |0.1.7 | | | | +|scBubbletree |1.6.0 | | | | +|scDiffCom |1.0.0 | | | | +|[sctransform](problems.md#sctransform)|0.4.1 | | |1 | +|[sdmTMB](problems.md#sdmtmb)|0.6.0 | | |1 | +|semTests |0.5.0 | | | | +|semtree |0.9.20 | | | | +|[sentopics](problems.md#sentopics)|0.7.4 | | |3 | +|[Seurat](problems.md#seurat)|5.1.0 | | |3 | +|[SeuratObject](problems.md#seuratobject)|5.0.2 | | |3 | +|[sharp](problems.md#sharp) |1.4.6 | | |2 | +|[Signac](problems.md#signac)|1.14.0 | | |1 | +|[signeR](problems.md#signer)|2.6.0 | | |4 | +|[SimDesign](problems.md#simdesign)|2.17.1 | | |1 | +|simglm |0.8.9 | | | | +|sims |0.0.4 | | | | +|[smoots](problems.md#smoots)|1.1.4 | | |1 | +|sNPLS |1.0.27 | | | | +|[solitude](problems.md#solitude)|1.1.3 | | |1 | +|[spaMM](problems.md#spamm) |4.5.0 | | |2 | +|[SPARSEMODr](problems.md#sparsemodr)|1.2.0 | | |1 | +|[spatialwarnings](problems.md#spatialwarnings)|3.1.0 | | |1 | +|[sperrorest](problems.md#sperrorest)|3.0.5 | | |1 | +|[spNetwork](problems.md#spnetwork)|0.4.4.3 | | |1 | +|spStack |1.0.1 | | | | +|[stars](problems.md#stars) |0.6-6 |1 | |2 | +|steps |1.3.0 | | | | +|[stppSim](problems.md#stppsim)|1.3.4 | |1 | | +|supercells |1.0.0 | | | | +|[targeted](problems.md#targeted)|0.5 | | |1 | +|TaxaNorm |2.4 | | | | +|tidySEM |0.2.7 | | | | +|[tramvs](problems.md#tramvs)|0.0-6 | |1 | | +|[TreeMineR](problems.md#treeminer)|1.0.2 | | |1 | +|[tsdistributions](problems.md#tsdistributions)|1.0.2 |1 | |1 | +|[tsgarch](problems.md#tsgarch)|1.0.3 | | |1 | +|[txshift](problems.md#txshift)|0.3.8 | | |2 | +|[vital](problems.md#vital) |1.1.0 | | |1 | +|wildmeta |0.3.2 | | | | +|[winputall](problems.md#winputall)|1.0.1 | | |2 | +|xegaPopulation |1.0.0.0 | | | | +|[XNAString](problems.md#xnastring)|1.12.0 | |1 |3 | +|ycevo |0.2.1 | | | | diff --git a/revdep/cran.md b/revdep/cran.md index c0ba22a..5dbaa2a 100644 --- a/revdep/cran.md +++ b/revdep/cran.md @@ -1,6 +1,6 @@ ## revdepcheck results -We checked 151 reverse dependencies (143 from CRAN + 8 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package. +We checked 168 reverse dependencies (161 from CRAN + 7 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package. * We saw 1 new problems * We failed to check 0 packages @@ -10,6 +10,6 @@ Issues with CRAN packages are summarised below. ### New problems (This reports the first line of each new failure) -* stars - checking examples ...sh: line 1: 39634 Aborted (core dumped) LANGUAGE=en _R_CHECK_INTERNALS2_=1 '/software/c4/cbi/software/_centos7/R-4.3.3-gcc10/lib64/R/bin/R' --vanilla --encoding=UTF-8 > 'stars-Ex.Rout' 2>&1 < 'stars-Ex.R' +* bcmaps + checking installed package size ... NOTE diff --git a/revdep/problems.md b/revdep/problems.md index 54d45fb..f63a4ce 100644 --- a/revdep/problems.md +++ b/revdep/problems.md @@ -8,7 +8,7 @@ * Date/Publication: 2021-06-11 09:30:02 UTC * Number of recursive dependencies: 99 -Run `revdep_details(, "AIPW")` for more info +Run `revdepcheck::revdep_details(, "AIPW")` for more info @@ -26,13 +26,13 @@ Run `revdep_details(, "AIPW")` for more info
-* Version: 0.3.0 +* Version: 0.4.0 * GitHub: https://github.com/etiennebacher/altdoc * Source code: https://github.com/cran/altdoc -* Date/Publication: 2024-02-21 16:00:06 UTC -* Number of recursive dependencies: 84 +* Date/Publication: 2024-07-23 21:10:02 UTC +* Number of recursive dependencies: 85 -Run `revdep_details(, "altdoc")` for more info +Run `revdepcheck::revdep_details(, "altdoc")` for more info
@@ -45,95 +45,69 @@ Run `revdep_details(, "altdoc")` for more info ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: - v Setting active project to '' - v Setting active project to '/scratch/henrik/1734856/Rtmp4zaexs/testpkg26e50316e2aed' - v Setting active project to '' - v Setting active project to '/scratch/henrik/1734856/Rtmp4zaexs/testpkg26e503ae1d67b' - v Setting active project to '' + 5. │ │ └─base::withCallingHandlers(...) + 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) + 7. └─altdoc::render_docs(path = getwd()) + 8. └─altdoc:::.import_vignettes(...) + 9. └─base::vapply(...) ... - Error in `render_docs(path = getwd())`: There were some failures when rendering vignettes. - Backtrace: - ▆ - 1. └─altdoc::render_docs(path = getwd()) at test-update.R:111:5 - 2. └─cli::cli_abort("There were some failures when rendering vignettes.") - 3. └─rlang::abort(...) + 2. └─altdoc:::.import_vignettes(...) + 3. └─base::vapply(...) + 4. └─altdoc (local) FUN(X[[i]], ...) + 5. └─altdoc:::.render_one_vignette(...) + 6. └─altdoc:::.qmd2md(origin, tar_dir, verbose = verbose, preamble = pre) + 7. └─base::cat(out[[2]]) - [ FAIL 5 | WARN 0 | SKIP 7 | PASS 56 ] + [ FAIL 8 | WARN 0 | SKIP 8 | PASS 55 ] Error: Test failures Execution halted ``` -# arkdb +# BAMBI
-* Version: 0.0.18 -* GitHub: https://github.com/ropensci/arkdb -* Source code: https://github.com/cran/arkdb -* Date/Publication: 2024-01-16 00:20:02 UTC -* Number of recursive dependencies: 96 +* Version: 2.3.6 +* GitHub: https://github.com/c7rishi/BAMBI +* Source code: https://github.com/cran/BAMBI +* Date/Publication: 2024-10-25 13:30:02 UTC +* Number of recursive dependencies: 53 -Run `revdep_details(, "arkdb")` for more info +Run `revdepcheck::revdep_details(, "BAMBI")` for more info
## In both -* checking tests ... +* checking installed package size ... NOTE ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Last 50 lines of output: - 6. ├─ParquetFileWriter$create(...) - 7. │ └─arrow:::parquet___arrow___ParquetFileWriter__Open(...) - 8. └─ParquetWriterProperties$create(...) - 9. └─arrow:::parquet___WriterProperties___Builder__create() - ── Error ('test-arkdb.R:315:3'): e2e with filter for flights month = 12: parquet ── - ... - 3: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. - 4: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. - 5: Connection is garbage-collected, use dbDisconnect() to avoid this. - 6: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. - 7: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. - 8: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. - Execution halted - Warning messages: - 1: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. - 2: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. + installed size is 7.9Mb + sub-directories of 1Mb or more: + libs 7.4Mb ``` -# BAMBI +# bcmaps
-* Version: 2.3.5 -* GitHub: https://github.com/c7rishi/BAMBI -* Source code: https://github.com/cran/BAMBI -* Date/Publication: 2023-03-08 23:10:05 UTC -* Number of recursive dependencies: 53 +* Version: 2.2.0 +* GitHub: https://github.com/bcgov/bcmaps +* Source code: https://github.com/cran/bcmaps +* Date/Publication: 2024-01-24 14:53:09 UTC +* Number of recursive dependencies: 126 -Run `revdep_details(, "BAMBI")` for more info +Run `revdepcheck::revdep_details(, "bcmaps")` for more info
-## In both - -* checking whether package ‘BAMBI’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/BAMBI/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/BAMBI/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/BAMBI/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/BAMBI/new/BAMBI.Rcheck/00install.out’ for details. - ``` +## Newly broken * checking installed package size ... NOTE ``` - installed size is 7.3Mb + installed size is 6.2Mb sub-directories of 1Mb or more: - libs 6.8Mb + R 1.4Mb + doc 4.5Mb ``` # BEKKs @@ -146,39 +120,30 @@ Run `revdep_details(, "BAMBI")` for more info * Date/Publication: 2024-01-14 15:50:09 UTC * Number of recursive dependencies: 86 -Run `revdep_details(, "BEKKs")` for more info +Run `revdepcheck::revdep_details(, "BEKKs")` for more info ## In both -* checking whether package ‘BEKKs’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/BEKKs/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/BEKKs/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/BEKKs/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/BEKKs/new/BEKKs.Rcheck/00install.out’ for details. - ``` - * checking installed package size ... NOTE ``` - installed size is 18.5Mb + installed size is 18.8Mb sub-directories of 1Mb or more: - libs 17.6Mb + libs 17.8Mb ``` # bigDM
-* Version: 0.5.3 +* Version: 0.5.5 * GitHub: https://github.com/spatialstatisticsupna/bigDM * Source code: https://github.com/cran/bigDM -* Date/Publication: 2023-10-17 12:50:02 UTC +* Date/Publication: 2024-08-19 12:00:10 UTC * Number of recursive dependencies: 128 -Run `revdep_details(, "bigDM")` for more info +Run `revdepcheck::revdep_details(, "bigDM")` for more info
@@ -198,13 +163,13 @@ Run `revdep_details(, "bigDM")` for more info
-* Version: 0.5-3 +* Version: 0.5-6 * GitHub: https://github.com/ecmerkle/blavaan * Source code: https://github.com/cran/blavaan -* Date/Publication: 2024-01-19 22:50:02 UTC -* Number of recursive dependencies: 98 +* Date/Publication: 2024-09-04 22:50:02 UTC +* Number of recursive dependencies: 97 -Run `revdep_details(, "blavaan")` for more info +Run `revdepcheck::revdep_details(, "blavaan")` for more info
@@ -217,10 +182,10 @@ Run `revdep_details(, "blavaan")` for more info * checking installed package size ... NOTE ``` - installed size is 196.2Mb + installed size is 187.8Mb sub-directories of 1Mb or more: R 1.2Mb - libs 193.4Mb + libs 184.9Mb testdata 1.4Mb ``` @@ -233,13 +198,13 @@ Run `revdep_details(, "blavaan")` for more info
-* Version: 2.21.0 +* Version: 2.22.0 * GitHub: https://github.com/paul-buerkner/brms * Source code: https://github.com/cran/brms -* Date/Publication: 2024-03-20 12:30:08 UTC -* Number of recursive dependencies: 201 +* Date/Publication: 2024-09-23 13:00:29 UTC +* Number of recursive dependencies: 204 -Run `revdep_details(, "brms")` for more info +Run `revdepcheck::revdep_details(, "brms")` for more info
@@ -252,31 +217,37 @@ Run `revdep_details(, "brms")` for more info * checking installed package size ... NOTE ``` - installed size is 8.4Mb + installed size is 8.8Mb sub-directories of 1Mb or more: - R 3.7Mb - doc 3.5Mb + R 3.8Mb + doc 3.6Mb ``` -# clickR +# codalm
-* Version: 0.9.39 -* GitHub: NA -* Source code: https://github.com/cran/clickR -* Date/Publication: 2023-08-07 17:40:06 UTC -* Number of recursive dependencies: 9 +* Version: 0.1.2 +* GitHub: https://github.com/jfiksel/codalm +* Source code: https://github.com/cran/codalm +* Date/Publication: 2021-07-26 18:40:02 UTC +* Number of recursive dependencies: 57 -Run `revdep_details(, "clickR")` for more info +Run `revdepcheck::revdep_details(, "codalm")` for more info
## In both -* checking data for non-ASCII characters ... NOTE +* checking Rd files ... NOTE ``` - Note: found 1 marked UTF-8 string + checkRd: (-1) educFM.Rd:22: Lost braces in \itemize; meant \describe ? + checkRd: (-1) educFM.Rd:23: Lost braces in \itemize; meant \describe ? + checkRd: (-1) educFM.Rd:24: Lost braces in \itemize; meant \describe ? + checkRd: (-1) educFM.Rd:25: Lost braces in \itemize; meant \describe ? + checkRd: (-1) educFM.Rd:26: Lost braces in \itemize; meant \describe ? + checkRd: (-1) educFM.Rd:27: Lost braces in \itemize; meant \describe ? + checkRd: (-1) educFM.Rd:28: Lost braces in \itemize; meant \describe ? ``` # collinear @@ -289,7 +260,7 @@ Run `revdep_details(, "clickR")` for more info * Date/Publication: 2023-12-08 08:50:02 UTC * Number of recursive dependencies: 55 -Run `revdep_details(, "collinear")` for more info +Run `revdepcheck::revdep_details(, "collinear")` for more info @@ -309,9 +280,9 @@ Run `revdep_details(, "collinear")` for more info * GitHub: https://github.com/M-E-Rademaker/cSEM * Source code: https://github.com/cran/cSEM * Date/Publication: 2022-11-24 17:50:05 UTC -* Number of recursive dependencies: 127 +* Number of recursive dependencies: 128 -Run `revdep_details(, "cSEM")` for more info +Run `revdepcheck::revdep_details(, "cSEM")` for more info @@ -323,49 +294,47 @@ Run `revdep_details(, "cSEM")` for more info All declared Imports should be used. ``` +* checking Rd files ... NOTE + ``` + checkRd: (-1) calculateEffects.Rd:24: Lost braces; missing escapes or markup? + 24 | equals (I-B)^{-1}Gamma. The indirect effect equals the difference between + | ^ + ``` + # deseats
-* Version: 1.0.0 +* Version: 1.1.0 * GitHub: NA * Source code: https://github.com/cran/deseats -* Date/Publication: 2023-11-08 19:50:02 UTC -* Number of recursive dependencies: 108 +* Date/Publication: 2024-07-12 10:50:15 UTC +* Number of recursive dependencies: 115 -Run `revdep_details(, "deseats")` for more info +Run `revdepcheck::revdep_details(, "deseats")` for more info
## In both -* checking whether package ‘deseats’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/deseats/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/deseats/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/deseats/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/deseats/new/deseats.Rcheck/00install.out’ for details. - ``` - * checking installed package size ... NOTE ``` - installed size is 8.3Mb + installed size is 8.6Mb sub-directories of 1Mb or more: - libs 7.6Mb + libs 7.8Mb ``` # dipsaus
-* Version: 0.2.8 +* Version: 0.2.9 * GitHub: https://github.com/dipterix/dipsaus * Source code: https://github.com/cran/dipsaus -* Date/Publication: 2023-07-03 20:00:03 UTC +* Date/Publication: 2024-06-27 11:10:01 UTC * Number of recursive dependencies: 69 -Run `revdep_details(, "dipsaus")` for more info +Run `revdepcheck::revdep_details(, "dipsaus")` for more info
@@ -373,10 +342,36 @@ Run `revdep_details(, "dipsaus")` for more info * checking installed package size ... NOTE ``` - installed size is 5.9Mb + installed size is 6.7Mb sub-directories of 1Mb or more: doc 1.1Mb - libs 3.5Mb + libs 4.2Mb + ``` + +# disk.frame + +
+ +* Version: 0.8.3 +* GitHub: https://github.com/DiskFrame/disk.frame +* Source code: https://github.com/cran/disk.frame +* Date/Publication: 2023-08-24 16:20:10 UTC +* Number of recursive dependencies: 98 + +Run `revdepcheck::revdep_details(, "disk.frame")` for more info + +
+ +## In both + +* checking Rd files ... NOTE + ``` + checkRd: (-1) csv_to_disk.frame.Rd:56: Lost braces; missing escapes or markup? + 56 | strings, and you are encouraged to use {fasttime} to convert the strings to + | ^ + checkRd: (-1) purrr_as_mapper.Rd:10: Lost braces; missing escapes or markup? + 10 | \item{.f}{a normal function or purrr syntax function i.e. `~{ ...code...}`} + | ^ ``` # EFAtools @@ -389,21 +384,12 @@ Run `revdep_details(, "dipsaus")` for more info * Date/Publication: 2023-01-06 14:50:40 UTC * Number of recursive dependencies: 93 -Run `revdep_details(, "EFAtools")` for more info +Run `revdepcheck::revdep_details(, "EFAtools")` for more info ## In both -* checking whether package ‘EFAtools’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/EFAtools/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/EFAtools/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/EFAtools/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/EFAtools/new/EFAtools.Rcheck/00install.out’ for details. - ``` - * checking C++ specification ... NOTE ``` Specified C++11: please drop specification unless essential @@ -411,9 +397,9 @@ Run `revdep_details(, "EFAtools")` for more info * checking installed package size ... NOTE ``` - installed size is 7.2Mb + installed size is 7.5Mb sub-directories of 1Mb or more: - libs 6.0Mb + libs 6.2Mb ``` * checking dependencies in R code ... NOTE @@ -426,24 +412,35 @@ Run `revdep_details(, "EFAtools")` for more info
-* Version: 1.4.0 +* Version: 1.6.0 * GitHub: https://github.com/epiforecasts/EpiNow2 * Source code: https://github.com/cran/EpiNow2 -* Date/Publication: 2023-09-26 12:00:02 UTC -* Number of recursive dependencies: 130 +* Date/Publication: 2024-10-02 20:20:22 UTC +* Number of recursive dependencies: 132 -Run `revdep_details(, "EpiNow2")` for more info +Run `revdepcheck::revdep_details(, "EpiNow2")` for more info
## In both +* checking package dependencies ... NOTE + ``` + Package suggested but not available for checking: ‘cmdstanr’ + ``` + * checking installed package size ... NOTE ``` - installed size is 223.7Mb + installed size is 240.1Mb sub-directories of 1Mb or more: - help 2.0Mb - libs 220.8Mb + doc 1.4Mb + extdata 2.3Mb + libs 234.9Mb + ``` + +* checking Rd cross-references ... NOTE + ``` + Package unavailable to check Rd xrefs: ‘cmdstanr’ ``` * checking for GNU extensions in Makefiles ... NOTE @@ -461,7 +458,7 @@ Run `revdep_details(, "EpiNow2")` for more info * Date/Publication: 2020-05-07 15:10:17 UTC * Number of recursive dependencies: 104 -Run `revdep_details(, "forecastML")` for more info +Run `revdepcheck::revdep_details(, "forecastML")` for more info @@ -473,47 +470,6 @@ Run `revdep_details(, "forecastML")` for more info All declared Imports should be used. ``` -# genBaRcode - -
- -* Version: 1.2.7 -* GitHub: NA -* Source code: https://github.com/cran/genBaRcode -* Date/Publication: 2023-12-11 13:10:05 UTC -* Number of recursive dependencies: 160 - -Run `revdep_details(, "genBaRcode")` for more info - -
- -## In both - -* checking re-building of vignette outputs ... WARNING - ``` - Error(s) in re-building vignettes: - --- re-building ‘genBaRcode_GUI_Vignette.Rmd’ using rmarkdown - ! LaTeX Error: File `iftex.sty' not found. - - ! Emergency stop. - - - Error: processing vignette 'genBaRcode_GUI_Vignette.Rmd' failed with diagnostics: - LaTeX failed to compile /c4/home/henrik/repositories/future.apply/revdep/checks/genBaRcode/new/genBaRcode.Rcheck/vign_test/genBaRcode/vignettes/genBaRcode_GUI_Vignette.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See genBaRcode_GUI_Vignette.log for more info. - --- failed re-building ‘genBaRcode_GUI_Vignette.Rmd’ - ... - - Error: processing vignette 'genBaRcode_Vignette.Rmd' failed with diagnostics: - LaTeX failed to compile /c4/home/henrik/repositories/future.apply/revdep/checks/genBaRcode/new/genBaRcode.Rcheck/vign_test/genBaRcode/vignettes/genBaRcode_Vignette.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See genBaRcode_Vignette.log for more info. - --- failed re-building ‘genBaRcode_Vignette.Rmd’ - - SUMMARY: processing the following files failed: - ‘genBaRcode_GUI_Vignette.Rmd’ ‘genBaRcode_Vignette.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - # geocmeans
@@ -522,70 +478,20 @@ Run `revdep_details(, "genBaRcode")` for more info * GitHub: https://github.com/JeremyGelb/geocmeans * Source code: https://github.com/cran/geocmeans * Date/Publication: 2023-09-12 03:10:02 UTC -* Number of recursive dependencies: 197 +* Number of recursive dependencies: 200 -Run `revdep_details(, "geocmeans")` for more info +Run `revdepcheck::revdep_details(, "geocmeans")` for more info
## In both -* checking whether package ‘geocmeans’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/geocmeans/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/geocmeans/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/geocmeans/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/geocmeans/new/geocmeans.Rcheck/00install.out’ for details. - ``` - * checking installed package size ... NOTE ``` - installed size is 13.5Mb + installed size is 14.4Mb sub-directories of 1Mb or more: extdata 3.0Mb - libs 8.2Mb - ``` - -# geohabnet - -
- -* Version: 2.0.0 -* GitHub: https://github.com/GarrettLab/HabitatConnectivity -* Source code: https://github.com/cran/geohabnet -* Date/Publication: 2024-02-27 19:50:02 UTC -* Number of recursive dependencies: 134 - -Run `revdep_details(, "geohabnet")` for more info - -
- -## In both - -* checking re-building of vignette outputs ... ERROR - ``` - Error(s) in re-building vignettes: - --- re-building ‘LinkWeightsAnalysis.Rmd’ using rmarkdown - trying URL 'https://s3.us-east-2.amazonaws.com/earthstatdata/HarvestedAreaYield175Crops_Indvidual_Geotiff/potato_HarvAreaYield_Geotiff.zip' - Content type 'application/zip' length 10812124 bytes (10.3 MB) - ================================================== - downloaded 10.3 MB - - trying URL 'https://geohabnet.s3.us-east-2.amazonaws.com/util-rasters/ZeroRaster.tif' - Content type 'image/tiff' length 1056851 bytes (1.0 MB) - ================================================== - ... - Quitting from lines 108-109 [unnamed-chunk-5] (analysis.Rmd) - Error: processing vignette 'analysis.Rmd' failed with diagnostics: - (/c4/home/henrik/.config/R/geohabnet/parameters.yaml) Duplicate map key: 'default' - --- failed re-building ‘analysis.Rmd’ - - SUMMARY: processing the following file failed: - ‘analysis.Rmd’ - - Error: Vignette re-building failed. - Execution halted + libs 9.0Mb ``` # hackeRnews @@ -598,7 +504,7 @@ Run `revdep_details(, "geohabnet")` for more info * Date/Publication: 2019-12-13 13:20:05 UTC * Number of recursive dependencies: 68 -Run `revdep_details(, "hackeRnews")` for more info +Run `revdepcheck::revdep_details(, "hackeRnews")` for more info @@ -613,13 +519,13 @@ Run `revdep_details(, "hackeRnews")` for more info
-* Version: 2.2.1 +* Version: 2.3.2 * GitHub: https://github.com/jbolstad/hbamr * Source code: https://github.com/cran/hbamr -* Date/Publication: 2024-02-23 12:30:02 UTC +* Date/Publication: 2024-09-23 12:20:07 UTC * Number of recursive dependencies: 90 -Run `revdep_details(, "hbamr")` for more info +Run `revdepcheck::revdep_details(, "hbamr")` for more info
@@ -627,9 +533,9 @@ Run `revdep_details(, "hbamr")` for more info * checking installed package size ... NOTE ``` - installed size is 353.1Mb + installed size is 342.4Mb sub-directories of 1Mb or more: - libs 351.6Mb + libs 340.8Mb ``` * checking for GNU extensions in Makefiles ... NOTE @@ -645,51 +551,82 @@ Run `revdep_details(, "hbamr")` for more info * GitHub: NA * Source code: https://github.com/cran/hero * Date/Publication: 2023-07-15 21:10:09 UTC -* Number of recursive dependencies: 160 +* Number of recursive dependencies: 159 -Run `revdep_details(, "hero")` for more info +Run `revdepcheck::revdep_details(, "hero")` for more info ## In both -* checking dependencies in R code ... NOTE +* checking package dependencies ... NOTE ``` - [c4-n1:91644] OPAL ERROR: Not initialized in file pmix2x_client.c at line 109 - -------------------------------------------------------------------------- - The application appears to have been direct launched using "srun", - but OMPI was not built with SLURM's PMI support and therefore cannot - execute. There are several options for building PMI support under - SLURM, depending upon the SLURM version you are using: - - version 16.05 or later: you can use SLURM's PMIx support. This - requires that you configure and build SLURM --with-pmix. - - Versions earlier than 16.05: you must use either SLURM's PMI-1 or - PMI-2 support. SLURM builds PMI-1 by default, or you can manually - install PMI-2. You must then build Open MPI using --with-pmi pointing - to the SLURM PMI library location. - - Please configure as appropriate and try again. - -------------------------------------------------------------------------- + Package suggested but not available for checking: ‘Rmpi’ + ``` + +* checking Rd files ... NOTE + ``` + checkRd: (-1) hero.Rd:67-68: Lost braces + 67 | then \code{\link[pbapply]{pblapply}} is used. If code{package == + | ^ + checkRd: (-1) hero.Rd:69: Lost braces + 69 | code{package == "Rmpi"}, then \code{\link[Rmpi]{mpi.applyLB}} is used.} + | ^ + ``` + +* checking Rd cross-references ... NOTE + ``` + Package unavailable to check Rd xrefs: ‘Rmpi’ + ``` + +# hydroloom + +
+ +* Version: 1.1.0 +* GitHub: https://github.com/DOI-USGS/hydroloom +* Source code: https://github.com/cran/hydroloom +* Date/Publication: 2024-08-26 06:20:02 UTC +* Number of recursive dependencies: 147 + +Run `revdepcheck::revdep_details(, "hydroloom")` for more info + +
+ +## In both + +* checking package dependencies ... NOTE + ``` + Package suggested but not available for checking: ‘nhdplusTools’ ``` # InPAS
-* Version: 2.10.0 +* Version: 2.12.0 * GitHub: NA * Source code: https://github.com/cran/InPAS -* Date/Publication: 2023-10-24 -* Number of recursive dependencies: 171 +* Date/Publication: 2024-04-30 +* Number of recursive dependencies: 165 -Run `revdep_details(, "InPAS")` for more info +Run `revdepcheck::revdep_details(, "InPAS")` for more info
## In both +* checking Rd cross-references ... WARNING + ``` + Missing link or links in Rd file 'get_ssRleCov.Rd': + ‘[BSgenome:BSgenomeForge]{BSgenome::forgeBSgenomeDataPkg()}’ + + Missing link or links in Rd file 'set_globals.Rd': + ‘[BSgenome:BSgenomeForge]{BSgenome::forgeBSgenomeDataPkg()}’ + + See section 'Cross-references' in the 'Writing R Extensions' manual. + ``` + * checking dependencies in R code ... NOTE ``` There are ::: calls to the package's namespace in its code. A package @@ -700,6 +637,18 @@ Run `revdep_details(, "InPAS")` for more info ‘search_distalCPs’ ‘search_proximalCPs’ ``` +* checking Rd \usage sections ... NOTE + ``` + Documented arguments not in \usage in Rd file 'get_UTR3TotalCov.Rd': + ‘gcCompensationensation’ + + Functions with \usage entries need to have the appropriate \alias + entries, and all their arguments documented. + The \usage entries must correspond to syntactically valid R code. + See chapter ‘Writing R documentation files’ in the ‘Writing R + Extensions’ manual. + ``` + # ivmte
@@ -708,9 +657,9 @@ Run `revdep_details(, "InPAS")` for more info * GitHub: NA * Source code: https://github.com/cran/ivmte * Date/Publication: 2021-09-17 12:20:07 UTC -* Number of recursive dependencies: 112 +* Number of recursive dependencies: 116 -Run `revdep_details(, "ivmte")` for more info +Run `revdepcheck::revdep_details(, "ivmte")` for more info
@@ -721,17 +670,27 @@ Run `revdep_details(, "ivmte")` for more info Packages suggested but not available for checking: 'gurobi', 'cplexAPI' ``` +* checking Rd files ... NOTE + ``` + checkRd: (-1) sTsls.Rd:17: Lost braces; missing escapes or markup? + 17 | \item{pi}{the matrix E[XZ']E[ZZ']^{-1}} + | ^ + checkRd: (-1) sTslsSplines.Rd:20: Lost braces; missing escapes or markup? + 20 | \item{pi}{matrix, corresponds to E[XZ']E[ZZ']^{-1}, the first stage + | ^ + ``` + # keyATM
-* Version: 0.5.1 +* Version: 0.5.2 * GitHub: https://github.com/keyATM/keyATM * Source code: https://github.com/cran/keyATM -* Date/Publication: 2024-02-04 23:30:02 UTC -* Number of recursive dependencies: 107 +* Date/Publication: 2024-04-24 14:50:06 UTC +* Number of recursive dependencies: 101 -Run `revdep_details(, "keyATM")` for more info +Run `revdepcheck::revdep_details(, "keyATM")` for more info
@@ -739,22 +698,97 @@ Run `revdep_details(, "keyATM")` for more info * checking installed package size ... NOTE ``` - installed size is 24.7Mb + installed size is 25.4Mb sub-directories of 1Mb or more: - libs 24.3Mb + libs 24.9Mb ``` -# MAI +# kmeRtone + +
+ +* Version: 1.0 +* GitHub: https://github.com/SahakyanLab/kmeRtone +* Source code: https://github.com/cran/kmeRtone +* Date/Publication: 2024-08-30 10:50:06 UTC +* Number of recursive dependencies: 82 + +Run `revdepcheck::revdep_details(, "kmeRtone")` for more info + +
+ +## In both + +* checking installed package size ... NOTE + ``` + installed size is 9.9Mb + sub-directories of 1Mb or more: + libs 8.4Mb + ``` + +* checking for GNU extensions in Makefiles ... NOTE + ``` + GNU make is a SystemRequirements. + ``` + +# lava
* Version: 1.8.0 +* GitHub: https://github.com/kkholst/lava +* Source code: https://github.com/cran/lava +* Date/Publication: 2024-03-05 13:00:02 UTC +* Number of recursive dependencies: 131 + +Run `revdepcheck::revdep_details(, "lava")` for more info + +
+ +## In both + +* checking package dependencies ... NOTE + ``` + Package suggested but not available for checking: ‘lavaSearch2’ + ``` + +# lightr + +
+ +* Version: 1.7.1 +* GitHub: https://github.com/ropensci/lightr +* Source code: https://github.com/cran/lightr +* Date/Publication: 2024-03-21 21:50:10 UTC +* Number of recursive dependencies: 92 + +Run `revdepcheck::revdep_details(, "lightr")` for more info + +
+ +## In both + +* checking package dependencies ... NOTE + ``` + Package suggested but not available for checking: ‘pavo’ + ``` + +* checking Rd cross-references ... NOTE + ``` + Package unavailable to check Rd xrefs: ‘pavo’ + ``` + +# MAI + +
+ +* Version: 1.10.0 * GitHub: https://github.com/KechrisLab/MAI * Source code: https://github.com/cran/MAI -* Date/Publication: 2023-10-24 -* Number of recursive dependencies: 178 +* Date/Publication: 2024-04-30 +* Number of recursive dependencies: 176 -Run `revdep_details(, "MAI")` for more info +Run `revdepcheck::revdep_details(, "MAI")` for more info
@@ -767,43 +801,93 @@ Run `revdep_details(, "MAI")` for more info is not mentioned in the DESCRIPTION file. ``` -# metabolomicsR +# mcp
-* Version: 1.0.0 -* GitHub: https://github.com/XikunHan/metabolomicsR -* Source code: https://github.com/cran/metabolomicsR -* Date/Publication: 2022-04-29 07:40:02 UTC -* Number of recursive dependencies: 182 +* Version: 0.3.4 +* GitHub: https://github.com/lindeloev/mcp +* Source code: https://github.com/cran/mcp +* Date/Publication: 2024-03-17 20:10:02 UTC +* Number of recursive dependencies: 100 -Run `revdep_details(, "metabolomicsR")` for more info +Run `revdepcheck::revdep_details(, "mcp")` for more info
## In both -* checking dependencies in R code ... WARNING +* checking tests ... ``` - Missing or unexported object: ‘future::multiprocess’ + Running ‘testthat.R’ + ERROR + Running the tests in ‘tests/testthat.R’ failed. + Last 50 lines of output: + 6. └─mcp::criterion(x, "loo", ...) + 7. └─base::nrow(fit$mcmc_post[[1]]) + ── Failure ('test-runs-sigma-arma.R:74:1'): good_arma_essential: + y ~ 1, ~0 + ar(2) ── + Got an unknown warning: + -------------- + ... + 2. ├─base::suppressWarnings(loo(fit)) at tests/testthat/helper-runs.R:88:7 + 3. │ └─base::withCallingHandlers(...) + 4. ├─loo::loo(fit) at tests/testthat/helper-runs.R:88:7 + 5. └─mcp:::loo.mcpfit(fit) + 6. └─mcp::criterion(x, "loo", ...) + 7. └─base::nrow(fit$mcmc_post[[1]]) + + [ FAIL 72 | WARN 0 | SKIP 6 | PASS 449 ] + Error: Test failures + Execution halted ``` -* checking package dependencies ... NOTE +# mikropml + +
+ +* Version: 1.6.1 +* GitHub: https://github.com/SchlossLab/mikropml +* Source code: https://github.com/cran/mikropml +* Date/Publication: 2023-08-21 15:10:05 UTC +* Number of recursive dependencies: 130 + +Run `revdepcheck::revdep_details(, "mikropml")` for more info + +
+ +## In both + +* checking Rd files ... NOTE ``` - Package suggested but not available for checking: ‘genuMet’ + checkRd: (-1) create_grouped_data_partition.Rd:60: Lost braces; missing escapes or markup? + 60 | Zena Lapp, {zenalapp@umich.edu} + | ^ + checkRd: (-1) create_grouped_data_partition.Rd:62: Lost braces; missing escapes or markup? + 62 | Kelly Sovacool, {sovacool@umich.edu} + | ^ + checkRd: (-1) create_grouped_k_multifolds.Rd:30: Lost braces; missing escapes or markup? + 30 | Zena Lapp, {zenalapp@umich.edu} + | ^ + checkRd: (-1) get_partition_indices.Rd:58: Lost braces; missing escapes or markup? + 58 | Kelly Sovacool, {sovacool@umich.edu} + | ^ + checkRd: (-1) set_hparams_glmnet.Rd:16: Lost braces; missing escapes or markup? + 16 | Zena Lapp, {zenalapp@umich.edu} + | ^ ``` # MineICA
-* Version: 1.42.0 +* Version: 1.44.0 * GitHub: NA * Source code: https://github.com/cran/MineICA -* Date/Publication: 2023-10-24 -* Number of recursive dependencies: 215 +* Date/Publication: 2024-04-30 +* Number of recursive dependencies: 217 -Run `revdep_details(, "MineICA")` for more info +Run `revdepcheck::revdep_details(, "MineICA")` for more info
@@ -831,19 +915,19 @@ Run `revdep_details(, "MineICA")` for more info * checking Rd cross-references ... WARNING ``` - Missing link or links in documentation object 'Alist.Rd': + Missing link or links in Rd file 'Alist.Rd': ‘class-IcaSet’ - Missing link or links in documentation object 'Slist.Rd': + Missing link or links in Rd file 'Slist.Rd': ‘class-IcaSet’ - Missing link or links in documentation object 'class-IcaSet.Rd': + Missing link or links in Rd file 'class-IcaSet.Rd': ‘class-IcaSet’ - Missing link or links in documentation object 'getComp.Rd': + Missing link or links in Rd file 'getComp.Rd': ‘class-IcaSet’ - Missing link or links in documentation object 'runAn.Rd': + Missing link or links in Rd file 'runAn.Rd': ‘[Category:class-GOHyperGParams]{GOHyperGParams}’ See section 'Cross-references' in the 'Writing R Extensions' manual. @@ -859,6 +943,31 @@ Run `revdep_details(, "MineICA")` for more info Extensions’ manual. ``` +* checking re-building of vignette outputs ... WARNING + ``` + Error(s) in re-building vignettes: + --- re-building ‘MineICA.Rnw’ using Sweave + Loading required package: BiocGenerics + + Attaching package: ‘BiocGenerics’ + + The following objects are masked from ‘package:stats’: + + IQR, mad, sd, var, xtabs + + ... + l.23 \usepackage + {subfig}^^M + ! ==> Fatal error occurred, no output PDF file produced! + --- failed re-building ‘MineICA.Rnw’ + + SUMMARY: processing the following file failed: + ‘MineICA.Rnw’ + + Error: Vignette re-building failed. + Execution halted + ``` + * checking package dependencies ... NOTE ``` Package which this enhances but not available for checking: ‘doMC’ @@ -904,29 +1013,29 @@ Run `revdep_details(, "MineICA")` for more info contains 'methods'). ``` -* checking re-building of vignette outputs ... NOTE +* checking Rd files ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘MineICA.Rnw’ using Sweave - Loading required package: BiocGenerics - - Attaching package: ‘BiocGenerics’ - - The following objects are masked from ‘package:stats’: - - IQR, mad, sd, var, xtabs - + checkRd: (-1) clusterFastICARuns.Rd:47: Lost braces + 47 | \item{...}{Additional parameters for code{funClus}} + | ^ + checkRd: (-1) clusterFastICARuns.Rd:52: Lost braces + 52 | item{W}{the estimated unmixing matrix}, \item{Iq}{Iq + | ^ + checkRd: (-1) clusterFastICARuns.Rd:52: Lost braces + 52 | item{W}{the estimated unmixing matrix}, \item{Iq}{Iq + | ^ + checkRd: (-1) plotDensOneAnnotInAllComp.Rd:104: Lost braces ... - l.23 \usepackage - {subfig}^^M - ! ==> Fatal error occurred, no output PDF file produced! - --- failed re-building ‘MineICA.Rnw’ - - SUMMARY: processing the following file failed: - ‘MineICA.Rnw’ - - Error: Vignette re-building failed. - Execution halted + | ^ + checkRd: (-1) runICA.Rd:44: Lost braces + 44 | item{W}{the estimated unmixing matrix}} + | ^ + checkRd: (-1) runICA.Rd:44: Lost braces + 44 | item{W}{the estimated unmixing matrix}} + | ^ + checkRd: (-1) writeProjByComp.Rd:38: Lost braces + 38 | their annotations, please remember to modify code{genesPath(params)}, or + | ^ ``` # missSBM @@ -939,26 +1048,18 @@ Run `revdep_details(, "MineICA")` for more info * Date/Publication: 2023-10-24 16:00:05 UTC * Number of recursive dependencies: 113 -Run `revdep_details(, "missSBM")` for more info +Run `revdepcheck::revdep_details(, "missSBM")` for more info ## In both -* checking whether package ‘missSBM’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/missSBM/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/missSBM/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/missSBM/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/missSBM/new/missSBM.Rcheck/00install.out’ for details. - ``` - * checking installed package size ... NOTE ``` - installed size is 9.8Mb + installed size is 10.1Mb sub-directories of 1Mb or more: - libs 7.8Mb + R 1.0Mb + libs 8.0Mb ``` # MOSS @@ -971,31 +1072,77 @@ Run `revdep_details(, "missSBM")` for more info * Date/Publication: 2022-03-25 15:50:05 UTC * Number of recursive dependencies: 183 -Run `revdep_details(, "MOSS")` for more info +Run `revdepcheck::revdep_details(, "MOSS")` for more info ## In both -* checking re-building of vignette outputs ... WARNING +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘MOSS_working_example.Rmd’ using rmarkdown - ! LaTeX Error: File `iftex.sty' not found. - - ! Emergency stop. - - - Error: processing vignette 'MOSS_working_example.Rmd' failed with diagnostics: - LaTeX failed to compile /c4/home/henrik/repositories/future.apply/revdep/checks/MOSS/new/MOSS.Rcheck/vign_test/MOSS/vignettes/MOSS_working_example.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See MOSS_working_example.log for more info. - --- failed re-building ‘MOSS_working_example.Rmd’ - - SUMMARY: processing the following file failed: - ‘MOSS_working_example.Rmd’ - - Error: Vignette re-building failed. - Execution halted + installed size is 6.1Mb + sub-directories of 1Mb or more: + doc 1.1Mb + ``` + +* checking Rd files ... NOTE + ``` + checkRd: (-1) ssvdEN_sol_path.Rd:58: Lost braces; missing escapes or markup? + 58 | \item{tol}{Convergence is determined when ||U_j - U_{j-1}||_F < tol, + | ^ + checkRd: (-1) ssvdEN_sol_path_par.Rd:59: Lost braces; missing escapes or markup? + 59 | \item{tol}{Convergence is determined when ||U_j - U_{j-1}||_F < tol, + | ^ + ``` + +# nhdplusTools + +
+ +* Version: 1.2.1 +* GitHub: https://github.com/doi-usgs/nhdplusTools +* Source code: https://github.com/cran/nhdplusTools +* Date/Publication: 2024-06-05 18:20:02 UTC +* Number of recursive dependencies: 138 + +Run `revdepcheck::revdep_details(, "nhdplusTools")` for more info + +
+ +## In both + +* checking installed package size ... NOTE + ``` + installed size is 6.5Mb + sub-directories of 1Mb or more: + data 1.6Mb + doc 4.2Mb + ``` + +# OptimalGoldstandardDesigns + +
+ +* Version: 1.0.1 +* GitHub: https://github.com/jan-imbi/OptimalGoldstandardDesigns +* Source code: https://github.com/cran/OptimalGoldstandardDesigns +* Date/Publication: 2023-09-11 10:40:05 UTC +* Number of recursive dependencies: 72 + +Run `revdepcheck::revdep_details(, "OptimalGoldstandardDesigns")` for more info + +
+ +## In both + +* checking Rd files ... NOTE + ``` + checkRd: (-1) calc_n_from_c.Rd:5: Lost braces; missing escapes or markup? + 5 | \title{Helper function to calculate other n's given n_{1,T} and allocation ratios} + | ^ + checkRd: (-1) calc_n_from_c.Rd:15: Lost braces; missing escapes or markup? + 15 | Helper function to calculate other n's given n_{1,T} and allocation ratios + | ^ ``` # pavo @@ -1008,7 +1155,7 @@ Run `revdep_details(, "MOSS")` for more info * Date/Publication: 2023-09-24 10:10:02 UTC * Number of recursive dependencies: 103 -Run `revdep_details(, "pavo")` for more info +Run `revdepcheck::revdep_details(, "pavo")` for more info @@ -1021,32 +1168,22 @@ Run `revdep_details(, "pavo")` for more info See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/pavo/new/pavo.Rcheck/00install.out’ for details. ``` -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘imager’ - ``` - # phylolm
-* Version: 2.6.2 +* Version: 2.6.5 * GitHub: https://github.com/lamho86/phylolm * Source code: https://github.com/cran/phylolm -* Date/Publication: 2020-06-22 05:10:08 UTC +* Date/Publication: 2024-09-30 19:00:02 UTC * Number of recursive dependencies: 41 -Run `revdep_details(, "phylolm")` for more info +Run `revdepcheck::revdep_details(, "phylolm")` for more info
## In both -* checking C++ specification ... NOTE - ``` - Specified C++11: please drop specification unless essential - ``` - * checking Rd cross-references ... NOTE ``` Packages unavailable to check Rd xrefs: ‘geiger’, ‘caper’ @@ -1060,29 +1197,20 @@ Run `revdep_details(, "phylolm")` for more info * GitHub: https://github.com/pln-team/PLNmodels * Source code: https://github.com/cran/PLNmodels * Date/Publication: 2024-03-05 15:50:03 UTC -* Number of recursive dependencies: 151 +* Number of recursive dependencies: 156 -Run `revdep_details(, "PLNmodels")` for more info +Run `revdepcheck::revdep_details(, "PLNmodels")` for more info ## In both -* checking whether package ‘PLNmodels’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/PLNmodels/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/PLNmodels/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/PLNmodels/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/PLNmodels/new/PLNmodels.Rcheck/00install.out’ for details. - ``` - * checking installed package size ... NOTE ``` - installed size is 27.5Mb + installed size is 27.6Mb sub-directories of 1Mb or more: data 1.4Mb - doc 2.0Mb + doc 2.1Mb libs 22.4Mb ``` @@ -1094,9 +1222,9 @@ Run `revdep_details(, "PLNmodels")` for more info * GitHub: https://github.com/EmanuelSommer/portvine * Source code: https://github.com/cran/portvine * Date/Publication: 2024-01-18 16:30:02 UTC -* Number of recursive dependencies: 129 +* Number of recursive dependencies: 130 -Run `revdep_details(, "portvine")` for more info +Run `revdepcheck::revdep_details(, "portvine")` for more info @@ -1104,28 +1232,51 @@ Run `revdep_details(, "portvine")` for more info * checking installed package size ... NOTE ``` - installed size is 52.9Mb - sub-directories of 1Mb or more: - libs 51.9Mb + installed size is 50.2Mb + sub-directories of 1Mb or more: + libs 49.1Mb + ``` + +# qape + +
+ +* Version: 2.1 +* GitHub: NA +* Source code: https://github.com/cran/qape +* Date/Publication: 2023-08-21 14:10:12 UTC +* Number of recursive dependencies: 39 + +Run `revdepcheck::revdep_details(, "qape")` for more info + +
+ +## In both + +* checking Rd files ... NOTE + ``` + checkRd: (-1) srswrRe.Rd:10: Lost braces + 10 | \item{listRanef}{{\emph{ranef(model)}} object where {\emph{model}} is an { \emph{lmer}} object.} + | ^ ``` # QDNAseq
-* Version: 1.38.0 +* Version: 1.40.0 * GitHub: https://github.com/ccagc/QDNAseq * Source code: https://github.com/cran/QDNAseq -* Date/Publication: 2023-10-24 -* Number of recursive dependencies: 88 +* Date/Publication: 2024-04-30 +* Number of recursive dependencies: 94 -Run `revdep_details(, "QDNAseq")` for more info +Run `revdepcheck::revdep_details(, "QDNAseq")` for more info
## In both -* checking re-building of vignette outputs ... NOTE +* checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: --- re-building ‘QDNAseq.Rnw’ using Sweave @@ -1134,11 +1285,11 @@ Run `revdep_details(, "QDNAseq")` for more info Warning in allprior/tot : Recycling array of length 1 in vector-array arithmetic is deprecated. Use c() or as.vector() instead. - Warning in allprior/tot : Recycling array of length 1 in vector-array arithmetic is deprecated. + Use c() or as.vector() instead. ... - l.196 \RequirePackage + l.197 \RequirePackage {parnotes}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘QDNAseq.Rnw’ @@ -1150,17 +1301,48 @@ Run `revdep_details(, "QDNAseq")` for more info Execution halted ``` +* checking Rd files ... NOTE + ``` + checkRd: (-1) exportBins.Rd:41: Lost braces + 41 | \code{"bed"}. This argument is ignored if code{type = "calls"}.} + | ^ + ``` + +# qgcomp + +
+ +* Version: 2.15.2 +* GitHub: https://github.com/alexpkeil1/qgcomp +* Source code: https://github.com/cran/qgcomp +* Date/Publication: 2023-08-10 09:10:06 UTC +* Number of recursive dependencies: 156 + +Run `revdepcheck::revdep_details(, "qgcomp")` for more info + +
+ +## In both + +* checking Rd files ... NOTE + ``` + checkRd: (-1) qgcomp.survcurve.boot.Rd:17-19: Lost braces in \itemize; \value handles \item{}{} directly + checkRd: (-1) qgcomp.survcurve.boot.Rd:20-21: Lost braces in \itemize; \value handles \item{}{} directly + checkRd: (-1) qgcomp.survcurve.boot.Rd:22-23: Lost braces in \itemize; \value handles \item{}{} directly + checkRd: (-1) qgcomp.survcurve.boot.Rd:24-25: Lost braces in \itemize; \value handles \item{}{} directly + ``` + # receptiviti
-* Version: 0.1.7 +* Version: 0.1.8 * GitHub: https://github.com/Receptiviti/receptiviti-r * Source code: https://github.com/cran/receptiviti -* Date/Publication: 2024-02-23 23:50:05 UTC +* Date/Publication: 2024-03-29 18:00:03 UTC * Number of recursive dependencies: 66 -Run `revdep_details(, "receptiviti")` for more info +Run `revdepcheck::revdep_details(, "receptiviti")` for more info
@@ -1177,7 +1359,7 @@ Run `revdep_details(, "receptiviti")` for more info > > test_check("receptiviti") Status: ERROR - Message: 400 + Message: Invalid header received from client. ... 7. └─receptiviti::receptiviti(...) ── Failure ('test-receptiviti_status.R:5:3'): failures works ─────────────────── @@ -1191,33 +1373,6 @@ Run `revdep_details(, "receptiviti")` for more info Execution halted ``` -# robotstxt - -
- -* Version: 0.7.13 -* GitHub: https://github.com/ropensci/robotstxt -* Source code: https://github.com/cran/robotstxt -* Date/Publication: 2020-09-03 19:30:02 UTC -* Number of recursive dependencies: 69 - -Run `revdep_details(, "robotstxt")` for more info - -
- -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘future’ - All declared Imports should be used. - ``` - -* checking LazyData ... NOTE - ``` - 'LazyData' is specified without a 'data' directory - ``` - # sctransform
@@ -1228,149 +1383,59 @@ Run `revdep_details(, "robotstxt")` for more info * Date/Publication: 2023-10-19 04:40:02 UTC * Number of recursive dependencies: 68 -Run `revdep_details(, "sctransform")` for more info +Run `revdepcheck::revdep_details(, "sctransform")` for more info
## In both -* checking whether package ‘sctransform’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/sctransform/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/sctransform/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/sctransform/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/sctransform/new/sctransform.Rcheck/00install.out’ for details. - ``` - * checking package dependencies ... NOTE ``` Package which this enhances but not available for checking: ‘glmGamPoi’ ``` -# sdmApp - -
- -* Version: 0.0.2 -* GitHub: https://github.com/Abson-dev/sdmApp -* Source code: https://github.com/cran/sdmApp -* Date/Publication: 2021-07-07 08:30:02 UTC -* Number of recursive dependencies: 173 - -Run `revdep_details(, "sdmApp")` for more info - -
- -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘sp’ - All declared Imports should be used. - ``` - # sdmTMB
-* Version: 0.4.3 +* Version: 0.6.0 * GitHub: https://github.com/pbs-assess/sdmTMB * Source code: https://github.com/cran/sdmTMB -* Date/Publication: 2024-02-29 01:40:02 UTC -* Number of recursive dependencies: 115 +* Date/Publication: 2024-05-30 00:00:02 UTC +* Number of recursive dependencies: 150 -Run `revdep_details(, "sdmTMB")` for more info +Run `revdepcheck::revdep_details(, "sdmTMB")` for more info
## In both -* checking tests ... - ``` - Running ‘testthat.R’ - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Last 50 lines of output: - 'test-deprecated-args.R:2:3', 'test-deprecated-args.R:67:3', - 'test-dharma.R:3:3', 'test-extra-optimization.R:2:3', - 'test-extra-time.R:3:3', 'test-extra-time.R:42:3', 'test-extra-time.R:116:3', - 'test-factor-levels.R:2:3', 'test-factor-levels.R:37:3', - 'test-factor-levels.R:91:3', 'test-forecasting.R:2:3', 'test-index.R:3:3', - 'test-link-prediction.R:5:3', 'test-link-prediction.R:67:3', - ... - [6] -0.37427778 - -0.37427783 [6] - [7] -0.01713492 - -0.01713497 [7] - [8] 0.14953175 - 0.14953169 [8] - [9] -0.51713492 - -0.51713497 [9] - [10] 0.08286508 - 0.08286503 [10] - ... ... ... and 290 more ... - - [ FAIL 1 | WARN 0 | SKIP 146 | PASS 151 ] - Error: Test failures - Execution halted - ``` - * checking installed package size ... NOTE ``` - installed size is 105.4Mb + installed size is 98.6Mb sub-directories of 1Mb or more: - libs 103.7Mb + libs 96.6Mb ``` # sentopics
-* Version: 0.7.2 +* Version: 0.7.4 * GitHub: https://github.com/odelmarcelle/sentopics * Source code: https://github.com/cran/sentopics -* Date/Publication: 2023-05-28 09:50:02 UTC -* Number of recursive dependencies: 173 +* Date/Publication: 2024-09-20 12:20:02 UTC +* Number of recursive dependencies: 172 -Run `revdep_details(, "sentopics")` for more info +Run `revdepcheck::revdep_details(, "sentopics")` for more info
## In both -* checking tests ... - ``` - Running ‘testthat.R’ - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > - > library("testthat") - > library("sentopics") - > - > if (Sys.getenv("R_COVR") != "true") { - + test_check("sentopics") - ... - }), by = c("date", "doc_id", "title"))`: j doesn't evaluate to the same number of columns for each group - Backtrace: - ▆ - 1. └─sentopics:::get_ECB_press_conferences(years = 1998) at test-others.R:2:3 - 2. ├─...[] - 3. └─data.table::`[.data.table`(...) - - [ FAIL 1 | WARN 8 | SKIP 1 | PASS 326 ] - Error: Test failures - Execution halted - ``` - -* checking whether package ‘sentopics’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/sentopics/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/sentopics/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/sentopics/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/sentopics/new/sentopics.Rcheck/00install.out’ for details. - ``` - * checking installed package size ... NOTE ``` - installed size is 8.1Mb + installed size is 8.3Mb sub-directories of 1Mb or more: data 1.2Mb libs 6.2Mb @@ -1390,13 +1455,13 @@ Run `revdep_details(, "sentopics")` for more info
-* Version: 5.0.3 +* Version: 5.1.0 * GitHub: https://github.com/satijalab/seurat * Source code: https://github.com/cran/Seurat -* Date/Publication: 2024-03-18 23:40:02 UTC -* Number of recursive dependencies: 266 +* Date/Publication: 2024-05-10 17:23:17 UTC +* Number of recursive dependencies: 267 -Run `revdep_details(, "Seurat")` for more info +Run `revdepcheck::revdep_details(, "Seurat")` for more info
@@ -1424,13 +1489,13 @@ Run `revdep_details(, "Seurat")` for more info
-* Version: 5.0.1 -* GitHub: https://github.com/mojaveazure/seurat-object +* Version: 5.0.2 +* GitHub: https://github.com/satijalab/seurat-object * Source code: https://github.com/cran/SeuratObject -* Date/Publication: 2023-11-17 22:40:16 UTC +* Date/Publication: 2024-05-08 13:40:06 UTC * Number of recursive dependencies: 102 -Run `revdep_details(, "SeuratObject")` for more info +Run `revdepcheck::revdep_details(, "SeuratObject")` for more info
@@ -1445,7 +1510,7 @@ Run `revdep_details(, "SeuratObject")` for more info * checking installed package size ... NOTE ``` - installed size is 5.4Mb + installed size is 5.5Mb sub-directories of 1Mb or more: R 1.5Mb libs 3.2Mb @@ -1466,7 +1531,7 @@ Run `revdep_details(, "SeuratObject")` for more info * Date/Publication: 2024-02-03 17:30:02 UTC * Number of recursive dependencies: 156 -Run `revdep_details(, "sharp")` for more info +Run `revdepcheck::revdep_details(, "sharp")` for more info @@ -1486,13 +1551,13 @@ Run `revdep_details(, "sharp")` for more info
-* Version: 1.12.0 +* Version: 1.14.0 * GitHub: https://github.com/stuart-lab/signac * Source code: https://github.com/cran/Signac -* Date/Publication: 2023-11-08 09:30:02 UTC -* Number of recursive dependencies: 253 +* Date/Publication: 2024-08-21 07:40:02 UTC +* Number of recursive dependencies: 247 -Run `revdep_details(, "Signac")` for more info +Run `revdepcheck::revdep_details(, "Signac")` for more info
@@ -1500,7 +1565,7 @@ Run `revdep_details(, "Signac")` for more info * checking installed package size ... NOTE ``` - installed size is 5.1Mb + installed size is 5.2Mb sub-directories of 1Mb or more: R 1.1Mb libs 2.9Mb @@ -1510,27 +1575,18 @@ Run `revdep_details(, "Signac")` for more info
-* Version: 2.4.0 +* Version: 2.6.0 * GitHub: https://github.com/TojalLab/signeR * Source code: https://github.com/cran/signeR -* Date/Publication: 2023-10-24 -* Number of recursive dependencies: 244 +* Date/Publication: 2024-04-30 +* Number of recursive dependencies: 234 -Run `revdep_details(, "signeR")` for more info +Run `revdepcheck::revdep_details(, "signeR")` for more info
## In both -* checking whether package ‘signeR’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/signeR/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/signeR/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/signeR/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/signeR/new/signeR.Rcheck/00install.out’ for details. - ``` - * checking C++ specification ... NOTE ``` Specified C++11: please drop specification unless essential @@ -1588,50 +1644,23 @@ Run `revdep_details(, "signeR")` for more info
-* Version: 2.14 +* Version: 2.17.1 * GitHub: https://github.com/philchalmers/SimDesign * Source code: https://github.com/cran/SimDesign -* Date/Publication: 2024-01-09 09:10:11 UTC -* Number of recursive dependencies: 123 +* Date/Publication: 2024-08-17 05:00:02 UTC +* Number of recursive dependencies: 136 -Run `revdep_details(, "SimDesign")` for more info +Run `revdepcheck::revdep_details(, "SimDesign")` for more info
-## Newly fixed - -* checking re-building of vignette outputs ... ERROR - ``` - Error(s) in re-building vignettes: - --- re-building ‘Catch_errors.Rmd’ using rmarkdown - --- finished re-building ‘Catch_errors.Rmd’ - - --- re-building ‘Fixed_obj_fun.Rmd’ using rmarkdown - - Quitting from lines 65-69 [unnamed-chunk-5] (Fixed_obj_fun.Rmd) - Error: processing vignette 'Fixed_obj_fun.Rmd' failed with diagnostics: - creation of server socket failed: port 11240 cannot be opened - --- failed re-building ‘Fixed_obj_fun.Rmd’ - ... - --- finished re-building ‘Saving-results.Rmd’ - - --- re-building ‘SimDesign-intro.Rmd’ using rmarkdown - --- finished re-building ‘SimDesign-intro.Rmd’ - - SUMMARY: processing the following file failed: - ‘Fixed_obj_fun.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - ## In both * checking installed package size ... NOTE ``` - installed size is 5.8Mb + installed size is 7.3Mb sub-directories of 1Mb or more: - doc 5.2Mb + doc 6.5Mb ``` # smoots @@ -1644,19 +1673,17 @@ Run `revdep_details(, "SimDesign")` for more info * Date/Publication: 2023-09-11 08:50:02 UTC * Number of recursive dependencies: 75 -Run `revdep_details(, "smoots")` for more info +Run `revdepcheck::revdep_details(, "smoots")` for more info ## In both -* checking whether package ‘smoots’ can be installed ... WARNING +* checking installed package size ... NOTE ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/smoots/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/smoots/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/smoots/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/smoots/new/smoots.Rcheck/00install.out’ for details. + installed size is 5.2Mb + sub-directories of 1Mb or more: + libs 4.5Mb ``` # solitude @@ -1669,7 +1696,7 @@ Run `revdep_details(, "smoots")` for more info * Date/Publication: 2021-07-29 20:00:02 UTC * Number of recursive dependencies: 131 -Run `revdep_details(, "solitude")` for more info +Run `revdepcheck::revdep_details(, "solitude")` for more info @@ -1686,13 +1713,13 @@ Run `revdep_details(, "solitude")` for more info
-* Version: 4.4.16 +* Version: 4.5.0 * GitHub: NA * Source code: https://github.com/cran/spaMM -* Date/Publication: 2023-12-20 13:50:02 UTC -* Number of recursive dependencies: 102 +* Date/Publication: 2024-06-09 22:20:02 UTC +* Number of recursive dependencies: 92 -Run `revdep_details(, "spaMM")` for more info +Run `revdepcheck::revdep_details(, "spaMM")` for more info
@@ -1700,7 +1727,8 @@ Run `revdep_details(, "spaMM")` for more info * checking package dependencies ... NOTE ``` - Packages suggested but not available for checking: 'Infusion', 'blackbox' + Packages suggested but not available for checking: + 'Infusion', 'IsoriX', 'blackbox' Packages which this enhances but not available for checking: 'multcomp', 'RLRsim', 'lmerTest' @@ -1708,10 +1736,10 @@ Run `revdep_details(, "spaMM")` for more info * checking installed package size ... NOTE ``` - installed size is 56.9Mb + installed size is 54.4Mb sub-directories of 1Mb or more: - R 2.7Mb - libs 52.9Mb + R 2.8Mb + libs 50.2Mb ``` # SPARSEMODr @@ -1722,9 +1750,9 @@ Run `revdep_details(, "spaMM")` for more info * GitHub: https://github.com/NAU-CCL/SPARSEMODr * Source code: https://github.com/cran/SPARSEMODr * Date/Publication: 2022-07-19 20:50:02 UTC -* Number of recursive dependencies: 127 +* Number of recursive dependencies: 126 -Run `revdep_details(, "SPARSEMODr")` for more info +Run `revdepcheck::revdep_details(, "SPARSEMODr")` for more info @@ -1741,179 +1769,139 @@ Run `revdep_details(, "SPARSEMODr")` for more info
-* Version: 3.0.3 +* Version: 3.1.0 * GitHub: https://github.com/spatial-ews/spatialwarnings * Source code: https://github.com/cran/spatialwarnings -* Date/Publication: 2022-03-21 13:00:02 UTC +* Date/Publication: 2024-09-06 14:50:02 UTC * Number of recursive dependencies: 97 -Run `revdep_details(, "spatialwarnings")` for more info +Run `revdepcheck::revdep_details(, "spatialwarnings")` for more info
## In both -* checking whether package ‘spatialwarnings’ can be installed ... WARNING +* checking installed package size ... NOTE ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/spatialwarnings/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/spatialwarnings/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/spatialwarnings/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/spatialwarnings/new/spatialwarnings.Rcheck/00install.out’ for details. + installed size is 8.1Mb + sub-directories of 1Mb or more: + libs 6.7Mb ``` -* checking Rd cross-references ... WARNING - ``` - Missing link or links in documentation object 'indictest.Rd': - ‘mgcv’ - - See section 'Cross-references' in the 'Writing R Extensions' manual. - ``` +# sperrorest -* checking installed package size ... NOTE +
+ +* Version: 3.0.5 +* GitHub: https://github.com/giscience-fsu/sperrorest +* Source code: https://github.com/cran/sperrorest +* Date/Publication: 2022-10-16 12:50:02 UTC +* Number of recursive dependencies: 74 + +Run `revdepcheck::revdep_details(, "sperrorest")` for more info + +
+ +## In both + +* checking Rd files ... NOTE ``` - installed size is 7.0Mb - sub-directories of 1Mb or more: - libs 6.0Mb + checkRd: (-1) partition_cv.Rd:36: Lost braces; missing escapes or markup? + 36 | if \code{TRUE} (used internally by other {sperrorest} functions), return a + | ^ + checkRd: (-1) partition_cv_strat.Rd:28: Lost braces; missing escapes or markup? + 28 | if \code{TRUE} (used internally by other {sperrorest} functions), return a + | ^ + checkRd: (-1) partition_factor.Rd:28: Lost braces; missing escapes or markup? + 28 | if \code{TRUE} (used internally by other {sperrorest} functions), return a + | ^ + checkRd: (-1) partition_factor_cv.Rd:43: Lost braces; missing escapes or markup? + ... + | ^ + checkRd: (-1) sperrorest.Rd:148: Lost braces; missing escapes or markup? + 148 | information about the {sperrorest} package version + | ^ + checkRd: (-1) summary.sperroresterror.Rd:5: Lost braces; missing escapes or markup? + 5 | \title{Summarize error statistics obtained by {sperrorest}} + | ^ + checkRd: (-1) summary.sperrorestimportance.Rd:5: Lost braces; missing escapes or markup? + 5 | \title{Summarize variable importance statistics obtained by {sperrorest}} + | ^ ``` # spNetwork
-* Version: 0.4.3.8 +* Version: 0.4.4.3 * GitHub: https://github.com/JeremyGelb/spNetwork * Source code: https://github.com/cran/spNetwork -* Date/Publication: 2023-08-24 11:20:05 UTC +* Date/Publication: 2024-06-21 21:40:02 UTC * Number of recursive dependencies: 143 -Run `revdep_details(, "spNetwork")` for more info +Run `revdepcheck::revdep_details(, "spNetwork")` for more info
## In both -* checking whether package ‘spNetwork’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/spNetwork/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/spNetwork/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/spNetwork/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/spNetwork/new/spNetwork.Rcheck/00install.out’ for details. - ``` - * checking installed package size ... NOTE ``` - installed size is 25.5Mb + installed size is 27.6Mb sub-directories of 1Mb or more: - doc 1.0Mb extdata 2.6Mb - libs 20.5Mb + libs 22.6Mb ``` # stars
-* Version: 0.6-4 +* Version: 0.6-6 * GitHub: https://github.com/r-spatial/stars * Source code: https://github.com/cran/stars -* Date/Publication: 2023-09-11 11:50:02 UTC -* Number of recursive dependencies: 165 +* Date/Publication: 2024-07-16 09:40:02 UTC +* Number of recursive dependencies: 166 -Run `revdep_details(, "stars")` for more info +Run `revdepcheck::revdep_details(, "stars")` for more info
-## Newly broken - -* checking examples ...sh: line 1: 39634 Aborted (core dumped) LANGUAGE=en _R_CHECK_INTERNALS2_=1 '/software/c4/cbi/software/_centos7/R-4.3.3-gcc10/lib64/R/bin/R' --vanilla --encoding=UTF-8 > 'stars-Ex.Rout' 2>&1 < 'stars-Ex.R' - ``` - ERROR - Running examples in ‘stars-Ex.R’ failed - The error most likely occurred in: - - > ### Name: mdim - > ### Title: Read or write data using GDAL's multidimensional array API - > ### Aliases: mdim read_mdim write_mdim - > - > ### ** Examples - > - ... - dmalloc: no - Packages w/ extra debug output: none - API tracing: no - Using memory checker: no - Memory allocation sanity checks: no - Function stack tracing: no - Use file locking: best-effort - Strict file format checks: no - Optimization instrumentation: no - Bye... - ``` - -## Newly fixed - -* checking examples ...sh: line 1: 39641 Aborted (core dumped) LANGUAGE=en _R_CHECK_INTERNALS2_=1 '/software/c4/cbi/software/_centos7/R-4.3.3-gcc10/lib64/R/bin/R' --vanilla --encoding=UTF-8 > 'stars-Ex.Rout' 2>&1 < 'stars-Ex.R' - ``` - ERROR - Running examples in ‘stars-Ex.R’ failed - The error most likely occurred in: - - > ### Name: mdim - > ### Title: Read or write data using GDAL's multidimensional array API - > ### Aliases: mdim read_mdim write_mdim - > - > ### ** Examples - > - ... - dmalloc: no - Packages w/ extra debug output: none - API tracing: no - Using memory checker: no - Memory allocation sanity checks: no - Function stack tracing: no - Use file locking: best-effort - Strict file format checks: no - Optimization instrumentation: no - Bye... - ``` - ## In both * checking tests ... ``` Running ‘aggregate.R’ - Comparing ‘aggregate.Rout’ to ‘aggregate.Rout.save’ ...4c4 - < Linking to GEOS 3.11.2, GDAL 3.6.4, PROJ 8.2.1; sf_use_s2() is TRUE - --- - > Linking to GEOS 3.11.2, GDAL 3.6.2, PROJ 9.2.0; sf_use_s2() is TRUE + Comparing ‘aggregate.Rout’ to ‘aggregate.Rout.save’ ... OK Running ‘align.R’ Comparing ‘align.Rout’ to ‘align.Rout.save’ ... OK Running ‘area.R’ Comparing ‘area.Rout’ to ‘area.Rout.save’ ... OK Running ‘crop.R’ + Comparing ‘crop.Rout’ to ‘crop.Rout.save’ ... OK + Running ‘curvilinear.R’ + Comparing ‘curvilinear.Rout’ to ‘curvilinear.Rout.save’ ... OK ... - dmalloc: no - Packages w/ extra debug output: none - API tracing: no - Using memory checker: no - Memory allocation sanity checks: no - Function stack tracing: no - Use file locking: best-effort - Strict file format checks: no - Optimization instrumentation: no - Bye... + > + > s = st_set_dimensions(s, st_dimensions(s), xy = NULL) + > sfc = st_sfc(st_point(0:1), st_point(3:2)) + > s = st_set_dimensions(s, 1, sfc) |> st_set_crs(4326) + > tm = as.POSIXct("2023-03-04 12:35") + c(0, 3600) + > s = st_set_dimensions(s, 2, tm) + > f = tempfile(fileext = ".nc") + > write_mdim(s, f, as_float = FALSE) + Error: requires GDAL >= 3.1.0 and 64-bit + Execution halted ``` * checking package dependencies ... NOTE ``` - Package suggested but not available for checking: ‘starsdata’ + Packages suggested but not available for checking: 'ncdfgeom', 'starsdata' ``` * checking installed package size ... NOTE ``` - installed size is 6.1Mb + installed size is 6.4Mb sub-directories of 1Mb or more: doc 2.4Mb nc 1.7Mb @@ -1923,13 +1911,13 @@ Run `revdep_details(, "stars")` for more info
-* Version: 1.3.2 +* Version: 1.3.4 * GitHub: https://github.com/Manalytics/stppSim * Source code: https://github.com/cran/stppSim -* Date/Publication: 2023-10-29 21:20:02 UTC -* Number of recursive dependencies: 130 +* Date/Publication: 2024-07-24 13:30:02 UTC +* Number of recursive dependencies: 131 -Run `revdep_details(, "stppSim")` for more info +Run `revdepcheck::revdep_details(, "stppSim")` for more info
@@ -1952,40 +1940,72 @@ Run `revdep_details(, "stppSim")` for more info * Date/Publication: 2024-02-22 10:00:21 UTC * Number of recursive dependencies: 97 -Run `revdep_details(, "targeted")` for more info +Run `revdepcheck::revdep_details(, "targeted")` for more info ## In both -* checking whether package ‘targeted’ can be installed ... WARNING - ``` - Found the following significant warnings: - /c4/home/henrik/repositories/future.apply/revdep/library/targeted/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/targeted/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - /c4/home/henrik/repositories/future.apply/revdep/library/targeted/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat arma::reshape(const arma::Base&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] - See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/targeted/new/targeted.Rcheck/00install.out’ for details. - ``` - * checking installed package size ... NOTE ``` - installed size is 22.4Mb + installed size is 23.0Mb sub-directories of 1Mb or more: doc 1.1Mb - libs 20.9Mb + libs 21.3Mb ``` -# TreeMineR +# tramvs
-* Version: 1.0.0 +* Version: 0.0-6 * GitHub: NA +* Source code: https://github.com/cran/tramvs +* Date/Publication: 2024-09-04 13:50:02 UTC +* Number of recursive dependencies: 106 + +Run `revdepcheck::revdep_details(, "tramvs")` for more info + +
+ +## In both + +* checking re-building of vignette outputs ... WARNING + ``` + Error(s) in re-building vignettes: + ... + --- re-building ‘tramvs.Rnw’ using knitr + Warning in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, : + texi2dvi script/program not available, using emulation + Error: processing vignette 'tramvs.Rnw' failed with diagnostics: + unable to run pdflatex on 'tramvs.tex' + LaTeX errors: + ! LaTeX Error: File `wrapfig.sty' not found. + + ... + l.68 \usepackage + {float}^^M + ! ==> Fatal error occurred, no output PDF file produced! + --- failed re-building ‘tramvs.Rnw’ + + SUMMARY: processing the following file failed: + ‘tramvs.Rnw’ + + Error: Vignette re-building failed. + Execution halted + ``` + +# TreeMineR + +
+ +* Version: 1.0.2 +* GitHub: https://github.com/entjos/TreeMineR * Source code: https://github.com/cran/TreeMineR -* Date/Publication: 2024-03-22 20:10:06 UTC +* Date/Publication: 2024-08-27 15:00:11 UTC * Number of recursive dependencies: 49 -Run `revdep_details(, "TreeMineR")` for more info +Run `revdepcheck::revdep_details(, "TreeMineR")` for more info
@@ -2000,19 +2020,19 @@ Run `revdep_details(, "TreeMineR")` for more info
-* Version: 1.0.0 +* Version: 1.0.2 * GitHub: https://github.com/tsmodels/tsdistributions * Source code: https://github.com/cran/tsdistributions -* Date/Publication: 2024-03-17 09:10:05 UTC -* Number of recursive dependencies: 71 +* Date/Publication: 2024-08-23 04:20:02 UTC +* Number of recursive dependencies: 79 -Run `revdep_details(, "tsdistributions")` for more info +Run `revdepcheck::revdep_details(, "tsdistributions")` for more info
## In both -* checking re-building of vignette outputs ... WARNING +* checking re-building of vignette outputs ... ERROR ``` Error(s) in re-building vignettes: ... @@ -2020,16 +2040,16 @@ Run `revdep_details(, "tsdistributions")` for more info --- finished re-building ‘estimation_demo.Rmd’ --- re-building ‘location_scale_distributions.Rmd’ using rmarkdown - ! LaTeX Error: File `iftex.sty' not found. + ! Undefined control sequence. + l.56 \NewDocumentCommand + \citeproctext{}{} - ! Emergency stop. - ... - --- failed re-building ‘location_scale_distributions.Rmd’ - - --- re-building ‘profile_demo.Rmd’ using rmarkdown --- finished re-building ‘profile_demo.Rmd’ + --- re-building ‘spd_demo.Rmd’ using rmarkdown + --- finished re-building ‘spd_demo.Rmd’ + SUMMARY: processing the following file failed: ‘location_scale_distributions.Rmd’ @@ -2039,9 +2059,32 @@ Run `revdep_details(, "tsdistributions")` for more info * checking installed package size ... NOTE ``` - installed size is 42.4Mb + installed size is 42.8Mb + sub-directories of 1Mb or more: + libs 42.1Mb + ``` + +# tsgarch + +
+ +* Version: 1.0.3 +* GitHub: https://github.com/tsmodels/tsgarch +* Source code: https://github.com/cran/tsgarch +* Date/Publication: 2024-10-12 00:50:02 UTC +* Number of recursive dependencies: 100 + +Run `revdepcheck::revdep_details(, "tsgarch")` for more info + +
+ +## In both + +* checking installed package size ... NOTE + ``` + installed size is 144.2Mb sub-directories of 1Mb or more: - libs 41.8Mb + libs 143.1Mb ``` # txshift @@ -2054,7 +2097,7 @@ Run `revdep_details(, "tsdistributions")` for more info * Date/Publication: 2022-02-09 22:30:02 UTC * Number of recursive dependencies: 112 -Run `revdep_details(, "txshift")` for more info +Run `revdepcheck::revdep_details(, "txshift")` for more info @@ -2065,17 +2108,82 @@ Run `revdep_details(, "txshift")` for more info Package which this enhances but not available for checking: ‘sl3’ ``` +* checking Rd files ... NOTE + ``` + checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup? + 55 | {A - delta}, {A + delta}, and {A + 2 * delta}). + | ^ + checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup? + 55 | {A - delta}, {A + delta}, and {A + 2 * delta}). + | ^ + checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup? + 55 | {A - delta}, {A + delta}, and {A + 2 * delta}). + | ^ + ``` + +# vital + +
+ +* Version: 1.1.0 +* GitHub: https://github.com/robjhyndman/vital +* Source code: https://github.com/cran/vital +* Date/Publication: 2024-06-21 08:00:02 UTC +* Number of recursive dependencies: 201 + +Run `revdepcheck::revdep_details(, "vital")` for more info + +
+ +## In both + +* checking installed package size ... NOTE + ``` + installed size is 6.0Mb + sub-directories of 1Mb or more: + data 4.4Mb + help 1.3Mb + ``` + +# winputall + +
+ +* Version: 1.0.1 +* GitHub: NA +* Source code: https://github.com/cran/winputall +* Date/Publication: 2024-06-07 14:40:02 UTC +* Number of recursive dependencies: 103 + +Run `revdepcheck::revdep_details(, "winputall")` for more info + +
+ +## In both + +* checking installed package size ... NOTE + ``` + installed size is 103.9Mb + sub-directories of 1Mb or more: + libs 103.5Mb + ``` + +* checking for GNU extensions in Makefiles ... NOTE + ``` + GNU make is a SystemRequirements. + ``` + # XNAString
-* Version: 1.10.0 +* Version: 1.12.0 * GitHub: NA * Source code: https://github.com/cran/XNAString -* Date/Publication: 2023-10-24 -* Number of recursive dependencies: 105 +* Date/Publication: 2024-04-30 +* Number of recursive dependencies: 112 -Run `revdep_details(, "XNAString")` for more info +Run `revdepcheck::revdep_details(, "XNAString")` for more info
@@ -2106,7 +2214,7 @@ Run `revdep_details(, "XNAString")` for more info * checking installed package size ... NOTE ``` - installed size is 11.2Mb + installed size is 11.3Mb sub-directories of 1Mb or more: doc 1.0Mb libs 9.5Mb diff --git a/tests/future_lapply,globals.R b/tests/future_lapply,globals.R index 24e9c24..33657e2 100644 --- a/tests/future_lapply,globals.R +++ b/tests/future_lapply,globals.R @@ -119,7 +119,7 @@ for (strategy in supportedStrategies()) { } message("- future_lapply(X, ...) - 'X' containing globals ...") - ## From https://github.com/HenrikBengtsson/future.apply/issues/12 + ## From https://github.com/futureverse/future.apply/issues/12 a <- 42 b <- 21 X <- list( @@ -145,7 +145,7 @@ for (strategy in supportedStrategies()) { str(list(z1 = z1)) stopifnot(identical(z1, z0)) - ## https://github.com/HenrikBengtsson/future.apply/issues/47 + ## https://github.com/futureverse/future.apply/issues/47 message("- future_lapply(X, ...) - '{ a <- a + 1; a }' ...") a <- 1 z0 <- lapply(1, function(ii) { @@ -158,7 +158,7 @@ for (strategy in supportedStrategies()) { }) stopifnot(identical(z1, z0)) - ## https://github.com/HenrikBengtsson/future.apply/issues/47 + ## https://github.com/futureverse/future.apply/issues/47 message("- future_lapply(X, ...) - '{ a; a <- a + 1 }' ...") z2 <- tryCatch(future_lapply(1, function(ii) { a @@ -166,7 +166,7 @@ for (strategy in supportedStrategies()) { }), error = identity) stopifnot(identical(z2, z0)) - ## https://github.com/HenrikBengtsson/future.apply/issues/85 + ## https://github.com/futureverse/future.apply/issues/85 message("- future_lapply(..., future.globals = ) ...") a <- 0 y <- future_lapply(1, FUN = function(x) a, future.globals = list(a = 42)) diff --git a/tests/future_mapply,globals.R b/tests/future_mapply,globals.R index a69f975..5fadb70 100644 --- a/tests/future_mapply,globals.R +++ b/tests/future_mapply,globals.R @@ -114,7 +114,7 @@ for (strategy in supportedStrategies()) { } message("- future_mapply(FUN, X, ...) - 'X' containing globals ...") - ## From https://github.com/HenrikBengtsson/future.apply/issues/12 + ## From https://github.com/futureverse/future.apply/issues/12 a <- 42 b <- 21 X <- list( diff --git a/tests/future_sapply.R b/tests/future_sapply.R index 3949f33..d8fe0d2 100644 --- a/tests/future_sapply.R +++ b/tests/future_sapply.R @@ -46,7 +46,7 @@ for (strategy in supportedStrategies()) { y1 <- future_sapply(1:3, FUN = "sqrt") stopifnot(identical(y1, y0)) - ## https://github.com/HenrikBengtsson/future.apply/issues/61 + ## https://github.com/futureverse/future.apply/issues/61 compute <- function(a, x_vec) a + x_vec call_compute <- function(..., x_vec = 1:2){ compute_with_dots <- function(x) compute(..., x_vec = x)