diff --git a/CRAN-SUBMISSION b/CRAN-SUBMISSION index 90162a6..808ecf0 100644 --- a/CRAN-SUBMISSION +++ b/CRAN-SUBMISSION @@ -1,3 +1,3 @@ -Version: 0.9.4 -Date: 2024-08-20 20:00:54 UTC -SHA: 6269666c0bc2dbb48fd4193adec46b9fbf4fdccd +Version: 0.9.5 +Date: 2024-09-14 14:14:08 UTC +SHA: e775f6a245c773e04687d846e06e9aeb24702bac diff --git a/cran-comments.md b/cran-comments.md index 72effc2..a5f69ef 100644 --- a/cran-comments.md +++ b/cran-comments.md @@ -1,15 +1,16 @@ -# shapviz 0.9.4 +# shapviz 0.9.5 (RESUBMISSION) -Dear CRAN team +Fixed duplicated vignette entry, as pointed out by the automatic checks by CRAN. -This update mainly ensures that upcoming XGBoost version 2.x.x will work. +## Original message +Dear CRAN team -### Local checks +This update brings a new vignette, and improvements of the existing documentation. -Ok, with note +### Local checks -Packages which this enhances but not available for checking: 'fastshap', 'h2o' +0 errors, 0 warnings, 0 notes ### Winbuilder() @@ -17,8 +18,4 @@ Status: OK ## Reverse dependencies (2) -- fastshap 0.1.1 ── E: 0 | W: 1 | N: 1 -- lowml 0.1.3 ── E: 0 | W: 0 | N: 0 - -OK: 2 -BROKEN: 0 +2 OK diff --git a/revdep/README.md b/revdep/README.md index 182977e..423bf6f 100644 --- a/revdep/README.md +++ b/revdep/README.md @@ -1,35 +1,35 @@ # Platform -|field |value | -|:--------|:--------------------------------------------------------| -|version |R version 4.4.1 (2024-06-14 ucrt) | -|os |Windows 11 x64 (build 22631) | -|system |x86_64, mingw32 | -|ui |RStudio | -|language |(EN) | -|collate |German_Switzerland.utf8 | -|ctype |German_Switzerland.utf8 | -|tz |Europe/Zurich | -|date |2024-08-20 | -|rstudio |2024.04.2+764 Chocolate Cosmos (desktop) | -|pandoc |3.1.6 @ C:\Users\Michael\AppData\Local\Pandoc\pandoc.exe | +|field |value | +|:--------|:----------------------------------------| +|version |R version 4.4.1 (2024-06-14 ucrt) | +|os |Windows 11 x64 (build 22631) | +|system |x86_64, mingw32 | +|ui |RStudio | +|language |(EN) | +|collate |English_Switzerland.utf8 | +|ctype |English_Switzerland.utf8 | +|tz |Europe/Zurich | +|date |2024-09-13 | +|rstudio |2024.04.2+764 Chocolate Cosmos (desktop) | +|pandoc |NA | # Dependencies |package |old |new |Δ | |:------------|:-------|:-------|:--| -|shapviz |0.9.3 |0.9.4 |* | +|shapviz |0.9.4 |0.9.5 |* | |cli |3.6.3 |3.6.3 | | |colorspace |2.1-1 |2.1-1 | | |commonmark |1.9.1 |1.9.1 | | -|curl |5.2.1 |5.2.1 | | -|data.table |1.15.4 |1.15.4 | | +|curl |5.2.2 |5.2.2 | | +|data.table |1.16.0 |1.16.0 | | |fansi |1.0.6 |1.0.6 | | |farver |2.1.2 |2.1.2 | | |ggfittext |0.10.2 |0.10.2 | | |gggenes |0.5.1 |0.5.1 | | |ggplot2 |3.5.1 |3.5.1 | | -|ggrepel |0.9.5 |0.9.5 | | +|ggrepel |0.9.6 |0.9.6 | | |glue |1.7.0 |1.7.0 | | |gridtext |0.1.5 |0.1.5 | | |gtable |0.3.5 |0.3.5 | | @@ -64,3 +64,10 @@ # Revdeps +## Failed to check (2) + +|package |version |error |warning |note | +|:--------|:-------|:-----|:-------|:----| +|fastshap |0.1.1 |1 | |2 | +|flowml |? | | | | + diff --git a/revdep/cran.md b/revdep/cran.md index d07935b..e8913a8 100644 --- a/revdep/cran.md +++ b/revdep/cran.md @@ -1,7 +1,12 @@ ## revdepcheck results -We checked 2 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package. +We checked 2 reverse dependencies (1 from CRAN + 1 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package. * We saw 0 new problems - * We failed to check 0 packages + * We failed to check 1 packages +Issues with CRAN packages are summarised below. + +### Failed to check + +* fastshap (NA) diff --git a/revdep/failures.md b/revdep/failures.md index 9a20736..41a2ac1 100644 --- a/revdep/failures.md +++ b/revdep/failures.md @@ -1 +1,142 @@ -*Wow, no problems at all. :)* \ No newline at end of file +# fastshap + +
+ +* Version: 0.1.1 +* GitHub: https://github.com/bgreenwell/fastshap +* Source code: https://github.com/cran/fastshap +* Date/Publication: 2024-02-22 22:00:02 UTC +* Number of recursive dependencies: 90 + +Run `revdepcheck::revdep_details(, "fastshap")` for more info + +
+ +## In both + +* R CMD check timed out + + +* checking package dependencies ... NOTE + ``` + Package which this enhances but not available for checking: 'lightgbm' + ``` + +* checking Rd cross-references ... NOTE + ``` + Package unavailable to check Rd xrefs: 'lightgbm' + ``` + +# flowml + +
+ +* Version: +* GitHub: https://github.com/ModelOriented/shapviz +* Source code: NA +* Number of recursive dependencies: 0 + +
+ +## Error before installation + +### Devel + +``` + + There are binary versions available but the source versions are later: + binary source needs_compilation +abind 1.4-5 1.4-8 FALSE +gam 1.22-4 1.22-5 TRUE +ps 1.7.7 1.8.0 TRUE +RcppArmadillo 14.0.0-1 14.0.2-1 TRUE + + Binaries will be installed +package 'ABCanalysis' successfully unpacked and MD5 sums checked +... +package 'pls' successfully unpacked and MD5 sums checked +package 'plyr' successfully unpacked and MD5 sums checked +package 'png' successfully unpacked and MD5 sums checked +package 'prettyunits' successfully unpacked and MD5 sums checked +package 'pROC' successfully unpacked and MD5 sums checked +package 'processx' successfully unpacked and MD5 sums checked +package 'prodlim' successfully unpacked and MD5 sums checked +package 'progress' successfully unpacked and MD5 sums checked +package 'progressr' successfully unpacked and MD5 sums checked +package 'promises' successfully unpacked and MD5 sums checked + + +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4/PACKAGES' +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4/PACKAGES' +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4/PACKAGES' +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4/PACKAGES' +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4/PACKAGES' +... +2: In download.file(url, destfile, method, mode = "wb", ...) : + downloaded length 247004746 != reported length 266665380 +3: In download.file(url, destfile, method, mode = "wb", ...) : + URL 'https://cran.rstudio.com/bin/windows/contrib/4.4/h2o_3.44.0.3.zip': Timeout of 60 seconds was reached +4: In download.file(url, destfile, method, mode = "wb", ...) : + URL 'https://cran.rstudio.com/bin/windows/contrib/4.4/h2o_3.44.0.3.zip': Timeout of 60 seconds was reached +Warning in download.packages(pkgs, destdir = tmpd, available = available, : + download of package 'h2o' failed +Warning in download.packages(pkgs, destdir = tmpd, available = available, : + download of package 'h2o' failed + + +``` +### CRAN + +``` + + There are binary versions available but the source versions are later: + binary source needs_compilation +abind 1.4-5 1.4-8 FALSE +gam 1.22-4 1.22-5 TRUE +ps 1.7.7 1.8.0 TRUE +RcppArmadillo 14.0.0-1 14.0.2-1 TRUE + + Binaries will be installed +package 'ABCanalysis' successfully unpacked and MD5 sums checked +... +package 'pls' successfully unpacked and MD5 sums checked +package 'plyr' successfully unpacked and MD5 sums checked +package 'png' successfully unpacked and MD5 sums checked +package 'prettyunits' successfully unpacked and MD5 sums checked +package 'pROC' successfully unpacked and MD5 sums checked +package 'processx' successfully unpacked and MD5 sums checked +package 'prodlim' successfully unpacked and MD5 sums checked +package 'progress' successfully unpacked and MD5 sums checked +package 'progressr' successfully unpacked and MD5 sums checked +package 'promises' successfully unpacked and MD5 sums checked + + +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4/PACKAGES' +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4/PACKAGES' +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4/PACKAGES' +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4/PACKAGES' +Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4: + cannot open URL 'https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4/PACKAGES' +... +2: In download.file(url, destfile, method, mode = "wb", ...) : + downloaded length 247004746 != reported length 266665380 +3: In download.file(url, destfile, method, mode = "wb", ...) : + URL 'https://cran.rstudio.com/bin/windows/contrib/4.4/h2o_3.44.0.3.zip': Timeout of 60 seconds was reached +4: In download.file(url, destfile, method, mode = "wb", ...) : + URL 'https://cran.rstudio.com/bin/windows/contrib/4.4/h2o_3.44.0.3.zip': Timeout of 60 seconds was reached +Warning in download.packages(pkgs, destdir = tmpd, available = available, : + download of package 'h2o' failed +Warning in download.packages(pkgs, destdir = tmpd, available = available, : + download of package 'h2o' failed + + +``` diff --git a/vignettes/tidymodels.Rmd b/vignettes/tidymodels.Rmd index 14451c8..676af6d 100644 --- a/vignettes/tidymodels.Rmd +++ b/vignettes/tidymodels.Rmd @@ -4,7 +4,7 @@ bibliography: "biblio.bib" link-citations: true output: rmarkdown::html_vignette vignette: > - %\VignetteIndexEntry{Geographic Components} + %\VignetteIndexEntry{Tidymodels and SHAP} %\VignetteEncoding{UTF-8} %\VignetteEngine{knitr::rmarkdown} ---