Dear CRAN Team,
the following issues have been addressed:
Found the following (possibly) invalid URLs: URL: https://cran.r-project.org/web/packages/sjSDM/index.html From: inst/doc/C-Example_Species_distribution_modeling.html Status: 200 Message: OK CRAN URL not in canonical form URL: https://cran.r-project.org/web/packages/sjSDM/vignettes/sjSDM_Introduction.html From: inst/doc/C-Example_Species_distribution_modeling.html Status: 200 Message: OK CRAN URL not in canonical form
Links were changed to https://cran.r-project.org/package=sjSDM
Many thanks! Best, Max Pichler
This is a major update. The update includes new loss/likelihood functions, hyperparameter tuning, bug fixes, and improved documentation.
Best, Max Pichler
Locally:
- MacOS Monterey 14.1.2 (R aarch64-apple-darwin20) (CPU and mps devices)
- Ubuntu 20.04 (for GPU device)
Github actions:
- macOS-latest (release)
- Ubuntu 20.04 R-release, and R-development
- Windows-latest R-release
Win-builder
- R-release, R-development, and R-oldrelease
Spelling has been checked (potential errors are intended).
Dear CRAN Team,
I apologize for the inconvenience (several submission attempts), but it seems that that something went wrong with my last attempt?
All issues were addressed.
Best, Maximilian Pichler
Issue:
Unfortunately, the manual cannot be built on the CRAN ,aster with its
older LaTeX installtion and hence this never got published.
Reason:
LaTeX Warning: File learning\_rates.jpg' not found on input line 881. ! Package pdftex.def Error: File learning\T1\textunderscorerates.jpg'
not found
d: using draft setting.
See the pdftex.def package documentation for explanation.
Type H for immediate help.
...
l.881 \Figure{learning_rates.jpg}{}
Can you please rename the file and omit the underscore? ALso in the Rd
files that refer to it.
Done. Thank you.
Best, Maximilian Pichler
Issues: Found the following (possibly) invalid DOIs: DOI: arXiv.2303.09599 From: inst/CITATION Message: Invalid DOI
Last time I wrote
"... please onlk use the DOI, i.e. 10.48550/arXiv.2303.09599 within the DOI markup."
Please fix and resubmit.
Fixed, thanks.
Best, Maximilian Pichler
Issues:
Found the following (possibly) invalid DOIs: DOI: https://doi.org/10.48550/arXiv.2303.09599 From: inst/CITATION Status: 404 Message: Not Found
This is an URL, please onlky use the DOI, i.e. 10.48550/arXiv.2303.09599 within the DOI markup.
Size of tarball: 12294996 bytes
Both issues were addressed. The package should have now a size of less than 5MB.
Best, Maximilian Pichler
This is a major update where several features such as bootstrapping for uncertainties and additional xAI methods (average conditional effects) have been added. Also, several bugs have been fixed, documentation has been improved, and 3 vignettes were added.
We would also like to announce a change of maintainer: Maximilian Pichler, co-author of cito, will take over the position of maintainer.
Old maintainer: Christian Amesöder, Christian.Amesoeder@informatik.uni-regensburg.de
New Maintainer: Maximilian Pichler, maximilian.pichler@biologie.uni-regensburg.de
In the first submission we had problems passing the rcmdcheck. We changed the vignettes back to .rmd files.
Best, Maximilian Pichler
Locally: MacOS Monterey 13.4.1 (R aarch64-apple-darwin20)
Github actions:
- macOS-latest (release)
- Ubuntu 20.04 R-release, and R-development
- Windows-latest R-release
Win-builder
- R-release, R-development, and R-oldrelease
This is a major update where several features such as bootstrapping for uncertainties and additional xAI methods (average conditional effects) have been added. Also, several bugs have been fixed, documentation has been improved, and 3 vignettes were added.
We would also like to announce a change of maintainer: Maximilian Pichler, co-author of cito, will take over the position of maintainer.
Old maintainer: Christian Amesöder, Christian.Amesoeder@informatik.uni-regensburg.de
New Maintainer: Maximilian Pichler, maximilian.pichler@biologie.uni-regensburg.de
Due to the long creation time of the vignettes, we decided to include them as pre-built static HTML vignettes using the R.rsp package. We hope that we have included them in the right way.
Best, Max
Locally: MacOS Monterey 13.4.1 (R aarch64-apple-darwin20)
Github actions:
- macOS-latest (release)
- Ubuntu 20.04 R-release, and R-development
- Windows-latest R-release
Win-builder
- R-release, R-development, and R-oldrelease
Notes from win-builder: Found the following hidden files and directories: vignettes/.html These were most likely included in error. See section 'Package structure' in the 'Writing R Extensions' manual.
This is a minor update, fixing a few bugs in the ALE and PDP functions, and improving the runtime by changing the dataloader Maintainer E-mail updated from *@stud.uni-regensburg.de to @informatik.uni-regensburg.de
There was an issue with the tests, which Brian Ripley kindly found out and took of CRAN. This issue is resolved and the tests as well as examples have been reworked.
Sorry for the inconvenience
Cheers, Christian
Hello,
Thanks for the feedback, I adressed all your points below.
Best, Christian
Please always write package names, software names and API (application programming interface) names in single quotes in title and description. e.g: --> 'R' Please note that package names are case sensitive.
Done.
If there are references describing the methods in your package, please add these in the description field of your DESCRIPTION file in the form authors (year) doi:... authors (year) arXiv:... authors (year, ISBN:...) or if those are not available: https:... with no space after 'doi:', 'arXiv:', 'https:' and angle brackets for auto-linking. (If you want to add a title as well please put it in quotes: "Title")
There is no publication yet.
Please add \value to .Rd files regarding exported methods and explain the functions results in the documentation. Please write about the structure of the output (class) and also what the output means. (If a function does not return a value, please document that too, e.g. \value{No return value, called for side effects} or similar) Missing Rd-tags: ALE.Rd: \value PDP.Rd: \value plot.citodnn.Rd: \value print.summary.citodnn.Rd: \value
Done.
Please unwrap the examples if they are executable in < 5 sec, or replace \dontrun{} with \donttest{}.
Done, replaced \dontrun{} with \donttest{}.
Please do not install packages in your functions, examples or vignette. This can make the functions, examples and cran-check very slow.
Done.
Successfull R CMD checks under
-
Locally: Windows 11 (R x86_64 version)
-
Github actions:
- MacOS -latest R-release
- Ubuntu 20.04 R-release, R-oldrelease, and R-development
-
Rhub:
- Windows Server 2022, R-devel, 64 bit
-
Win-builder R-release, R-development, and R-oldrelease
1 Note for all Win-builder logs:
checking CRAN incoming feasibility ... NOTE
Maintainer: 'Christian Amesöder Christian.Amesoeder@stud.uni-regensburg.de'
New submission
This is expected
The devtools spell_check() gives out some words, however all of them have been checked and are indeed correct.
The Github Windows-latest R-release fails with:
Error: Error: <callr_remote_error: Failed to build source package 'igraph'>
in process 4736
-->
Failed to build source package 'igraph', stdout + stderr:
This seems to be a temporary external problem and I expect it to be gone in a couple of days.