Skip to content

Commit

Permalink
Edit to NEWS
Browse files Browse the repository at this point in the history
  • Loading branch information
@GRvanderPloeg
GRvanderPloeg committed Sep 30, 2024
1 parent 514f51a commit 7f20136
Show file tree
Hide file tree
Showing 7 changed files with 118 additions and 14 deletions.
3 changes: 3 additions & 0 deletions CRAN-SUBMISSION
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,3 @@
Version: 1.0.3
Date: 2024-09-24 10:24:00 UTC
SHA: 514f51a29fadeafed3afbc5eead7cd2d8a935511
2 changes: 2 additions & 0 deletions NEWS.md
View file
Original file line number Diff line number Diff line change
@@ -1,5 +1,7 @@
# parafac4microbiome 1.0.3

* Minor changes to tests for `parafac_gradient` to make them more robust towards various platforms checked by CRAN.

# parafac4microbiome 1.0.2

* Further rework of `importPhyloseq`, `importTreeSummarizedExperiment` and `importMicrobiotaProcess` to meet CRAN requirements.
Expand Down
20 changes: 6 additions & 14 deletions cran-comments.md
View file
Original file line number Diff line number Diff line change
@@ -1,18 +1,10 @@
## Resubmission

This is a resubmission. In this version I have:
## R CMD check results

* Added "()" behind all function names in DESCRIPTION.
* Changed the @exampleIf of the importPhyloseq(), importTreeSummarizedExperiment() and importMicrobiotaProcess() documentation to run only when their respective packages are installed since those packages are SUGGESTs.
* Substantially reworked the importPhyloseq(), importTreeSummarizedExperiment() and importMicrobiotaProcess() functions to speed them up.
* Changed the importMicrobiotaProcess() example to a smaller synthetic case to decrease runtime.
* Wrapped the importMicrobiotaProcess example in \donttest as it still violates the CRAN time limit requirement due to large overhead of the MicrobiotaProcess and SummarizedExperiment packages.
* Changed the example in plotPARAFACmodel() to reliably meet the timing requirement.
* Changed the example in assessModelStability() to reliably meet the timing requirement.
0 errors | 0 warnings | 0 notes

## R CMD check results
## revdepcheck results

0 errors | 0 warnings | 1 note
We checked 0 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package.

* This is a new release.
* This is my first submission of this package.
* We saw 0 new problems
* We failed to check 0 packages
98 changes: 98 additions & 0 deletions revdep/README.md
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,98 @@
# 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 |English_United Kingdom.utf8 |
|ctype |English_United Kingdom.utf8 |
|tz |Europe/Paris |
|date |2024-09-24 |
|rstudio |2024.04.2+764 Chocolate Cosmos (desktop) |
|pandoc |NA |

# Dependencies

|package |old |new |Δ |
|:------------------|:----------|:----------|:--|
|parafac4microbiome |1.0.2 |1.0.2.9000 |* |
|abind |1.4-8 |1.4-8 | |
|backports |1.5.0 |1.5.0 | |
|bayesm |3.1-6 |3.1-6 | |
|broom |1.0.6 |1.0.6 | |
|car |3.1-2 |3.1-2 | |
|carData |3.0-5 |3.0-5 | |
|cli |3.6.3 |3.6.3 | |
|CMLS |1.0-1 |1.0-1 | |
|colorspace |2.1-1 |2.1-1 | |
|compositions |2.0-8 |2.0-8 | |
|corrplot |0.94 |0.94 | |
|cowplot |1.1.3 |1.1.3 | |
|cpp11 |0.5.0 |0.5.0 | |
|DEoptimR |1.1-3 |1.1-3 | |
|Deriv |4.1.6 |4.1.6 | |
|doBy |4.6.22 |4.6.22 | |
|doParallel |1.0.17 |1.0.17 | |
|dplyr |1.1.4 |1.1.4 | |
|fansi |1.0.6 |1.0.6 | |
|farver |2.1.2 |2.1.2 | |
|foreach |1.5.2 |1.5.2 | |
|generics |0.1.3 |0.1.3 | |
|ggplot2 |3.5.1 |3.5.1 | |
|ggpubr |0.6.0 |0.6.0 | |
|ggrepel |0.9.6 |0.9.6 | |
|ggsci |3.2.0 |3.2.0 | |
|ggsignif |0.6.4 |0.6.4 | |
|glue |1.7.0 |1.7.0 | |
|gridExtra |2.3 |2.3 | |
|gtable |0.3.5 |0.3.5 | |
|isoband |0.2.7 |0.2.7 | |
|iterators |1.0.14 |1.0.14 | |
|labeling |0.4.3 |0.4.3 | |
|lifecycle |1.0.4 |1.0.4 | |
|lme4 |1.1-35.5 |1.1-35.5 | |
|magrittr |2.0.3 |2.0.3 | |
|MatrixModels |0.5-3 |0.5-3 | |
|microbenchmark |1.5.0 |1.5.0 | |
|minqa |1.2.8 |1.2.8 | |
|mize |0.2.4 |0.2.4 | |
|modelr |0.1.11 |0.1.11 | |
|multiway |1.0-6 |1.0-6 | |
|munsell |0.5.1 |0.5.1 | |
|nloptr |2.1.1 |2.1.1 | |
|numDeriv |2016.8-1.1 |2016.8-1.1 | |
|pbkrtest |0.5.3 |0.5.3 | |
|pillar |1.9.0 |1.9.0 | |
|pkgconfig |2.0.3 |2.0.3 | |
|polynom |1.4-1 |1.4-1 | |
|pracma |2.4.4 |2.4.4 | |
|purrr |1.0.2 |1.0.2 | |
|quadprog |1.5-8 |1.5-8 | |
|quantreg |5.98 |5.98 | |
|R6 |2.5.1 |2.5.1 | |
|RColorBrewer |1.1-3 |1.1-3 | |
|Rcpp |1.0.13 |1.0.13 | |
|RcppArmadillo |14.0.2-1 |14.0.2-1 | |
|RcppEigen |0.3.4.0.2 |0.3.4.0.2 | |
|rlang |1.1.4 |1.1.4 | |
|robustbase |0.99-4 |0.99-4 | |
|rstatix |0.7.2 |0.7.2 | |
|rTensor |1.4.8 |1.4.8 | |
|scales |1.3.0 |1.3.0 | |
|SparseM |1.84-2 |1.84-2 | |
|stringi |1.8.4 |1.8.4 | |
|stringr |1.5.1 |1.5.1 | |
|tensorA |0.36.2.1 |0.36.2.1 | |
|tibble |3.2.1 |3.2.1 | |
|tidyr |1.3.1 |1.3.1 | |
|tidyselect |1.2.1 |1.2.1 | |
|utf8 |1.2.4 |1.2.4 | |
|vctrs |0.6.5 |0.6.5 | |
|viridisLite |0.4.2 |0.4.2 | |
|withr |3.0.1 |3.0.1 | |

# Revdeps

7 changes: 7 additions & 0 deletions revdep/cran.md
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
## revdepcheck results

We checked 0 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package.

* We saw 0 new problems
* We failed to check 0 packages

1 change: 1 addition & 0 deletions revdep/failures.md
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
*Wow, no problems at all. :)*
1 change: 1 addition & 0 deletions revdep/problems.md
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
*Wow, no problems at all. :)*

0 comments on commit 7f20136

Please sign in to comment.