[ Started: 2024-08-16 02:17:57 CEST ] [ dorothea v1.7.4 for BioC-3.20 from https://github.com/saezlab/dorothea@master (1461fb7 2024-02-24 12:55:48) ] Loading required package: BiocCheck ── Installing dorothea ───────────────────────────────────────────────────────── ✔ Package installed successfully ── dorothea session metadata ─────────────────────────────────────────────────── → sourceDir: /tmp/RtmpkJ1zeN/file5263f216879e5/dorothea → BiocVersion: 3.20 → Package: dorothea → PackageVersion: 1.7.4 → BiocCheckDir: /mnt/disk0/build/bioc-check/dorothea/bioc-3.20/2024-08-16_0206/dorothea/dorothea.BiocCheck → BiocCheckVersion: 1.41.12 → sourceDir: /tmp/RtmpkJ1zeN/file5263f216879e5/dorothea → installDir: /tmp/RtmpkJ1zeN/file5263f7ef905b9 → isTarBall: TRUE → platform: unix ── Running BiocCheck on dorothea ─────────────────────────────────────────────── ℹ Checking for deprecated package usage... ✔ Checking for deprecated package usage... [10ms] ℹ Checking for remote package usage... ✔ Checking for remote package usage... [12ms] ℹ Checking for 'LazyData: true' usage... ✔ Checking for 'LazyData: true' usage... [6ms] ℹ N: 'LazyData:' in the 'DESCRIPTION' should be set to false or removed ℹ Checking version number... ✔ Checking version number... [6ms] ℹ Checking for version number mismatch... ✔ Checking for version number mismatch... [6ms] ℹ Checking version number validity... ✔ Checking version number validity... [6ms] ℹ Checking R version dependency... ✔ Checking R version dependency... [6ms] ℹ N: Update R version dependency from 4.0 to 4.4.0. ℹ Checking package size... ✔ Checking package size... [10ms] ℹ Checking individual file sizes... ✔ Checking individual file sizes... [6ms] ! W: Package files exceed the 5MB size limit. ! W: Data files exceed the 5MB size limit. ℹ Checking biocViews... ✔ Checking biocViews... [6ms] ℹ Checking that biocViews are present... ✔ Checking that biocViews are present... [6ms] ℹ Checking package type based on biocViews... ✔ Checking package type based on biocViews... [10ms] → ExperimentData ℹ Checking for non-trivial biocViews... ✔ Checking for non-trivial biocViews... [6ms] ℹ Checking that biocViews come from the same category... ✔ Checking that biocViews come from the same category... [6ms] ℹ Checking biocViews validity... ✔ Checking biocViews validity... [6ms] ℹ Checking for recommended biocViews... ✔ Checking for recommended biocViews... [6ms] ℹ Checking build system compatibility... ✔ Checking build system compatibility... [6ms] ℹ Checking for proper Description: field... ✔ Checking for proper Description: field... [6ms] ℹ Checking if DESCRIPTION is well formatted... ✔ Checking if DESCRIPTION is well formatted... [6ms] ℹ Checking for whitespace in DESCRIPTION field names... ✔ Checking for whitespace in DESCRIPTION field names... [6ms] ℹ Checking that Package field matches directory/tarball name... ✔ Checking that Package field matches directory/tarball name... [6ms] ℹ Checking for Version: field... ✔ Checking for Version: field... [6ms] ℹ Checking License: for restrictive use... ✔ Checking License: for restrictive use... [6ms] ℹ Checking for recommended DESCRIPTION fields... ✔ Checking for recommended DESCRIPTION fields... [6ms] ℹ Checking for Bioconductor software dependencies... ✔ Checking for Bioconductor software dependencies... [6ms] ℹ Bioconductor dependencies found in Imports & Depends (25%). ℹ Checking for pinned package versions in DESCRIPTION... ✔ Checking for pinned package versions in DESCRIPTION... [6ms] ℹ Checking .Rbuildignore... ✔ Checking .Rbuildignore... [6ms] ℹ Checking for stray BiocCheck output folders... ✔ Checking for stray BiocCheck output folders... [6ms] ℹ Checking vignette directory... ✔ Checking vignette directory... [6ms] ℹ N: 'sessionInfo' not found in vignette(s) ℹ Checking package installation calls in R code... ✔ Checking package installation calls in R code... [8ms] ℹ Checking for library/require of dorothea... ✔ Checking for library/require of dorothea... [9ms] ℹ Checking coding practice... ✔ Checking coding practice... [7ms] ℹ N: Avoid using '=' for assignment and use '<-' instead ! W: .Deprecated / .Defunct usage (found 1 times) ℹ Checking parsed R code in R directory, examples, vignettes... ✔ Checking parsed R code in R directory, examples, vignettes... [10ms] ℹ Checking function lengths... ✔ Checking function lengths... [6ms] ℹ Checking man page documentation... ✔ Checking man page documentation... [6ms] ! W: Empty or missing \value sections found in man page(s). ℹ Checking package NEWS... ✔ Checking package NEWS... [6ms] ℹ Checking unit tests... ✔ Checking unit tests... [6ms] ℹ Checking skip_on_bioc() in tests... ✔ Checking skip_on_bioc() in tests... [6ms] ℹ Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source, and vigne… ✔ Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source, and vigne… ℹ N: Consider shorter lines; 12 lines (2%) are > 80 characters long. ℹ N: Consider multiples of 4 spaces for line indents; 104 lines (19%) are not. ℹ See https://contributions.bioconductor.org/r-code.html ℹ See styler package: https://cran.r-project.org/package=styler as described in the BiocCheck vignette. ℹ Checking if package already exists in CRAN... ✔ Checking if package already exists in CRAN... [6ms] 'getOption("repos")' replaces Bioconductor standard repositories, see 'help("repositories", package = "BiocManager")' for details. Replacement repositories: CRAN: https://cloud.r-project.org ℹ Checking for bioc-devel mailing list subscription... ✔ Checking for bioc-devel mailing list subscription... [6ms] ℹ N: Cannot determine whether maintainer is subscribed to the Bioc-Devel mailing list (requires admin credentials). Subscribe here: https://stat.ethz.ch/mailman/listinfo/bioc-devel ℹ Checking for support site registration... ✔ Checking for support site registration... [6ms] ℹ Maintainer is registered at support site. ✖ E: Add package to Watched Tags in your Support Site profile; visit https://support.bioconductor.org/accounts/edit/profile ── BiocCheck v1.41.12 results ────────────────────────────────────────────────── ✖ 1 ERRORS | ⚠ 4 WARNINGS | • 7 NOTES ℹ See the dorothea.BiocCheck folder and run browseVignettes(package = 'BiocCheck') for details. [ Finished: 2024-08-16 02:18:39 CEST ]