[ Started: 2024-04-07 16:58:37 CEST ] [ CARNIVAL v2.7.2 for BioC-3.19 from https://github.com/saezlab/CARNIVAL@master (2b8887a 2023-12-06 13:18:32) ] Loading required package: BiocCheck Warning message: package ‘BiocCheck’ was built under R version 4.5.0 ─ BiocCheckVersion: 1.39.27 ─ BiocVersion: 3.19 ─ Package: CARNIVAL ─ PackageVersion: 2.7.2 ─ sourceDir: /tmp/RtmpCezwv9/file5ffab7d30623/CARNIVAL ─ installDir: /tmp/RtmpCezwv9/file5ffab121dfcbc ─ BiocCheckDir: /mnt/disk0/build/bioc-check/carnival/bioc-3.19/2024-04-07_1657/CARNIVAL/CARNIVAL.BiocCheck ─ platform: unix ─ isTarBall: TRUE * Installing package... * Checking for deprecated package usage... * Checking for remote package usage... * Checking for 'LazyData: true' usage... * Checking version number... * Checking for version number mismatch... * Checking version number validity... * Checking R version dependency... * NOTE: Update R version dependency from 4.0 to 4.4.0. * Checking package size... * Checking individual file sizes... * Checking biocViews... * Checking that biocViews are present... * Checking package type based on biocViews... Software * Checking for non-trivial biocViews... * Checking that biocViews come from the same category... * Checking biocViews validity... * Checking for recommended biocViews... * Checking build system compatibility... * Checking for blank lines in DESCRIPTION... * Checking if DESCRIPTION is well formatted... * Checking for proper Description: field... * NOTE: The Description field in the DESCRIPTION is made up by less than 3 sentences. Please consider expanding this field, and structure it as a full paragraph * Checking for whitespace in DESCRIPTION field names... * Checking that Package field matches directory/tarball name... * Checking for Version: field... * Checking for valid maintainer... * NOTE: Consider adding the maintainer's ORCID iD in 'Authors@R' with 'comment=c(ORCID="...")' * Checking License: for restrictive use... * Checking for recommended DESCRIPTION fields... * Checking for Bioconductor software dependencies... * WARNING: No Bioconductor dependencies detected. Reach out to the Bioconductor community or consider a CRAN submission. * Checking for pinned package versions in DESCRIPTION... * Checking DESCRIPTION/NAMESPACE consistency... * Checking .Rbuildignore... * Checking for stray BiocCheck output folders... * Checking vignette directory... * Checking package installation calls in R code... * Checking for library/require of CARNIVAL... * Checking coding practice... * NOTE: Avoid sapply(); use vapply() * NOTE: Avoid 1:...; use seq_len() or seq_along() * NOTE: Avoid 'cat' and 'print' outside of 'show' methods * NOTE: Avoid using '=' for assignment and use '<-' instead * NOTE: Avoid the use of 'paste' in condition signals * Checking parsed R code in R directory, examples, vignettes... * NOTE: Avoid '<<-' if possible (found 2 times) * Checking function lengths... * NOTE: The recommended function length is 50 lines or less. There are 6 functions greater than 50 lines. * Checking man page documentation... * NOTE: Consider adding runnable examples to man pages that document exported objects. * Checking package NEWS... * Checking unit tests... * Checking skip_on_bioc() in tests... * Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source, and vignette source... * NOTE: Consider shorter lines; 275 lines (7%) are > 80 characters long. * NOTE: Consider multiples of 4 spaces for line indents; 1522 lines (39%) are not. See https://contributions.bioconductor.org/r-code.html See styler package: https://cran.r-project.org/package=styler as described in the BiocCheck vignette. * Checking if package already exists in CRAN... * Checking for bioc-devel mailing list subscription... * NOTE: 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 * Checking for support site registration... Maintainer is registered at support site. Package is in the Support Site Watched Tags. ─ BiocCheck results ── 0 ERRORS | 1 WARNINGS | 14 NOTES See the CARNIVAL.BiocCheck folder and run browseVignettes(package = 'BiocCheck') for details. [ Finished: 2024-04-07 16:58:54 CEST ]