Back to BiocCheck report for a small subset of BioC 3.19 packages |
This page was generated on 2024-06-28 11:15:02 -0400 (Fri, 28 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4760 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 75/119 | Hostname | OS / Arch | BUILD | BIOCCHECK | |||||||
MsCoreUtils 1.17.0 (landing page) RforMassSpectrometry Package Maintainer
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | ERROR | |||||||
To the developers/maintainers of the MsCoreUtils package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: MsCoreUtils |
Version: 1.17.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('MsCoreUtils_1.17.0.tar.gz')" |
StartedAt: 2024-06-28 10:45:49 -0400 (Fri, 28 Jun 2024) |
EndedAt: 2024-06-28 10:46:12 -0400 (Fri, 28 Jun 2024) |
EllapsedTime: 22.9 seconds |
RetCode: None |
Status: ERROR |
Warnings: 3 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('MsCoreUtils_1.17.0.tar.gz')" ### ############################################################################## ############################################################################## ─ BiocCheckVersion: 1.41.3 ─ BiocVersion: 3.20 ─ Package: MsCoreUtils ─ PackageVersion: 1.17.0 ─ sourceDir: /tmp/Rtmp73WyRb/file3b1f735055af46/MsCoreUtils ─ installDir: /tmp/Rtmp73WyRb/file3b1f732f254a6b ─ BiocCheckDir: /home/biocbuild/bbs-3.19-bioc-testing/meat/MsCoreUtils.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 3.6.0 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 of less than 3 sentences. Provide a more detailed description of the package. * 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... Bioconductor dependencies found in Imports & Depends (20%). * Checking for pinned package versions in DESCRIPTION... * Checking .Rbuildignore... * Checking for stray BiocCheck output folders... * Checking vignette directory... * Checking package installation calls in R code... * Checking for library/require of MsCoreUtils... * Checking coding practice... * ERROR: Use double colon for qualified imports: 'pkg::foo()' * NOTE: Avoid using '=' for assignment and use '<-' instead * WARNING: Avoid T/F variables; If logical, use TRUE/FALSE * WARNING: .Deprecated / .Defunct usage (found 2 times) * Checking parsed R code in R directory, examples, vignettes... * NOTE: Avoid 'suppressWarnings'/'*Messages' if possible (found 1 times) * Checking function lengths... * NOTE: The recommended function length is 50 lines or less. There are 4 functions greater than 50 lines. * Checking man page documentation... * WARNING: Empty or missing \value sections found in man page(s). * 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; 15 lines (0%) are > 80 characters long. * NOTE: Consider multiples of 4 spaces for line indents; 85 lines (2%) 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. * ERROR: Add package to Watched Tags in your Support Site profile; visit https://support.bioconductor.org/accounts/edit/profile ─ BiocCheck results ── 2 ERRORS | 3 WARNINGS | 9 NOTES See the MsCoreUtils.BiocCheck folder and run browseVignettes(package = 'BiocCheck') for details.