Back to BiocCheck report for a small subset of BioC 3.19 packages |
This page was generated on 2024-06-28 11:15:01 -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 3/119 | Hostname | OS / Arch | BUILD | BIOCCHECK | |||||||
affyio 1.75.0 (landing page) Ben Bolstad
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | ERROR | |||||||
To the developers/maintainers of the affyio 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: affyio |
Version: 1.75.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('affyio_1.75.0.tar.gz')" |
StartedAt: 2024-06-28 10:43:58 -0400 (Fri, 28 Jun 2024) |
EndedAt: 2024-06-28 10:44:14 -0400 (Fri, 28 Jun 2024) |
EllapsedTime: 16.2 seconds |
RetCode: None |
Status: ERROR |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('affyio_1.75.0.tar.gz')" ### ############################################################################## ############################################################################## ─ BiocCheckVersion: 1.41.3 ─ BiocVersion: 3.20 ─ Package: affyio ─ PackageVersion: 1.75.0 ─ sourceDir: /tmp/RtmpslNPHR/file3ac5c81be5ad23/affyio ─ installDir: /tmp/RtmpslNPHR/file3ac5c84044a5ca ─ BiocCheckDir: /home/biocbuild/bbs-3.19-bioc-testing/meat/affyio.BiocCheck ─ platform: unix ─ isTarBall: TRUE * Installing package... * Checking for deprecated package usage... * ERROR: Package dependency in the DESCRIPTION is 'Deprecated'. Update your package to not rely on the following: * 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 2.6.0 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... No vignettes found. * 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... * ERROR: Remove Maintainer field. Use Authors@R [cre] designation. * Checking License: for restrictive use... * Checking for recommended DESCRIPTION fields... * NOTE: Provide 'BugReports' field(s) in DESCRIPTION * Checking for Bioconductor software dependencies... Bioconductor dependencies found in Imports & Depends (50%). * Checking for pinned package versions in DESCRIPTION... * Checking .Rbuildignore... * Checking for stray BiocCheck output folders... * Checking vignette directory... * ERROR: No 'vignettes' directory. * Checking package installation calls in R code... * Checking for library/require of affyio... * Checking coding practice... * NOTE: Avoid 'cat' and 'print' outside of 'show' methods * NOTE: Avoid the use of 'paste' in condition signals * Checking parsed R code in R directory, examples, vignettes... * Checking function lengths... * Checking man page documentation... * WARNING: Empty or missing \value sections found in man page(s). * ERROR: At least 80% of man pages documenting exported objects must have runnable examples. * Checking package NEWS... * NOTE: Consider adding a NEWS file, so your package news will be included in Bioconductor release announcements. * Checking unit tests... * NOTE: Consider adding unit tests. We strongly encourage them. See https://contributions.bioconductor.org/tests.html * Checking skip_on_bioc() in tests... * Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source, and vignette source... * NOTE: Consider shorter lines; 16 lines (5%) are > 80 characters long. * NOTE: Consider multiples of 4 spaces for line indents; 64 lines (20%) 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 ── 4 ERRORS | 1 WARNINGS | 10 NOTES See the affyio.BiocCheck folder and run browseVignettes(package = 'BiocCheck') for details.