############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.18-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('SPIA_2.55.0.tar.gz')" ### ############################################################################## ############################################################################## ─ BiocCheckVersion: 1.39.0 ─ BiocVersion: 3.18 ─ Package: SPIA ─ PackageVersion: 2.55.0 ─ sourceDir: /tmp/Rtmp8zKETu/file396213bf648a2/SPIA ─ installDir: /tmp/Rtmp8zKETu/file39621354a79334 ─ BiocCheckDir: /home/biocbuild/bbs-3.18-bioc-testing/meat/SPIA.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 2.14.0 to 4.3.0. * 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... * NOTE: Consider adding these automatically suggested biocViews: GeneExpression, TissueMicroarray, GeneSignaling, Pathways, KEGG Search 'biocViews' at https://contributions.bioconductor.org * 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... * ERROR: Remove Maintainer field. Use Authors@R [cre] designation. * Checking License: for restrictive use... * NOTE: License 'file LICENSE' unknown; licenses cannot restrict use * Checking for recommeded fields in DESCRIPTION... * NOTE: Provide 'BugReports' field(s) in DESCRIPTION * Checking for pinned package versions... * Checking DESCRIPTION/NAMESPACE consistency... * Checking .Rbuildignore... * Checking for stray BiocCheck output folders... * Checking vignette directory... * NOTE: 'sessionInfo' not found in vignette(s) * Checking package installation calls in R code... * Checking for library/require of SPIA... * Checking coding practice... * 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 * WARNING: Avoid class membership checks with class() / is() and == / !=; Use is(x, 'class') for S4 classes * WARNING: Remove set.seed usage (found 1 times) * Checking parsed R code in R directory, examples, vignettes... * Checking function lengths... * NOTE: The recommended function length is 50 lines or less. There are 3 functions greater than 50 lines. * Checking man page documentation... * WARNING: Empty or missing \value sections found in man pages. * 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; 169 lines (14%) are > 80 characters long. * NOTE: Consider multiples of 4 spaces for line indents; 354 lines (28%) 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 name is in support site watched tags. ─ BiocCheck results ── 1 ERRORS | 3 WARNINGS | 15 NOTES See the SPIA.BiocCheck folder and run browseVignettes(package = 'BiocCheck') for details.