Loading required package: BiocCheck ─ BiocCheckVersion: 1.31.37 ─ BiocVersion: 3.15 ─ Package: progeny ─ PackageVersion: 1.17.2 ─ sourceDir: /tmp/RtmpT5R76H/file290e842abf3efd/progeny ─ installDir: /tmp/RtmpT5R76H/file290e843d2ac80e ─ BiocCheckDir: /home/omnipath/testing/progeny/bioc-3.15/2022-04-21_0900/PROGENy/progeny.BiocCheck ─ platform: unix ─ isTarBall: TRUE * Installing package... * Checking package dependencies... * Checking if other packages can import this one... * Checking to see if we understand object initialization... * Checking for deprecated package usage... * Checking for remote package usage... * ERROR: Package dependencies must be on CRAN or Bioconductor. Remove 'Remotes:' from DESCRIPTION * Checking for 'LazyData: true' usage... * NOTE: 'LazyData:' in the 'DESCRIPTION' should be set to false or removed * 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 4.2.0. * Checking package size... * ERROR: Package tarball exceeds the Bioconductor size requirement. * 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: SingleCell, Transcriptomics 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... * Checking License: for restrictive use... * NOTE: License 'Apache License (== 2.0) | file LICENSE' unknown; licenses cannot restrict use * Checking for pinned package versions... * Checking DESCRIPTION/NAMESPACE consistency... * WARNING: Import decoupleR in NAMESPACE as well as DESCRIPTION. * Checking .Rbuildignore... * Checking for stray BiocCheck output folders... * Checking vignette directory... Warning in png(..., res = dpi, units = "in") : unable to open connection to X11 display '' * NOTE: 'sessionInfo' not found in vignette(s) * Checking package installation calls in R code... * Checking for library/require of progeny... * Checking coding practice... * NOTE: Avoid using '=' for assignment and use '<-' instead * NOTE: Avoid the use of 'paste' in condition signals * WARNING: Avoid T/F variables; If logical, use TRUE/FALSE * Checking parsed R code in R directory, examples, vignettes... * Checking function lengths... * NOTE: Recommended function length <= 50 lines.There are 3 functions > 50 lines. * Checking man page documentation... * 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; 17 lines (2%) are > 80 characters long. * NOTE: Consider multiples of 4 spaces for line indents; 64 lines (6%) are not. See http://bioconductor.org/developers/how-to/coding-style/ 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 ── 2 ERRORS | 2 WARNINGS | 12 NOTES See the progeny.BiocCheck folder and run browseVignettes(package = 'BiocCheck') for details.