[R-pkg-devel] Fwd: [CRAN-pretest-archived] CRAN submission maGUI 2.3

Martin Morgan mtmorg@n@bioc @ending from gm@il@com
Mon Nov 12 13:14:58 CET 2018

I cannot tell whether this will be helpful or not. It looks to me like the warning occurs when one of your dependencies uses BiocInstaller. You could create a database of all available packages

  db = available.packages()

find the installation dependencies of your package dependencies

  flds = c("Depends", "Imports", "LinkingTo")
  pkgs = read.dcf("DESCRIPTION", flds)[, flds]
  pkgs = trimws(unlist(strsplit(pkgs, ","), use.names = FALSE))
  pkgs = pkgs[!is.na(pkgs)]

and discover which references BiocInstaller

  deps = tools::package_dependencies(pkgs, db, recursive = TRUE)
  unlist(deps)["BiocInstaller" %in% unlist(deps)]

But actually when I run this with version 2.2 of your package I don't see a dependency on BiocInstaller (other than in your own package).


On 11/11/18, 9:55 PM, "R-package-devel on behalf of dhamma pal" <r-package-devel-bounces using r-project.org on behalf of dhammapalb using uohyd.ac.in> wrote:

    The latest version donot use BIOCINSTALLER or bioclite, still getting a
    Errors are not detected in the current version, i.e. 2.3 version of maGUI.
    But errors are getting reported in the earlier version i.e., 2.2 which is
    not the making the current version to pass through the CRAN. I have tried
    to submit the corrected  package with version 2.2 to rectify the errors,
    but getting overriden error. Now how to ugrade maGUI to 2.3?
    Thanks in advance.
    ---------- Forwarded message ---------
    From: <ligges using statistik.tu-dortmund.de>
    Date: Thu, 8 Nov 2018, 1:12 pm
    Subject: [CRAN-pretest-archived] CRAN submission maGUI 2.3
    To: <dhammapalb using uohyd.ac.in>
    Cc: <CRAN-submissions using r-project.org>
    Dear maintainer,
    package maGUI_2.3.tar.gz does not pass the incoming checks automatically,
    please see the following pre-tests:
    Windows: <
    Status: 1 WARNING, 1 NOTE
    Debian: <
    Status: 1 NOTE
    Last released version's CRAN status: ERROR: 2
    See: <https://CRAN.R-project.org/web/checks/check_results_maGUI.html>
    CRAN Web: <https://cran.r-project.org/package=maGUI>
    Please fix all problems and resubmit a fixed version via the webform.
    If you are not sure how to fix the problems shown, please ask for help on
    the R-package-devel mailing list:
    If you are fairly certain the rejection is a false positive, please
    reply-all to this message and explain.
    More details are given in the directory:
    The files will be removed after roughly 7 days.
    No strong reverse dependencies to be checked.
    Best regards,
    CRAN teams' auto-check service
    Flavor: r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64
    Check: CRAN incoming feasibility, Result: NOTE
      Maintainer: 'Dhammapal Bharne <dhammapalb using uohyd.ac.in>'
      New submission
      Package was archived on CRAN
      CRAN repository db overrides:
        X-CRAN-Comment: Archived on 2018-11-01 as check warnings were not
          corrected despite a month's notice.
        Needed change for BioC 3.8
    Flavor: r-devel-windows-ix86+x86_64
    Check: whether package can be installed, Result: WARNING
      Found the following significant warnings:
        Warning: 'BiocInstaller' and 'biocLite()' are deprecated, use the
    'BiocManager' CRAN
      See 'd:/RCompile/CRANincoming/R-devel/maGUI.Rcheck/00install.out' for
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