Packages on CRAN can depend on released packages from both CRAN and
Bioconductor.
I don't know why "msa" is missing on the Debian check machine. The check
results of another CRAN package that suggests "msa" indicate that this
package is currently unavailable on all Linux, Solaris and macOS
machines of the CRAN check farm:
https://cran.r-project.org/web/checks/check_results_bio3d.html
Maybe this is a temporary problem? You could try resubmitting in a few days.
I think you should remove the automatic package installation from your
functions; they should not write to the user's home filespace without
consent.
You should probably also avoid this NOTE when submitting to CRAN:
> Version contains large components (1.0.0.9000)
Best regards,
Sebastian Meyer
Am 16.08.21 um 17:37 schrieb Pooja Gangras via R-package-devel:
Hi all,
PFA the pre-check results for my package surfaltr from CRAN. I am having
troubles with a package dependency on Debian that I am not able to fix. 2
functions in my package require a Bioconductor package msa
(https://bioconductor.org/packages/release/bioc/html/msa.html). To deal with
this error, I tried the following solution of adding a call to BiocManager and
also including a code for msa installation but it did not help:
#' @importFrom BiocManager install
#' @import msa
.
.
.
Foo() {
if (!requireNamespace("msa", quietly = TRUE)){
BiocManager::install("msa")}
}
How do I solve the problem so that I don't generate this error with Debian?
Thank you,
Pooja
Pooja Gangras, Ph.D.
Postdoctoral Research Scientist - RNA Therapeutics
Eli Lilly and Company
Lilly Corporate Center, Indianapolis IN 46285 U.S.A.
Office phone number: (317) 651-0589
Cellphone number: (614) 906-0940
gangras_po...@lilly.com | www.lilly.com
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-----Original Message-----
From: lig...@statistik.tu-dortmund.de <lig...@statistik.tu-dortmund.de>
Sent: Monday, August 16, 2021 10:32 AM
To: Pooja Gangras <gangras_po...@lilly.com>
Cc: cran-submissi...@r-project.org
Subject: [EXTERNAL] [CRAN-pretest-archived] CRAN submission surfaltr 1.0.0.9000
EXTERNAL EMAIL: Use caution before replying, clicking links, and opening
attachments.
Dear maintainer,
package surfaltr_1.0.0.9000.tar.gz does not pass the incoming checks automatically, please see the following pre-tests:
Windows:
<https://win-builder.r-project.org/incoming_pretest/surfaltr_1.0.0.9000_20210816_162209/Windows/00check.log>
Status: 1 NOTE
Debian:
<https://win-builder.r-project.org/incoming_pretest/surfaltr_1.0.0.9000_20210816_162209/Debian/00check.log>
Status: 1 ERROR, 1 NOTE
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:
<https://stat.ethz.ch/mailman/listinfo/r-package-devel>
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:
<https://win-builder.r-project.org/incoming_pretest/surfaltr_1.0.0.9000_20210816_162209/>
The files will be removed after roughly 7 days.
No strong reverse dependencies to be checked.
Best regards,
CRAN teams' auto-check service
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