[Bioc-devel] EXTERNAL: Fwd: PREDA problems reported in the Multiple platform build/check report for BioC 3.7

Dear Lori,

I already foxed the issue in the devel branch which now gives a clean check:
  https://bioconductor.org/checkResults/3.8/bioc-LATEST/

The problema was due to a CRAN  dependency no more available since July 20, 2018.

Would you recommend fixing the same issue also in the current release branch?
Or shall I leave it unchanged for consistency?

All the best
Francesco

On 6 Aug 2018, at 20:33, Shepherd, Lori <Lori.Shepherd at RoswellPark.org> wrote:

You can wait a little longer if you like.  It might also be helpful to reach out to the samr maintainers to see if they have any intention of bringing it back onto CRAN.  I would not recommend waiting too long, as the package will need to be fixed before the next release to avoid deprecation in release Bioc 3.8. While there is no official release date set - it is generally in October.

Lori Shepherd
Bioconductor Core Team
Roswell Park Cancer Institute
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
From: Bioc-devel <bioc-devel-bounces at r-project.org <mailto:bioc-devel-bounces at r-project.org>> on behalf of Francesco Ferrari <francesco.ferrari at ifom.eu <mailto:francesco.ferrari at ifom.eu>>
Sent: Monday, August 6, 2018 12:18:43 PM
To: bioc-devel at r-project.org <mailto:bioc-devel at r-project.org>
Subject: EXTERNAL: [Bioc-devel] Fwd: PREDA problems reported in the Multiple platform build/check report for BioC 3.7
  
Looks like a CRAN package is no more available, and this is triggering a problem with a ?suggested? dependency

* checking package dependencies ... ERROR
Package suggested but not available: ?samr?

which indeed has been removed from CRAN on July 20:

https://cran.r-project.org/web/packages/samr/index.html <https://cran.r-project.org/web/packages/samr/index.html> <https://cran.r-project.org/web/packages/samr/index.html <https://cran.r-project.org/web/packages/samr/index.html>>


It may be a temporary issue (while the develpers fix it) or a more long term one.

Should I remove the dependency right away or wait a bit longer?

Begin forwarded message:

From: BBS-noreply at bioconductor.org <mailto:BBS-noreply at bioconductor.org>
Subject: PREDA problems reported in the Multiple platform build/check report for BioC 3.7
Date: 6 Aug 2018 18:14:02 CEST
To: francesco.ferrari at ifom.eu <mailto:francesco.ferrari at ifom.eu>

[This is an automatically generated email. Please don't reply.]

Hi PREDA maintainer,

According to the Multiple platform build/check report for BioC 3.7,
the PREDA package has the following problem(s):

  o ERROR for 'R CMD check' on malbec2. See the details here:
      https://master.bioconductor.org/checkResults/3.7/bioc-LATEST/PREDA/malbec2-checksrc.html <https://master.bioconductor.org/checkResults/3.7/bioc-LATEST/PREDA/malbec2-checksrc.html>

Please take the time to address this by committing and pushing
changes to your package at git.bioconductor.org <http://git.bioconductor.org/>

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