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

Shepherd, Lori Lori@Shepherd @ending from Ro@wellP@rk@org
Mon Aug 6 20:33:46 CEST 2018

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 using r-project.org> on behalf of Francesco Ferrari <francesco.ferrari using ifom.eu>
Sent: Monday, August 6, 2018 12:18:43 PM
To: bioc-devel using 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>

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 using 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 using 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
> Please take the time to address this by committing and pushing
> changes to your package at git.bioconductor.org
> Notes:
>  * This was the status of your package at the time this email was sent to you.
>    Given that the online report is updated daily (in normal conditions) you
>    could see something different when you visit the URL(s) above, especially if
>    you do so several days after you received this email.
>  * It is possible that the problems reported in this report are false positives,
>    either because another package (from CRAN or Bioconductor) breaks your
>    package (if yours depends on it) or because of a Build System problem.
>    If this is the case, then you can ignore this email.
>  * Please check the report again 24h after you've committed your changes to the
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