[Bioc-devel] Fwd: Failing package merhr

[Turaga, Nitesh]

Begin forwarded message:

From: 露崎 弘毅 <k.t.the-answer at hotmail.co.jp<mailto:k.t.the-answer at hotmail.co.jp>>
Subject: RE: Failing package merhr
Date: April 24, 2018 at 11:07:15 AM EDT
To: "Turaga, Nitesh" <Nitesh.Turaga at RoswellPark.org<mailto:Nitesh.Turaga at RoswellPark.org>>
Cc: "dritoshi at gmail.com<mailto:dritoshi at gmail.com>" <dritoshi at gmail.com<mailto:dritoshi at gmail.com>>, "manabu.ishii.rb at gmail.com<mailto:manabu.ishii.rb at gmail.com>" <manabu.ishii.rb at gmail.com<mailto:manabu.ishii.rb at gmail.com>>

Hi, Nitesh

I think, this is because of the machine-spec and not related to the window OS itself, because the error message says,

> Error: memory exhausted (limit reached?).

I also checked same code in my machine by

/usr/bin/time -f '%Uu %Ss %er %MkB %x %C' R CMD BATCH test.R

and the result is

16.79u 0.66s 17.94r 383132kB 1 R CMD BATCH test.R

It costs only 16 seconds and 383MB memory space, so I think this example code is not so heavy.

I also granced at the situation of other packages in devel and found that CHECK of many packages like a4Base, affy, affycomp, BgeeDB, Biobase... were failed at only the windows machine.
http://bioconductor.org/checkResults/devel/bioc-LATEST/index.html

Perhaps, is this caused by the parallel running of INSTALL/BUILD/CHECK for too many packages?

I' like you to confirm the situation of the windows machine, when running INSTALL/BUILD/CHECK and the error is still reproducible.

Of cource I will deal with any problem about the implementation of our packages.

Thanks,

Koki Tsuyuzaki

________________________________
差出人: Turaga, Nitesh <Nitesh.Turaga at RoswellPark.org<mailto:Nitesh.Turaga at RoswellPark.org>>
送信日時: 2018年4月24日 23:16
宛先: Koki Tsuyuzaki
件名: Failing package merhr

Dear maintainer,

I'd like to bring to your attention that the your package is failing on 'R CMD check' in the devel version of Bioconductor (i.e. BioC 3.7) on windows.

http://bioconductor.org/checkResults/devel/bioc-LATEST/meshr/tokay2-checksrc.html


Would you mind taking a look at this? Don't hesitate to ask on the bioc-devel mailing list if you have any question or need help.

The package is failing on devel which is very problematic. If it is not fixed in devel in a timely manner we would also consider this package for potential deprecation in the next cycle.  The deadline for passing R CMD build and check in devel is April 25.

Thanks for your contribution to Bioconductor.

Pleae be advised that Bioconductor has switched from svn to Git. Some helpful
links can be found here:
https://bioconductor.org/developers/how-to/git/

Best,

Nitesh Turaga
Bioconductor Core Team

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