[Bioc-devel] " Error in serialize(data, node$con, xdr = FALSE)" during Vignette build (ChIC)

[Obenchain, Valerie]

I guess this is ChIC (from the title?) which is clean on today's report:

https://www.bioconductor.org/checkResults/devel/bioc-LATEST/

Valerie


On 04/24/2018 01:17 PM, Obenchain, Valerie wrote:

Carmen,

What is the name of your package?

Valerie


On 04/16/2018 11:42 AM, Carmen M. Livi wrote:

Hi all,

my package recently got accepted and moved to the Bioconductor repository.

Suddenly I get an error during the package build for Linux and OS (the
INSTALL is working). The error occurs during the creation of the
vignette in a chunk. The error was not there before and I can't
reproduce it on my local machine:

" Error in serialize(data, node$con, xdr = FALSE) :
error writing to connection
Execution halted "

Interestingly I get the same error in totally different points for Linux
and OS.

I am using BiocParallel with BPPARAM =
BiocParallel::MulticoreParam(workers = 5) and requested 5 CPUs.
Can it be that I am not supposed to use that many CPUs? Did anyone
encounter a similar issue?
Should I avoid parallelization in the vignette or should I just reduce
the number?
The dataset I use in the vignette is a small one, so I suppose it is not
a memory issue.

Thanks for any suggestion,

Carmen

_______________________________________________
Bioc-devel at r-project.org<mailto:Bioc-devel at r-project.org><mailto:Bioc-devel at r-project.org><mailto:Bioc-devel at r-project.org> mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel





This email message may contain legally privileged and/or confidential information.  If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited.  If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you.
        [[alternative HTML version deleted]]

_______________________________________________
Bioc-devel at r-project.org<mailto:Bioc-devel at r-project.org> mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel





This email message may contain legally privileged and/or confidential information.  If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited.  If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you.
	[[alternative HTML version deleted]]