[Bioc-devel] BiocParallel: changes to SnowParam(), should it import futile.logger?

Valerie Obenchain vobencha at fredhutch.org
Mon Mar 16 06:08:39 CET 2015

Hi Leo,

Thanks for reporting this. It was missed by the build system (and 
myself!) because the package was already installed. Should be fixed in 

futile.logger (and others) were moved to Suggests to lighten the load of 
the NAMESPACE. Logging isn't technically turned on until the cluster is 
started with bpstart(), however, futile.logger is used to check the 
threshold when the class is instantiated. This step is important in 
class validation so I've moved futile.logger back to Imports.


On 03/12/2015 08:35 PM, Leonardo Collado Torres wrote:
> Hi,
> I noticed that BiocParallel::SnowParam() changed. It now uses the
> futile.logger package, but it's only suggested by BiocParallel as seen here
> https://github.com/Bioconductor/BiocParallel/blob/master/DESCRIPTION#L19
> This leads to some errors as shown at
> https://travis-ci.org/lcolladotor/derfinder/builds/54192145#L3570-L3571
> Hopefully futile.logger can be imported. I mean, hopefully selectively
> importing futile.logger is a quick task.
> Thanks,
> Leo
> 	[[alternative HTML version deleted]]
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Computational Biology / Fred Hutchinson Cancer Research Center
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