[Bioc-devel] use bioc docker images to reproduce linux build error?

[Obenchain, Valerie]

Hi Paul,

I can reproduce the error on my Linux system but not on the Mac and am 
not sure why this is. Haven't tried Windows yet but from the looks of 
the build report that one is fine too.

R CMD check on Linux is failing on this line in 
getRegulatoryRegions,HumanDHSFilter-method:

   db <- dbConnect(driver, user = user, host = host, dbname = dbname)

Does this need a password (and probably DBI::dbConnect for completeness)?


There is a similar line in 
getEncodeRegulatoryTableNames,HumanDHSFilter-method which isn't failing 
R CMD check because the man page example is wrapped in /dontrun but it 
does fail for me when run manually. I think this one may also need a 
password - if you want to give me one off-line I can test this theory.

   db <- DBI::dbConnect(driver, user = user, host = host, dbname = dbname)

I see a .BBSoptions in trena for exclusion on Windows. The reason it's 
not being respected is because it's malformed and needs a space after 
the comma between the platforms. Just curious, what was the reason for 
excluding this on Windows?

Val




On 11/15/18 9:23 AM, Paul Shannon wrote:
> Our package “trena” has had build errors these last two weeks.  I have not yet been able to reproduce them on a macOS laptop.
> 
> Would it be sensible to get the latest release and devel docker images for Bioconductor?  Are they similar enough to the build system to give me good odds on reproducing the errors seen there?
> 
>   - Paul
> 
> _______________________________________________
> Bioc-devel using 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.