Hi, Looks like this was a glitch in rtracklayer and has been fixed:
------------------------------------------------------------------------ r127902 | m.lawrence | 2017-03-31 04:37:23 -0700 (Fri, 31 Mar 2017) | 2 lines do not try to import pmapFromTranscripts from GenomicAlignments My guess is that R_svmtrain could not be created because of the rtracklayer error. I'm not sure why we only saw this in veracruz2 ... given the date of the fix we should see this clear up on Saturday's build report. Valerie On 03/31/2017 01:55 AM, Mattia Chiesa wrote: > Hi, > > My package DaMiRseq fails to build in veracruz2 server with this error: > > Quitting from lines 424-428 (DaMiRseq.Rnw) > Error: processing vignette 'DaMiRseq.Rnw' failed with diagnostics: > object 'R_svmtrain' not found > > Moreover, this message appeared in latest nightly builds: > > No methods found in "GenomicAlignments" for requests: pmapFromTranscripts > > I got 'ERROR' only in veracruz2 while the status in malbec2, tokay2 and > toluka2 is 'OK'. > > > Here the details: > > http://bioconductor.org/checkResults/devel/bioc-LATEST/DaMiRseq/ > > > How to handle this? > > Thanks in advance, > > Mattia. > > > > > > > Dr Mattia Chiesa, > Biomedical Engineer, PhD in Bioengineering and Bioinformatics > > Immunology and Functional Genomics Unit > Via Parea, 4 - 20138 Milano, Italy > T +39 02 58002.852 F +39 02 58002.750 > E mchi...@ccfm.it<mailto:mchi...@ccfm.it> > W www.cardiologicomonzino.it<http://www.cardiologicomonzino.it/> > > Centro Cardiologico Monzino > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@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. _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
