[Bioc-devel] FW: Package build error
Make sure your webhook is set up as described https://github.com/Bioconductor/Contributions/blob/master/CONTRIBUTING.md#adding-a-web-hook You will need to bump the version in the description file each time you would like a new build report so please make the bump from 0.99.0 to 0.99.1. Thank you. Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263
From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Ioannis Vardaxis <ioannis.vardaxis at ntnu.no>
Sent: Friday, October 27, 2017 1:22:26 PM
To: Herv? Pag?s; bioc-devel at r-project.org
Subject: Re: [Bioc-devel] FW: Package build error
Sent: Friday, October 27, 2017 1:22:26 PM
To: Herv? Pag?s; bioc-devel at r-project.org
Subject: Re: [Bioc-devel] FW: Package build error
Hey, One quick question. When I push again now, do I need to change the version from 0.99.0 to 0.99.1 or does it change automatically? Best, -- Ioannis Vardaxis Stipendiat IMF NTNU On 27/10/2017, 19:03, "Herv? Pag?s" <hpages at fredhutch.org> wrote: >Adding 'SystemRequirements: C++11' works for me (I'm on Linux): > >hpages at latitude:~/MACPET$ git diff >diff --git a/DESCRIPTION b/DESCRIPTION >index d8238b6..061d692 100644 >--- a/DESCRIPTION >+++ b/DESCRIPTION >@@ -7,6 +7,7 @@ Author: Ioannis Vardaxis > Maintainer: Ioannis Vardaxis <ioannis.vardaxis at ntnu.no> > Description: The MACPET package can be used for binding site analysis >for ChIA-PET data. MACPET reads ChIA-PET data in BAM or SAM for > License: GPL-3 >+SystemRequirements: C++11 > Encoding: UTF-8 > LazyData: true > ByteCompile: true > > >hpages at latitude:~$ Rbiocdev CMD INSTALL MACPET >* installing to library '/home/hpages/R/R-3.4.2-bioc36/library' >* installing *source* package 'MACPET' ... >** libs >g++ -std=gnu++11 -I/home/hpages/R/R-3.4.2-bioc36/include -DNDEBUG >-I"/home/hpages/R/R-3.4.2-bioc36/library/Rcpp/include" >-I/usr/local/include -fpic -g -O2 -c >PeakFinderSubFunctions_SGT_Rcpp.cpp -o PeakFinderSubFunctions_SGT_Rcpp.o >g++ -std=gnu++11 -I/home/hpages/R/R-3.4.2-bioc36/include -DNDEBUG >-I"/home/hpages/R/R-3.4.2-bioc36/library/Rcpp/include" >-I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o >g++ -std=gnu++11 -shared -L/home/hpages/R/R-3.4.2-bioc36/lib >-L/usr/local/lib64 -o MACPET.so PeakFinderSubFunctions_SGT_Rcpp.o >RcppExports.o -L/home/hpages/R/R-3.4.2-bioc36/lib -lR >installing to /home/hpages/R/R-3.4.2-bioc36/library/MACPET/libs >** R >** inst >** byte-compile and prepare package for lazy loading >** help >... > >Works for other BioC packages too e.g. InteractionSet >(showing compilation output on Mac): > > >https://bioconductor.org/checkResults/3.6/bioc-LATEST/InteractionSet/verac >ruz1-install.html > >It would be more useful if you showed us the full output of >'R CMD INSTALL'. > >But you should not hesitate to add 'SystemRequirements: C++11', bump >the version, and see what the single package builder says (provide the >link if you want to discuss it). > >Thanks, >H. > > >On 10/27/2017 09:50 AM, Ioannis Vardaxis wrote: >> Hey again, >> >> >> I think I have fixed the \insertRef macro problem now. However I still >> need help with the c++11 problems I mentioned in the previous email. >> >> My package builds and R-checks (and BiocChecks) with no errors and >>warning >> though. I get some notes from BiocCheck but I don??t think they are of >> immediate importance. >> >> Best, >> > >-- >Herv? Pag?s > >Program in Computational Biology >Division of Public Health Sciences >Fred Hutchinson Cancer Research Center >1100 Fairview Ave. N, M1-B514 >P.O. Box 19024 >Seattle, WA 98109-1024 > >E-mail: hpages at fredhutch.org >Phone: (206) 667-5791 >Fax: (206) 667-1319 _______________________________________________ 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.