Adding 'SystemRequirements: C++11' works for me (I'm on Linux):
hpages@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.varda...@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@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/veracruz1-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 don¹t think they are of
immediate importance.
Best,
--
Hervé Pagès
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: hpa...@fredhutch.org
Phone: (206) 667-5791
Fax: (206) 667-1319
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