@@ -9,3 +9,29 @@ The devel branch is tested on multiple architectures by the BioC build farm:

 http://bioconductor.org/checkResults/devel/bioc-LATEST/mzR/

+# Supported compilers

+

+We are not shipping the full set of boost headers due to 

+size restrictions. This *might* cause compilation failure 

+due to missing files. We have tested several OS and compiler 

+build environments successfully, please report any compilation failures

+at https://github.com/sneumann/mzR/issues

+and we'll add the missing files. 

+

+mzR-2.9.1 with boost-1.59.0 has been tested on the following compilers:

+

+On the BioC build farm (http://bioconductor.org/checkResults/devel/bioc-LATEST/mzR/)

+* malbec2 (Ubuntu 16.04.1, gcc-5.4.0)

+* tokay2 (Windows Server 2012 R2, MinGW-W64-4.9.3)

+* Failling oaxaca (Apple clang 3.5svn / 600.0.57)

+

+Also on:

+* Debian stretch/sid (gcc-5.4.0)

+* Ubuntu 16.04 (clang 3.8.0)

+* Ubuntu 16.04 (gcc-5.4.0)

+* Ubuntu 14.04 (gcc-4.8.2)

+* Ubuntu 12.04 (gcc-4.6.3)

+

+

+

+

@@ -111,6 +111,7 @@ ARCH_OBJS=./boost/libs/thread/src/pthread/once.o \

 endif

 NC_CFLAGS=`nc-config --cflags || /bin/true`

+NC_LIBS=`nc-config --libs || echo " -lnetcdf "`

 MZROBJECTS=cramp.o ramp_base64.o ramp.o RcppRamp.o RcppRampModule.o rnetCDF.o RcppPwiz.o RcppPwizModule.o RcppIdent.o RcppIdentModule.o

@@ -124,21 +125,13 @@ OBJECTS= $(MZROBJECTS) $(PWIZOBJECTS) $(ARCH_OBJS) rampR.o R_init_mzR.o

 ##  http://www.gamedev.net/topic/555511-is-there-a-way-to-only-disable-boost-debug-checks/

 ##

+PWIZ_CPPFLAGS=-I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -DWITHOUT_MZ5  

 PWIZ_LDFLAGS=-lpthread 

-## Unix:

-

-#PWIZ_CPPFLAGS=-I./boost_aux/ -I./boost -I. -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -DWITHOUT_MZ5  $(DEPFLAGS)

-

-

-PWIZ_CPPFLAGS=-I./boost_aux/ -I./boost/ -I. -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -DWITHOUT_MZ5  

-

-

 ## Use the R_HOME indirection to support installations of multiple R version

-PKG_CPPFLAGS=-D_LARGEFILE_SOURCE $(PWIZ_CPPFLAGS) $(NC_CFLAGS)  $(ARCH_CPPFLAGS)

+PKG_CPPFLAGS=$(PWIZ_CPPFLAGS) $(NC_CFLAGS)  $(ARCH_CPPFLAGS)

-#PKG_LIBS = `$(R_HOME)/bin/Rscript -e "Rcpp:::LdFlags()" ` $(PWIZ_LDFLAGS) `nc-config --libs || echo "-lnetcdf"` 

-PKG_LIBS=-lnetcdf $(ARCH_LIBS)

+PKG_LIBS=$(NC_LIBS)  $(ARCH_LIBS) 

 all: clean $(SHLIB)