g++ -shared -L/usr/local/lib64 -o epactsR.so Error.o PhredHelper.o adler32.o bedidx.o bgzf.o compress.o crc32.o deflate.o epacts.o gzclose.o gzlib.o gzread.o gzwrite.o index.o infback.o inffast.o inflate.o inftrees.o knetfile.o kstring.o trees.o uncompr.o zutil.o
make[4]: Leaving directory `/tmp/Rtmpzrv97I/R.INSTALL503b52d62e6e/epactsR/src'
installing to /camhpc/pkg/epacts/3.2.6/centos6/lib/epactsR/libs
** help
No man pages found in package ‘epactsR’
*** installing help indices
** building package indices
** testing if installed package can be loaded
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/camhpc/pkg/epacts/3.2.6/centos6/lib/epactsR/libs/epactsR.so':
/camhpc/pkg/epacts/3.2.6/centos6/lib/epactsR/libs/epactsR.so: undefined symbol: __ks_insertsort_uint64_t
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/camhpc/pkg/epacts/3.2.6/centos6/lib/epactsR’
make[3]: *** [install-exec-hook] Error 1
make[3]: Leaving directory `/camhpc/pkg/src/epacts/3.2.6/EPACTS-3.2.6'
make[2]: *** [install-exec-am] Error 2
make[2]: Leaving directory `/camhpc/pkg/src/epacts/3.2.6/EPACTS-3.2.6'
make[1]: *** [install-am] Error 2
make[1]: Leaving directory `/camhpc/pkg/src/epacts/3.2.6/EPACTS-3.2.6'
make: *** [install-recursive] Error 1
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/camhpc/pkg/epacts/3.2.6/centos6/lib/epactsR/libs/epactsR/libs/epactsR.so':
/camhpc/pkg/epacts/3.2.6/centos6/lib/epactsR/libs/epactsR/libs/epactsR.so: undefined symbol: __ks_insertsort_uint64_t
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install-exec-hook:
mkdir --p $(libdir)
R CMD INSTALL -l $(libdir) $(datadir)/${PACKAGE}/epactsR_3.3.1.tar.gz
R CMD INSTALL -l $(libdir) $(datadir)/${PACKAGE}/mmSKAT_0.95.tar.gz
#Change those to
install-exec-hook:
mkdir --p $(libdir)
/path/to/R CMD INSTALL -l $(libdir) $(datadir)/${PACKAGE}/epactsR_3.3.1.tar.gz
/path/to/R CMD INSTALL -l $(libdir) $(datadir)/${PACKAGE}/mmSKAT_0.95.tar.gz