Entering edit mode
6.8 years ago
gessthomsxavier7
▴
20
Hi all, Im trying to install CNVnator. make gives the following error. Any help will be appreciated. The os is centos 7.2
make
Compiling with parallel (OpenMP) support
g++ -O3 -std=c++11 -DCNVNATOR_VERSION=\"v0.3.3\" -fopenmp -o cnvnator obj/cnvnator.o obj/EXOnator.o obj/HisMaker.o obj/AliParser.o obj/Genotyper.o obj/Interval.o obj/Genome.o /home/biouser/bin/CNVnator/src/samtools/libbam.a /home/biouser/bin/CNVnator/src/samtools/htslib-1.4/libhts.a -lz -L/home/biouser/bin/CNVnator/yeppp-1.0.0/binaries/linux/x86_64/ -lyeppp -L/home/biouser/bin/root/lib -lCore -lRIO -lHist -lGraf -lGpad -lTree -lMathCore
/bin/ld: /home/biouser/bin/CNVnator/src/samtools/htslib-1.4/libhts.a(plugin.o): undefined reference to symbol 'dlclose@@GLIBC_2.2.5'
/usr/lib64/libdl.so.2: error adding symbols: DSO missing from command line
collect2: error: ld returned 1 exit status
make: *** [cnvnator] Error 1
Have you seen this issue on CNVnator site?
according to that link I tried to compile using samtools-1.2. now it gives
The issue is solved. I was executing sudo make, instead I tried make and it compiled successfully
cnvnator
would be a very logical tag for this question - as such the developer(s) can easily find your thread.noted and I have updated the tag. thanks