ginsbach/noise-free-cnv

Program for analyzing and manipulating DNA microarray data

noise-free-cnv's Issues

Installing noise-free-cnv-filter on CentOS cluster

Dear Philip / noise-free-cnv team,

I'm working with about 1000 SNP6.0-assayed tumor (cell line) samples that are presumptively quite noisy, mainly because there are no normal samples for reference. I'm aiming to see how well noise-free-cnv-filter can help me with this issue.

Since my dataset size and expected workload are quite big, I need to run the program on the computing cluster which is provided to me, which is CentOS 7.8. Trying to "make" the cloned git repo gives the following error:

Package gtkmm-2.4 was not found in the pkg-config search path.
Perhaps you should add the directory containing `gtkmm-2.4.pc'
to the PKG_CONFIG_PATH environment variable
No package 'gtkmm-2.4' found
Package fftw3 was not found in the pkg-config search path.
Perhaps you should add the directory containing `fftw3.pc'
to the PKG_CONFIG_PATH environment variable
No package 'fftw3' found
g++ -o src/CnvCalling.o src/CnvCalling.cc -c -Wall -O3  -DNFCNV_VERSION_MAJOR=1 -DNFCNV_VERSION_MINOR=13 -DNFCNV_SHARE_FOLDER='"share/noise-free-cnv/"'
In file included from src/CnvSequence.hh:22:0,
                 from src/CnvCalling.hh:23,
                 from src/CnvCalling.cc:20:
src/CnvStringPool.hh:25:20: fatal error: glibmm.h: No such file or directory
 #include <glibmm.h>
                    ^
compilation terminated.
make: *** [src/CnvCalling.o] Error 1

After consulting with my IT support, the issue seems to be that one of the dependencies is gtk4, while on our cluster the version is gtk3 unfortunately. They have said that the only solution they see is the (unlikely) case that you would be able to provide a binary for CentOS 7.8. Can you do this by any chance, or do you see any other solutions for me to get noise-free-cnv-filter running?

Any advice would be highly appreciated.

Best wishes,
Andreas