Question: CNVnator installation error
0
gravatar for xiaoyonf
3.9 years ago by
xiaoyonf10
Baylor College of Medicine, Houston, Texas, USA
xiaoyonf10 wrote:

Hi, I tried to install the CNVnator in MAC v10.10.5 terminal.  I followed the procedures by searching online instruction in ROOTSYS setup.  I have the final step showing the error message as below,

xiaoyongs-mbp:src MyBioinformatics$ make

g++ -m64 -DCNVNATOR_VERSION=\"v0.3\" -I/include -Isamtools -c cnvnator.cpp -o obj/cnvnator.o

In file included from cnvnator.cpp:8:

./HisMaker.hh:11:10: fatal error: 'TFrame.h' file not found

#include <TFrame.h>

         ^

1 error generated.

make: *** [obj/cnvnator.o] Error 1

Does anyone have the same experience when installing the CNVnator?  What is the TFrame.h file and how to fix it?

Thank you very much!

 

myposts software error • 3.5k views
ADD COMMENTlink modified 3.9 years ago by donfreed1.5k • written 3.9 years ago by xiaoyonf10

Hi xiaoyonf.

If you install speedseq, you can get CNVnator installed very easily.

Leandro

ADD REPLYlink written 3.9 years ago by Leandro Lima930
0
gravatar for donfreed
3.9 years ago by
donfreed1.5k
Mountain View, CA
donfreed1.5k wrote:

The compiler can not find all of the files it needs to compile CNVnator because your environment is not correctly set. Specifically, you need to set the LD_LIBRARY_PATH and ROOTSYS variables.

See these links for additional help:
http://seqanswers.com/forums/showthread.php?t=16665
https://github.com/hall-lab/speedseq#cnvnator

ADD COMMENTlink written 3.9 years ago by donfreed1.5k

Hi

I followed the above links and installed root but could not install CNVnator. I tried but i am end up with follow error..

In file included from cnvnator.cpp:8:0: HisMaker.hh:11:20: fatal error: TFrame.h: No such file or directory #include <tframe.h> ^ compilation terminated. make: * [obj/cnvnator.o] Error 1

I think am doing mistake somewhere while setting the path. export ROOTSYS=/usr/include/root/ export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${ROOTSYS}/lib.. please help me to install CNVnator

ADD REPLYlink written 3.3 years ago by sukesh141130
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