I am trying to get PennCNV working on my computing server. Here's what I've done, per this document: http://penncnv.openbioinformatics.org/en/latest/user-guide/install/

• Downloaded + decompressed
• loaded perl (5.14.2) & R/2.15.2 modules
• went to kext folder and used make
• went to penncnv folder and typed perl ./detect_cnv.pl. The usage information appears
• added to my export PATH = statement in my bashrc file, $HOME/opt/penncnv where the files are located

I then went to the example folder to try to run those, using this document as a guide: http://penncnv.openbioinformatics.org/en/latest/user-guide/startup/

• Ran perl runex.pl, got usage information
• Ran perl runex.pl 1, and got Can't exec detect_cnv.pl: (null) at example/runex.pl line 81
• Ran perl runex.pl -path_detect_cnv ../detect_cnv.pl, same error occurs.
• Also tried going up to the main penncnv folder and using perl example/runex.pl 1 -path_detect_cnv detect_cnv.pl, but get the same error.

Any suggestions/advice?

Thanks in advance,
Gaius