Question: PennCNV run error (Can't exec detect_cnv.pl) Linux
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gravatar for gaiusjaugustus
3.7 years ago by
United States
gaiusjaugustus150 wrote:

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

linux cnv penncnv • 1.5k views
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