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-   -   running CEGMA VM (http://seqanswers.com/forums/showthread.php?t=46292)

bioman1 09-01-2014 05:01 AM

running CEGMA VM
 
I used CEGMA VM on windows 7 Operating system. I used virtual box for VM and followed steps as in:http://korflab.ucdavis.edu/datasets/cegma/cegma_vm.html


CEGMA did run successfully, but it does not produce the completeness report, I paste below the last commands from CEGMA


----------------------------------------------------------------

evaluating results and comaring to set of 248 highly conserved CEGS

running:completness local_self.hmm_select.aln /opt/CEGMA_v2.5/data/completeness_cutoff.tbl>output.completeness_report
use of uninitialized value in division (/) at /opt/CEGMA_v2.5/bin/completeness line 252

----------------------------------------------------------

I understand some error in perl code (completeness.pl) of CEGMA. How to fix this?. Does intializing the value fix the this issue?

Any suggestion.

kbradnam 09-08-2014 07:43 AM

Did you run CEGMA on your own data, or with the supplied sample data? Try the sample data first.


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