Hi,
I've been trying to run CEGMA on my 280MB genome. It does run fine on all other genomes I've got, but it refuses to run on my genome. It keeps giving the following error:
It is weird that this problem occurs with only my genome. I've tried removing all the non-canonical characters and changing all masked sequences to upper case. However, it does not work.
I wonder if anyone has encountered anything like this? If yes, how did you solve it, if at all?
Thanks
I've been trying to run CEGMA on my 280MB genome. It does run fine on all other genomes I've got, but it refuses to run on my genome. It keeps giving the following error:
Code:
RUNNING: local_map -n local -f -h /opt/cus/CEGMA/2.3--GCC-4.1.2/data/hmm_profile s -i KOG -v genome.chunks.fa 2>sample.cegma.errors FATAL ERROR! 6400: "No such file or directory" In sample.cegma.errors Warning Error In GeneLoop6 matrix special read off - out of bounds on matrix [i,j is 193,-1 state 0 in standard matrix] Warning Error Problem - hit bad read off system, exiting now Can't use an undefined value as an ARRAY reference at /opt/cus/CEGMA/2.3--GCC-4. 1.2/bin/parsewise line 217. Can't run parsewise
I wonder if anyone has encountered anything like this? If yes, how did you solve it, if at all?
Thanks
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