Entering edit mode
4.8 years ago
xien0114
•
0
I install BioPython and EMBOSS in my Ubuntu, and it works normally when I input 2 sequences (length <= 4000)
But I create new sequences (length = 10000) and test it, the error occurred.
Bio.Application.ApplicationError: Non-zero return code 1 from 'needle -outfile=needle.txt -asequence=alpha.faa -bsequence=beta.faa -gapopen=10 -gapextend=0.5', message 'Needleman-Wunsch global alignment of two sequences'
Is this occurred because of its length? If then how can I break this limit?
http://emboss.sourceforge.net/apps/release/6.6/emboss/apps/needle.html
Check that you don't have any error in your command/code (maybe show it). Another possibility is you may be running out of memory.