Rascaf icon indicating copy to clipboard operation
Rascaf copied to clipboard

Published 20 hours ago • verified publisher icon mourisl

Error running Rascaf

Open Coayala opened this issue 6 years ago • 4 comments

Good afternoon,

I am trying to run rascaf to improve a draft genome that I am working with. However when I try to use it I get the following error

Unknown genome name: k141_3

k141_3 is the name of the first contig on my assembly.

Can you help me, if I am doing something wrong?

Thanks

Coayala avatar Aug 22 '18 23:08 Coayala

Can you show me the commands you used?

This error usually happens when using a wrong BAM file containing the alignments on another genome.

mourisl avatar Aug 23 '18 00:08 mourisl

Can Rascaf run now? Thanks.

mourisl avatar Sep 02 '18 17:09 mourisl

Hi, Don't know if the reason is the same, but I had the same kind of issue. FYI, turned out that it was caused by the fact that my .fa file was in dos format (0d 0a). dos2unix fixed it...

knokknok avatar Mar 11 '20 17:03 knokknok

rascaf.workflow.txt

Hi! i am following up on this (attempting to use rascaf for improving genome assembly). I have attached the commands used prior to rascaf. I will attempt to use the .fa conversion to see if it fixes the problem, but I wanted to go ahead a try to get a general understanding of what is wrong because my fa file was created in and has only been used in a unix/linux environment.

***Edited I have attempted the dos2unix conversion and I still got the same error.

adc0032 avatar May 19 '20 21:05 adc0032