Welcome, Guest. Please Login or Register
UGENE Bulletin Board
  Welcome to our forum.
  HomeHelpSearchLoginRegister  
 
 
Page Index Toggle Pages: 1
Genebank format join errors (Read 6416 times)
Aug 1st, 2013 at 1:04am

hoytpr   Offline
YaBB Newbies

Posts: 7
*
 
When adding a genebank file (these were generated by RAST), there are problem with joining of the CDS lines. You cannot have the same sequence number used in a "join". Example:

CDS              join(38563..38789,38791..38799)  is okay but:
CDS              join(38563..38789,38789..38799)  is bad, and UGENE will NOT open the .gbk file.

Is this a problem with the RAST output or is it UGENE?

Windows XP-Pro x64
Two 4-core AMD opteron processors
UGENE 1.12.1 64-bit
 
IP Logged
 
Reply #1 - Aug 8th, 2013 at 5:27pm

German   Offline
Full Member

Posts: 118
***
 
hoytpr, what version of UGENE do you use? I use UGENE 1.12.1. I have tried to open a file with such annotations and it is opened well. You can see the attached screenshot with the opened file.

If the version of UGENE you use is less then 1.12.1, please, download and install the latest one from our site: http://ugene.unipro.ru/download.html

If you use UGENE 1.12.1 and you can not open such files, could you try to open the attached file "try.gb", please? Also, in this case it will be great if you send us the file you can not open with UGENE. It would help to investigate the problem.
 

try.gb (174 KB | )
genbank.png (109 KB | )
genbank.png
IP Logged
 
Reply #2 - Nov 25th, 2014 at 6:23am

hoytpr   Offline
YaBB Newbies

Posts: 7
*
 
Wow, I took a long time to reply. I am able to open the try.gb file and get the same image you show using version 1.14.1 of UGENE. The file that was not opening, is lost now. I apologize.
 
IP Logged
 
Reply #3 - Nov 25th, 2014 at 7:50pm

German   Offline
Full Member

Posts: 118
***
 
Hello, Peter. Thank you for your reply! It's great to hear that the file is opened well in your computer and you don't face this problem.

Looking forward for your further activity in the project's life Smiley

By the way, are you interested in participating in UGENE webinars? These webinars are free and their goal is to teach people to use UGENE effectively in solving their tasks.
 
IP Logged
 
Page Index Toggle Pages: 1