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  UGENE Forum › General Category › Bugs and Issues › Problem with annotations after exporting reverse complemented
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Problem with annotations after exporting reverse complemented (Read 7422 times)
Feb 3rd, 2011 at 12:59am

Agu   Offline
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Hi, again!
I'm aware that you are probably hating me by now, but I have a new one (we discussed about this before).

When exporting "with annotations" and using the complementary strand option, the features resulting contain negative numbers for their locations. Then UGENE shows an error, but it is coming after trying to open that file (Error parsing locations).

The new location for a given feature should be:

New start = Molecule length - Old end + 1
New end = Molecule length - Old start +1
 
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Reply #1 - Feb 3rd, 2011 at 12:58pm

Mikhail Fursov   Offline
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Hi Agu!

Did you use UGENE 1.9.0 or 1.9.1-snapshot?

Could you share the file with us used to export annotations?
 
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Reply #2 - Feb 3rd, 2011 at 6:03pm

Agu   Offline
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(Argentinian)

Gender: male
 Posts: 63
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UGENE 1.9.0 (in Ubuntu 10.10).

That happens with any file with annotations (gb or a fasta with a separate gb file with the annotations), when you try to export the reverse complementary strand. I'm attaching the file and some screen captures.

This is the error notification:
'Export sequence to document' task failed: Subtask {Load document: 'test_new_new.gb'} is failed: Error parsing location
 
test_new.gb (1 KB | )
export.png (49 KB | )
export.png
negative.png (7 KB | )
negative.png
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Reply #3 - Feb 3rd, 2011 at 6:33pm

Mikhail Fursov   Offline
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Confirmed, to be fixed today & included into 1.9.1
 
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Reply #4 - Feb 8th, 2011 at 6:01pm

Mikhail Fursov   Offline
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UGENE 1.9.1 is released and now all  sequence export utilities works much better, correctly update annotation locations and process joins

Thank you for the bug reports!
 
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