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Author Topic: No Output File Created  (Read 550 times)

Offline ashay

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No Output File Created
« on: February 07, 2017, 02:39:14 pm »
Dear Dr. Lu,

For the PDB file 4YLN, a bps file can be made, however, an output file that analyzes the bps file can not be created.

The error message reads:
residue serial number 1144911546 or 0 <= 0

Are there some modifications that need to be done to the bps file before it can be analyzed? How can an output file for 4YLN be created?

Thanks,
Ashay

Offline xiangjun

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Re: No Output File Created
« Reply #1 on: February 07, 2017, 06:41:59 pm »
Hi Ashay,

You've identified a bug in
Code: [Select]
find_pair output when the serial number of a nucleotide is 5-digit long, as in 4yln.

Code: [Select]
7660 7697  9 #   72 x ....>5:..16_:[.DC]C-----g[GTP]:..13_:6<....  2.42  1.72  8.66  9.27  3.28
1144911546  0 #   73 | ....>7:..11_:[.DA]A-----T[.DT]:..52_:8<....  1.27  1.16 40.25  8.64  2.60

The field "1144911546" should be "11449 11546". There is no residue with a serial number that big.

The bug has been fixed in 3DNA v2.3-2017feb08. Please download it and report back if you have further questions.

Thanks for reporting!

Xiang-Jun
Dr. Xiang-Jun Lu [律祥俊]
Email: xiangjun@x3dna.org
Homepage: http://x3dna.org/
Forum: http://forum.x3dna.org/

 

Created and maintained by Dr. Xiang-Jun Lu[律祥俊]· Supported by the NIH grant R01GM096889 · Dr. Lu is currently a member of the Bussemaker Laboratory at the Department of Biological Sciences, Columbia University. The project is in collabration with the Olson Laborarory at Rutgers where 3DNA got started.