MantisBT - MEGA
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IDProjectCategoryView StatusDate SubmittedLast Update
0000244MEGA[All Projects] Suggestionpublic2016-08-29 02:402016-09-06 12:51
Reporterguest 
Assigned Togstecher 
PrioritynormalSeverityminorReproducibilityhave not tried
StatusresolvedResolutionno change required 
PlatformPCOSWindowsOS Version7
Product Version 
Target VersionFixed in Version 
First NameJ. Gonzalo
Last NameOcejo-Vinyals
Emailjgocejo@humv.es
Confirm Emailjgocejo@humv.es
Summary0000244: Unexpected end of file while reading taxa names
DescriptionDear Sirs,
we are trying to compute pairwise distances in order to construct a NJ tree regarding KIR genes frequencies from different populations. Our file is a txt file that we convert in a xml one.
When we execute the Compute pairwise Distances or the Contruct/Test Neighbor-Joining Tree commands it appears a new window reporting an error:

unexpected end of file while reading taxa names. (in line 4)

We would very much appreciat your help.
Yours sincerely,

Dr. J. Gonzalo Ocejo-Vinyals
Steps To Reproduce
Additional Information
TagsNo tags attached.
Relationships
Attached Filestxt KIR-POP.txt (21,180) 2016-08-29 02:40
https://megasoftware.net/mantis_bt/
Issue History
Date ModifiedUsernameFieldChange
2016-08-29 02:40guestNew Issue
2016-08-29 02:40guestFile Added: KIR-POP.txt
2016-09-06 12:51gstecherNote Added: 0003694
2016-09-06 12:51gstecherStatusnew => resolved
2016-09-06 12:51gstecherResolutionopen => no change required
2016-09-06 12:51gstecherAssigned To => gstecher

Notes
(0000164)
gstecher   
1969-12-31 17:33   
I attempted to verify this bug and noticed no discernable difference in execution time. I\'ll ask the user for his data file and see if it is exceptionally large or something.
(0000464)
Nikita Vikhrev   
1969-12-31 17:33   
I have made some optimization to speed up more than two times.
(0000466)
gstecher   
1969-12-31 17:33   
I applied the fixes from Tamura to the MEGA source code.
(0000467)
paul   
1969-12-31 17:33   
Bug is fixed to the MEGA4 source. This bug is closed.
(0003694)
gstecher   
2016-09-06 12:51   
Hi Dr. Gonzalo Ocejo-Vinyals,

I am writing in response to your question regarding the MEGA software. In order to compute pairwise distances or construct an NJ tree in MEGA you will need to have a multiple sequence alignment in MEGA or fasta format. You can review the help documentation for descriptions of these formats. Also, some example files are distributed with MEGA.

--
Best regards,

Glen Stecher