MantisBT - MEGA
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IDProjectCategoryView StatusDate SubmittedLast Update
0000232MEGA[All Projects] Feedbackpublic2016-08-10 07:232016-08-18 08:47
Reporterguest 
Assigned Togstecher 
PrioritynormalSeverityminorReproducibilityhave not tried
StatusresolvedResolutionno change required 
PlatformOSOS Version
Product VersionMEGA-CC 11 (command line version) 
Target VersionFixed in Version 
First NameWilliam
Last NameNicholson
Emailwilliam_v_nicholson@yahoo.com
Confirm Emailwilliam_v_nicholson@yahoo.com
Summary0000232: no documentation on group file
DescriptionI'm trying to run megacc on Linux in order to compute mean diversity in an entire population. It appears that this computation requires a group to be specified. However, there isn't any information on the format of the group file specified on the command line with "-g" in any documentation that I can find nor does the GUI provide a way to reverse engineer the format by saving a group file. I have to use the command line version because it will run in a script with 100s of files.
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Issue History
Date ModifiedUsernameFieldChange
2016-08-10 07:23guestNew Issue
2016-08-18 08:47gstecherNote Added: 0003688
2016-08-18 08:47gstecherStatusnew => resolved
2016-08-18 08:47gstecherResolutionopen => no change required
2016-08-18 08:47gstecherAssigned To => gstecher

Notes
(0000152)
gstecher   
1969-12-31 17:33   
I was unable to verify this bug. I asked the user if he could supply his data file.
(0000156)
gstecher   
1969-12-31 17:33   
This actually seems to be a problem with the file output writer as opposed to the internal variability determination routines. This only affects the format of the output file, variability calculations are still accurate.
(0000184)
gstecher   
1969-12-31 17:33   
This has been fixed for the final release.
(0003688)
gstecher   
2016-08-18 08:47   
Hi William,

I am writing in response to your question regarding how to specify groups in MEGA. Groups should be specified in the MEGA formatted (.meg) input data file. This can be done manually or by using the GUI version of MEGA by opening your data file, using the Taxa/Groups dialog, and saving to a .meg file. An example of how groups are defined in the .meg file is attached (e.g. appending _{African} to a taxon name)

--
Best regards,

Glen Stecher