MantisBT - MEGA
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IDProjectCategoryView StatusDate SubmittedLast Update
0000502MEGA[All Projects] Feedbackpublic2017-07-16 13:032017-07-19 11:33
Reporterguest 
Assigned Togstecher 
PrioritynormalSeverityminorReproducibilityhave not tried
StatusresolvedResolutionwon't fix 
PlatformOSOS Version
Product Version 
Target VersionFixed in Version 
First NameRich
Last NameBoden
Emailrich.boden@plymouth.ac.uk
Confirm Emailrich.boden@plymouth.ac.uk
Summary0000502: Large ML tree with GTR model issues
DescriptionHi,
I need to run MANY reps on a large MLtree. The model with lowest BIC is GTR+G+I - painfully slow with partial del. On 8-core machine using all threads, 32Gb RAM, no other software running (Win 10, latest MEGA) amount of reps done means it would take over a year to run the tree...! Is CC version going to be quicker on same machine? I love MEGA, I've published widely with it since about 2011 - I need server-based for large trees and slower models :( Any ideas...?
Thanks
r
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Issue History
Date ModifiedUsernameFieldChange
2017-07-16 13:03guestNew Issue
2017-07-19 11:33gstecherNote Added: 0003832
2017-07-19 11:33gstecherStatusnew => resolved
2017-07-19 11:33gstecherResolutionopen => won't fix
2017-07-19 11:33gstecherAssigned To => gstecher

Notes
(0000374)
gstecher   
1969-12-31 17:33   
Told the user to create MEG file with domain info.
(0003832)
gstecher   
2017-07-19 11:33   
Hi Rich,

I am writing in response to your question regarding the MEGA software. If bootstrap tree construction with your data set is estimated to take over a year, you won't be able to get a significant speed up using MEGA. My suggestion is to look at using something like RAxML or ExaML to utilize increased parallelization.

--
Best regards,

Glen Stecher
Institute for Genomics and Evolutionary Medicine
igem.temple.edu