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| ID | Project | Category | View Status | Date Submitted | Last Update | ||||
| 0000502 | MEGA | [All Projects] Feedback | public | 2017-07-16 13:03 | 2017-07-19 11:33 | ||||
| Reporter | guest | ||||||||
| Assigned To | gstecher | ||||||||
| Priority | normal | Severity | minor | Reproducibility | have not tried | ||||
| Status | resolved | Resolution | won't fix | ||||||
| Platform | OS | ||||||||
| Product Version | MEGA 11 (Graphical Interface version) | ||||||||
| Target Version | Fixed in Version | ||||||||
| Summary | 0000502: Large ML tree with GTR model issues | ||||||||
| Description | Hi, 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 | ||||||||
| Tags | No tags attached. | ||||||||
| Attach Tags | (Separate by ",") | ||||||||
| First Name | Rich | ||||||||
| Last Name | Boden | ||||||||
| rich.boden@plymouth.ac.uk | |||||||||
| Confirm Email | rich.boden@plymouth.ac.uk | ||||||||
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(0000374) gstecher (administrator) 1969-12-31 17:33 |
Told the user to create MEG file with domain info. |
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(0003832) gstecher (administrator) 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 |
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Issue History |
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| Date Modified | Username | Field | Change |
| 2017-07-16 13:03 | guest | New Issue | |
| 2017-07-19 11:33 | gstecher | Note Added: 0003832 | |
| 2017-07-19 11:33 | gstecher | Status | new => resolved |
| 2017-07-19 11:33 | gstecher | Resolution | open => won't fix |
| 2017-07-19 11:33 | gstecher | Assigned To | => gstecher |
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Issue History |
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