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IDProjectCategoryView StatusDate SubmittedLast Update
0004367MEGA[All Projects] Feedbackpublic2023-01-12 14:172023-04-14 00:50
Reporterguest 
Assigned To 
PrioritynormalSeverityminorReproducibilityhave not tried
StatusnewResolutionopen 
PlatformOS 
Product VersionMEGA-CC 11 (command line version) 
Target VersionFixed in Version 
Summary0004367: Application Error
DescriptionI keep getting the error "Application Error finalizing MUSCLE alignment: unable to open file.
How do I resolve this issue?
TagsNo tags attached.
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First NameZach
Last NameMalloy
Emailmalloyza@oregonstate.edu
Confirm Emailmalloyza@oregonstate.edu
Attached Files? file icon tree march 2013.phy (157,810 bytes) 1969-12-31 17:33

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-  Notes
(0003057)
user19
1969-12-31 17:33

The file included spaces in the sequence name. Since there's multiple phylip formats (inf length names delimited by 'space' and there's the max 10 char name) we attempt to pick the right format, but the space in the middle of the name confused MEGA.
(0003058)
user19
1969-12-31 17:33

Hi Heidi,

I took a look at the file you sent me. The problem is that the sequence names contain spaces. Since there’s so many different implementations of the phylip format, MEGA tries it’s best to convert all of them properly. This means there’s somewhat complicated logic which has to decide whether a name is of the 10 character format, or is some other length and terminates with a space. Anyway, just remove the spaces in the names and the file should convert just fine.

Daniel Peterson
(0006319)
guest (reporter)
2023-04-14 00:50

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- Issue History
Date Modified Username Field Change
1969-12-31 17:33 user19 Note Added: 0003057
1969-12-31 17:33 user19 Status new => resolved
1969-12-31 17:33 user19 Resolution open => fixed
1969-12-31 17:33 user19 Assigned To => user19
1969-12-31 17:33 user19 Note Added: 0003058
2023-01-12 14:17 guest New Issue
2023-04-14 00:50 guest Note Added: 0006319


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