MantisBT - MEGA |
| View Issue Details |
|
| ID | Project | Category | View Status | Date Submitted | Last Update |
| 0002466 | MEGA | Alignment Explorer | public | 2021-01-03 13:04 | 2021-01-04 14:40 |
|
| Reporter | guest | |
| Assigned To | gstecher | |
| Priority | normal | Severity | minor | Reproducibility | have not tried |
| Status | resolved | Resolution | fixed | |
| Platform | PC | OS | Linux | OS Version | Debian |
| Product Version | MEGA 11 (Graphical Interface version) | |
| Target Version | | Fixed in Version | | |
| First Name | James |
| Last Name | Gibbs |
| Email | jgibbs@niaid.nih.gov |
| Confirm Email | jgibbs@niaid.nih.gov |
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| Summary | 0002466: Underscore characters are replaced by spaces in alignment and exported Nexus files |
| Description | Hi,
Whenever I export any alignment to nexus format, all underscore characters in taxa names are replaced by spaces. This causes an error when importing the Nexus file into BEAUTi "number of taxa does not match NTAX field". (Taxa with spaces are considered two taxa) Oddly, the underscore characters in the taxa names are properly included in the nexus file below, adjacent to where the sequences are listed.
This seems to be a problem upon import because the underscores are gone in the alignment right after I import the fasta file.
I am using MEGA version 10.2.2 on Linux. |
| Steps To Reproduce | Click Align button and select "Edit/Build Alignment" Select "Retrieve a sequence from a file". Choose the fasta file. Underscores are removed from alignment window at this point. Exporting alignment to Nexus format or fasta format confirms this.
Creating an alignment then importing the data results in the same problem. |
| Additional Information | |
| Tags | No tags attached. |
| Relationships | |
| Attached Files |  underscoretest.nexus (16,963) 2021-01-03 13:04
https://megasoftware.net/mantis_bt/ |
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| Issue History |
| Date Modified | Username | Field | Change |
| 2021-01-03 13:04 | guest | New Issue | |
| 2021-01-03 13:04 | guest | File Added: underscoretest.nexus | |
| 2021-01-04 14:40 | gstecher | Note Added: 0004535 | |
| 2021-01-04 14:40 | gstecher | Status | new => resolved |
| 2021-01-04 14:40 | gstecher | Resolution | open => fixed |
| 2021-01-04 14:40 | gstecher | Assigned To | => gstecher |