| Anonymous | Login | Signup for a new account | 2024-11-22 19:09 MST |  |
| My View | View Issues | Report Issue | Change Log | Roadmap | My Account |
| View Issue Details [ Jump to Notes ] | [ Issue History ] [ Print ] | ||||||||
| ID | Project | Category | View Status | Date Submitted | Last Update | ||||
| 0001059 | MEGA | Alignment Explorer | public | 2019-01-04 05:09 | 2019-01-11 21:39 | ||||
| Reporter | guest | ||||||||
| Assigned To | gstecher | ||||||||
| Priority | normal | Severity | minor | Reproducibility | have not tried | ||||
| Status | resolved | Resolution | fixed | ||||||
| Platform | PC | OS | Windows | ||||||
| Product Version | MEGA 11 (Graphical Interface version) | ||||||||
| Target Version | Fixed in Version | ||||||||
| Summary | 0001059: Clustal alignment import problem | ||||||||
| Description | Dear Address, I have came across a bug. I imported Clustal alignment to MegaX, and when I clicked Phylogenetic Analysis an error meggage came up. It seems, that when I import amino acid alignment with conserved sites the stars and points are imported as a last sequence. When I delete the wrongly imported last line it works well. Here is a video I just made from the bug: https://youtu.be/1yQsH7u7SDQ [^] Regards, Janos | ||||||||
| Steps To Reproduce | import an amino acid Clustal alignment from a file (preferably with lots of conserved amino acids) and hit Phylogenetic Analysis | ||||||||
| Additional Information | I have not tested this with nucleotides. | ||||||||
| Tags | No tags attached. | ||||||||
| Attach Tags | (Separate by ",") | ||||||||
| First Name | Janos | ||||||||
| Last Name | Agoston | ||||||||
| agoston.janos123@gmail.com | |||||||||
| Confirm Email | agoston.janos123@gmail.com | ||||||||
| Attached Files | |||||||||
 Relationships |
|
 Relationships |
|
Notes |
|
|
(0004160) gstecher (administrator) 2019-01-07 07:48 |
Hi Janos, I am writing in response to the bug report you recently submitted regarding the MEGA software. Can you send me the .aln file you used when you encountered the problem with importing a Clustal alignment. That would help me investigate the problem. Thanks! -- Best regards, Glen Stecher Institute for Genomics and Evolutionary Medicine igem.temple.edu |
|
(0004176) gstecher (administrator) 2019-01-08 09:37 |
Hi Janos, Thanks for sending that file. It looks like the error is caused because MEGA does not recognize that the last line in the .aln file is not sequence data but rather describes the level of conservation at each site. This will be fixed in the next release of MEGA. Until then, the workaround is to delete the last row in the Alignment Explorer or open the .aln files in a text editor and delete the last row in the file. On 1/8/2019 7:53 AM, J. Agoston wrote: > Dear Glen, > > Thank you for your reply! I'm sending you the alignment file in attachment. > Regards, > Janos |
|
(0004180) gstecher (administrator) 2019-01-11 21:39 |
fixed by Christina in 10.1.0 |
|
Notes |
|
Issue History |
|||
| Date Modified | Username | Field | Change |
| 2019-01-04 05:09 | guest | New Issue | |
| 2019-01-07 07:35 | gstecher | Note Deleted: 0001035 | |
| 2019-01-07 07:48 | gstecher | Assigned To | => gstecher |
| 2019-01-07 07:48 | gstecher | Status | new => assigned |
| 2019-01-07 07:48 | gstecher | Note Added: 0004160 | |
| 2019-01-08 09:37 | gstecher | Note Added: 0004176 | |
| 2019-01-11 21:39 | gstecher | Note Added: 0004180 | |
| 2019-01-11 21:39 | gstecher | Status | assigned => resolved |
| 2019-01-11 21:39 | gstecher | Resolution | open => fixed |
|
Issue History |
| Copyright © 2000 - 2024 MantisBT Team |
|