WormBase/website — Issue #40: #689 [wormbase-help] Coding transcripts track
Author: Paul-Davis
Created: 2012-02-02 14:09:48+00:00
State: open

Reported by Raymond Lee 2011-09-07

issue reproduced on classic and beta sites, Sep 7, 2011.

frederick.partridge@bioch.ox.ac.uk On 09/07/2011 05:36 AM, Frederick Partridge wrote:

Hi Wormbase,

Coding transcripts track on the genome browser isn't working right now. -- Dr Freddie Partridge Department of Biochemistry University of Oxford

1 Todd Harris

written 2011-09-09

Changed status from new to resolved.

Resolved. GFF method changed.

2 Todd Harris

written 2011-09-09

Changed status from resolved to open.

Correction: the changes to the GFF annotations have now broken our ability to display coding transcripts.

3 Todd Harris

written 2011-09-12

Issue 693 was marked as a duplicate of this issue.

4 Todd Harris

written 2011-11-04

Changed responsible from webdev_team to xshi.

This looks like a configuration problem.

5 Todd Harris

written 2011-11-04

Issue 723 was marked as a duplicate of this issue.

6 xiaoqi shi

written 2011-11-08

Hi Raymond,

I've corrected the GBrowse configuration for coding transcript tracks. Could you take a look at the dev site to see if it is working right?

7 Raymond Lee

written 2011-11-08

yes, it's visible now. if you let me know when, i can notify the user once the fix is propagated to the live site. thanks and welcome back!

8 xiaoqi shi

written 2011-11-09

Thanks Raymond! This fix is on live site now.

9 Raymond Lee

written 2011-11-09

Changed status from open to resolved.

great, thanks!

10 Paul Davis

written 2011-11-14

Changed status from resolved to open.

Hi Guys,

I think we still need to look at the track configuration as the coding transcripts track isn't displaying as it should/used to. The current display looks like a "gene span" where the introns are missing and the UTR isn not distinguished from the rest of the span/model.

11 Paul Davis

written 2011-11-14

Issue 744 was marked as a duplicate of this issue.

12 Anonymous

written 2011-11-14

Hi Paul, I will look inti this and get back to you soon.

13 xiaoqi shi

written 2011-11-15

Hi Paul, could you take a look at the coding transcript track again to see if it's fixed? Thanks! Xiaoqi

14 Paul Davis

written 2011-11-16

Hi Xiaoqi,

Great work....thanks, it looks great :)

15 xiaoqi shi

written 2011-11-18

Changed status from open to resolved.

16 Paul Davis

written 2011-11-25

It this going to be rolled onto beta?

17 xiaoqi shi

written 2011-12-06

Yes, it will be rolled into beta too.

18 Paul Davis

written 2011-12-16

Added attachment coding_transcript_error.png.

Has this been rolled into beta as there is a track error on beta today

I've attached a screenshot of the error

19 Paul Davis

written 2011-12-20

Changed status from resolved to open.