Activity

From 11/20/2013 to 12/19/2013

12/19/2013

10:23 pm Bug #124 (Closed): Querying for SOX2 but got SOX21 when adding gene set
Fixed and closed. Daofeng Li
10:20 pm Bug #126 (Closed): genome snapshot error
Daofeng Li
10:20 pm Bug #126: genome snapshot error
Fixed and closed. Daofeng Li
10:20 pm Bug #125 (Closed): could not select numerical track from geneplot
Fixed and closed. Daofeng Li
10:18 pm Bug #127 (Closed): could not select track for scatter plot
Fixed and closed. Daofeng Li
08:23 am Bug #125 (Resolved): could not select numerical track from geneplot
Fixed in v30.4.1 Xin Zhou
08:23 am Bug #127 (Resolved): could not select track for scatter plot
Xin Zhou
08:23 am Bug #127: could not select track for scatter plot
Fixed in v30.4.1 Xin Zhou
08:22 am Bug #128 (Rejected): upload a session didn't show the status list
Not a bug it's the way it currently works. Downloaded session does not remember its original session group. Xin Zhou
07:44 am Bug #126 (Resolved): genome snapshot error
Fixed in v30.4.1. Thanks! Xin Zhou

12/18/2013

10:01 pm Bug #128 (Rejected): upload a session didn't show the status list
* use the session id could show the status list
* a bug or a design?
Daofeng Li
09:55 pm Bug #127 (Closed): could not select track for scatter plot
* like issue #125 Daofeng Li
09:51 pm Bug #126 (Closed): genome snapshot error
* the new v30.4 code
* loading roadmap hub
* select genome snapshot -> add tracks
* see error from attached screen...
Daofeng Li
09:48 pm Bug #125 (Closed): could not select numerical track from geneplot
* the new v30.4 code
* after load Roadmap hub, could not add numerical tracks when doing geneplot
Daofeng Li
07:21 am Bug #122: defaultcontent=on behavior differently since v30.2
Yes good point. Now you will need to import Roadmap hub to show these default tracks. I will make it possible for emb... Xin Zhou

12/17/2013

05:40 pm Bug #122: defaultcontent=on behavior differently since v30.2
* this change would affect the embedded browser with default tracks
** like http://cgs.wustl.edu/~xzhou/plugin/1.htm...
Daofeng Li

12/16/2013

10:03 am Bug #122 (Rejected): defaultcontent=on behavior differently since v30.2
This is not an issue, rather a feature change.
There's no default dataset anymore. User must specifically choose a...
Xin Zhou
09:29 am Bug #124 (Resolved): Querying for SOX2 but got SOX21 when adding gene set
Fixed on public browser. Xin Zhou
09:28 am Bug #124 (Closed): Querying for SOX2 but got SOX21 when adding gene set
Add gene set > enter SOX2 > Submit, but got SOX21 instead Xin Zhou

12/15/2013

09:38 am Bug #123 (Closed): embedded browser cannot handle hidden tracks
If a track is set to be hidden by default, the embedding fails Xin Zhou

12/13/2013

11:37 pm Bug #122 (Rejected): defaultcontent=on behavior differently since v30.2
* defaultcontent=on still works
* now if users want to see default tracks, have to use following link:
**http://epg...
Daofeng Li

12/10/2013

01:40 pm Bug #121 (Closed): duplicated display of meta colormap
Daofeng Li
01:22 pm Bug #121 (Resolved): duplicated display of meta colormap
Fixed! Thanks, Xin Zhou
01:08 pm Bug #121 (Closed): duplicated display of meta colormap
* the new v30.2 code at test
* after loading roadmap then load encode, the metadata color map display 2 Sample and 2...
Daofeng Li

12/06/2013

12:55 pm Bug #120 (Closed): custom bed track strand issue
* yes, indeed. Daofeng Li
12:48 pm Bug #120 (Resolved): custom bed track strand issue
fixed on public browser. Xin Zhou
12:18 pm Bug #120 (Closed): custom bed track strand issue
* the strand would display as 'reverse' when the strand was actually a dot '.'
* see Hyungjoo's hub (DMR tracks) fo...
Daofeng Li
07:00 am Bug #119: fixedscale and track height probem in json hub
tracks with "group:1" attribute all share a common scale range and the range is automatic. You cannot apply fixed sca... Xin Zhou
12:30 am Bug #83 (Closed): oversize text in SVG on Firefox
Daofeng Li
12:29 am Bug #116 (Closed): chromHMM tracks cannot be found by "chromhmm" keyword
Daofeng Li
12:29 am washugb v30 release
* We have released v30 of WashU EpiGenome Browser.
h2. Updates:
* custom gene tracks, more details please see: ...
Daofeng Li
12:27 am Bug #119 (Closed): fixedscale and track height probem in json hub
* I am working with Hyungjoo for his hub
* url: http://remc.wustl.edu/hyungjoo/hub_danRer7/hub_Zv9_DNAme.json
* pro...
Daofeng Li

11/29/2013

11:11 pm Feature #118 (New): search auto completion by right clicking from gene tracks
* Is it possible or useful to implement auto completion when we do gene name searching from right clicking of gene/SN... Daofeng Li
11:10 pm Feature #117 (New): add track name to genome snapshot
* I think it would be useful if the track name could be display when generating genome snapshot Daofeng Li

11/24/2013

09:17 pm Bug #112 (Closed): bam display as 'density' when specified as 'full' in UCSC hub
Daofeng Li
09:13 pm Bug #113 (Closed): retrieve session which contains USCS hub error
fixed and closed Daofeng Li
09:12 pm Bug #116: chromHMM tracks cannot be found by "chromhmm" keyword
* that's a useful update
* tested worked.
* so the search will perform against not just track name, also meta data ...
Daofeng Li
05:15 pm washugb v29 release
* We have released v29 of WashU EpiGenome Browser.
h2. Updates:
* access HTTPS resources, including Dropbox, fo...
Daofeng Li
03:44 pm Bug #114: Cannot read property 'cigar' of undefined
no clue... Xin Zhou
03:42 pm Bug #113 (Resolved): retrieve session which contains USCS hub error
fixed on public server Xin Zhou
03:25 pm Bug #111: Tracks disappear when using config panel
Sorry I just figured out the trouble. You must have used this in declaring the track in your hub:
height:"20",
...
Xin Zhou
01:47 pm Bug #112 (Resolved): bam display as 'density' when specified as 'full' in UCSC hub
fixed on public server Xin Zhou
11:55 am Bug #116 (Resolved): chromHMM tracks cannot be found by "chromhmm" keyword
fixed in v29 on public browser Xin Zhou
11:55 am Bug #116: chromHMM tracks cannot be found by "chromhmm" keyword
fixed in v29 on public browser Xin Zhou
10:22 am Bug #116 (Closed): chromHMM tracks cannot be found by "chromhmm" keyword
in hg19, search tracks by keyword "chromhmm" and found nothing
"chromhmm" should match a metadata term and should tu...
Xin Zhou

11/23/2013

04:19 pm Bug #115: tracks do not relocate and some disappear in GSV
When I load a new browser session (not from a saved session ID, but start over completely), then load the gene list, ... Rebecca Lowdon
04:07 pm Bug #115 (New): tracks do not relocate and some disappear in GSV
Loaded my browser session ID: L607cgtoI3
Then loaded attached regions into GSV via copy-paste.
Adjust to view "gen...
Rebecca Lowdon

11/22/2013

09:31 pm Bug #114 (Rejected): Cannot read property 'cigar' of undefined
* use the UCSC hub: http://vizhub.wustl.edu/hubSample/hg19/hg19/trackDb.txt
* open a 2nd panel
* switch to full
* ...
Daofeng Li
09:24 pm Bug #113 (Closed): retrieve session which contains USCS hub error
* session id: LvPDnsxtlZ (public hg19)
* use the UCSC hub mentioned before, save session, retrieve, an error happene...
Daofeng Li
09:20 pm Bug #112 (Closed): bam display as 'density' when specified as 'full' in UCSC hub
* minor issue
* when submit an UCSC hub, I have define the bam tracks display as 'full' mode
* the browser actually...
Daofeng Li

11/21/2013

11:17 am Bug #111 (New): Tracks disappear when using config panel
Tried adding three new tracks via Facet browser from my data hub. When I load them they appear with a huge track heig... Rebecca Lowdon
12:08 am Bug #90 (Closed): long range track display runs into error
* tested the long range tracks and could be displayed well.
* Closed and could re-opened if we found this issue again.
Daofeng Li

11/20/2013

03:13 pm Feature #110 (New): hub check button
* I think it would be great to add a 'check hub' button to the hub submission panel
* users could check the hub firs...
Daofeng Li
10:28 am Bug #109: Problem saving session
Saving session with many tracks and a large gene set will run into this error
mysql rejects a very long query by s...
Xin Zhou
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