Activity
From 01/15/2014 to 02/13/2014
02/13/2014
- 05:59 pm Feature #158: wrapping for tooltip read information
- good suggestion :)
- 05:58 pm Bug #159: Session not saving
- my bad, wrong permission for the session folder. Should be fixed now. Please let me know if problem still exists.
- 03:32 pm Feature #161 (New): Include scaffolds on genome snapshot
- Would be nice to view scaffolds and unassigned chromosome fragments (in danRer7 referred to as "NA###") in the "genom...
- 03:27 pm Bug #160 (Closed): Custom PE BAM files unstable
- BAM tracks of paired-end alignments appear unstable on the browser. Relocating or zooming in/out causes reads to "mov...
- 03:20 pm Bug #159 (Closed): Session not saving
- Was trying to save a session to send you another bug ... but sessions not working on danRer7!
- 03:18 pm Feature #158 (New): wrapping for tooltip read information
- Would be nice if information in tooltip would automatically wrap to display all information. For example, I want to v...
02/11/2014
- 10:52 pm Bug #123 (Closed): embedded browser cannot handle hidden tracks
- 10:52 pm Feature #145 (Closed): loose format requirement for coordinates format
- * yes, it works great!
- 10:52 pm Bug #152 (Closed): clicking "zoom in" button makes browser unresponsive
- 10:51 pm Bug #148 (Closed): add geneset to genome snapshot error
- 10:50 pm Bug #157 (New): refSeq gene position didn't keep in session
- * move refSeq gene to top of canvas
* same session, load, the refSeq gene goes to bottom
02/07/2014
- 11:45 pm washugb v32 release
- * We have released v32 of WashU EpiGenome Browser.
h2. Updates
* shared metadata, for details please see: http:... - 11:32 pm Complete Epigenome Browser Bug #156 (New): WUGB popup link get blocked
- * the popup being blocked seems are default behavior of most modern browsers
- 04:11 pm Bug #155 (Rejected): browser url parameter for coordinate not working
- Xin,
If you go to my Feb. 2014 wiki and on Feb. 6-7, I have a table of regions and in the last column there are brow...
02/06/2014
- 02:11 pm Bug #154 (Resolved): Cannot search for gene in embedded browser
- Fixed in v32.0.7.
See this example: http://cgs.wustl.edu/~xzhou/embed/1.html - 02:04 pm Bug #154 (Closed): Cannot search for gene in embedded browser
- If the embedded browser only imports "base.js" it can't search and jump to a gene, this error will be given:
Objec...
02/05/2014
- 12:31 pm Bug #153 (Closed): track information display error
- * same a session, load it with the link generated
* right click a track, choose Information, you will see some infor... - 10:32 am Bug #152 (Resolved): clicking "zoom in" button makes browser unresponsive
- Fixed in v32.0.3 on public browser
The bug is still there on test server for you to check out. - 10:31 am Bug #152 (Closed): clicking "zoom in" button makes browser unresponsive
- CLick the "+" (zoom in) button multiple times until getting this message:
At finest level, cannot zoom in
And t...
02/01/2014
- 08:35 am Feature #145 (Resolved): loose format requirement for coordinates format
- Fixed in v32.0.1. Try these coordinates with multiple spaces separating fields:
chr7 55418829 55419003
chr7...
01/31/2014
- 08:41 am Bug #119 (Closed): fixedscale and track height probem in json hub
- 08:40 am Bug #144 (Closed): mouse over event for meta data header ( in track table ) disappear
- 08:40 am Bug #150 (Closed): js error and clickable 'None yet'
- 08:31 am Bug #150 (Resolved): js error and clickable 'None yet'
- Fixed, thanks for finding out this tricky problem!
- 12:19 am Bug #150 (Closed): js error and clickable 'None yet'
- * the js errors in the console seems happened when open 2nd panel, while no crash happens
* the 'None yet' in 'custo...
01/30/2014
- 06:50 am Bug #149 (Rejected): possible coordinate issue
- 06:50 am Bug #149: possible coordinate issue
- Thanks for reporting this. This is because our browser's coordinates are 0-offset, they all start from 0. But in UCSC...
- 01:09 am Bug #149 (Rejected): possible coordinate issue
- I was looking at a SNP (chr16:89986117-89986117) which is a C shown on UCSC browser (see attached image) but it's a G...
01/28/2014
- 07:20 am Bug #148 (Resolved): add geneset to genome snapshot error
- Fixed, thanks!
01/27/2014
- 05:22 pm Bug #148 (Closed): add geneset to genome snapshot error
- * submit a list of coordinates to gene set
* looks like browser didn't give a default name for the list, when you cl... - 03:11 pm Bug #147 (Closed): crash when track file not exist in json hub
- * I found if I renamed a file in my hub, loading the hub without updating it, browser will throw 'Json syntax error'
01/24/2014
- 05:21 pm Support #136 (Closed): Collecting new Hi-C data sets
- 05:07 pm Support #136: Collecting new Hi-C data sets
- * processed the data, but found the data was already in our browser....
01/23/2014
- 11:58 am Bug #140 (Resolved): error with tracks of same file URL
- Fixed in v31.0.8
Load a hub with duplicated track URLs:
http://epigenomegateway.wustl.edu/browser/?genome=hg19&... - 11:57 am Bug #144 (Resolved): mouse over event for meta data header ( in track table ) disappear
- Fixed in v31.0.8
- 11:56 am Feature #139 (Resolved): metadata heatmap compatibility between data hubs
- A mechanism for sharing metadata vocabulary among hubs is now available in v31.0.8
Example: a pair of hubs sharing... - 08:35 am Bug #144: mouse over event for meta data header ( in track table ) disappear
- I will put it back then!
- 08:33 am Bug #144: mouse over event for meta data header ( in track table ) disappear
- ok...at least Bo and I think it's pretty useful and convenient...
- 08:32 am Feature #145: loose format requirement for coordinates format
- how about not limit to 1 space delimited? People usually view DMRs copied from terminal may have multiple space betw...
- 07:37 am Bug #146 (New): Session cannot save more than 1 custom metadata vocabularies
- If 2 or more custom metadata vocabularies are loaded, only 1st one can be saved in session.
- 07:08 am Feature #145: loose format requirement for coordinates format
- what other formats do you suggest?
- 07:06 am Bug #144: mouse over event for meta data header ( in track table ) disappear
- No I removed this feature.
01/22/2014
- 10:28 pm Feature #145 (Closed): loose format requirement for coordinates format
- * in current version of browser, the format for coordinates have to be exactly same as 'chr:start-end' or 'chr start ...
- 10:22 pm Bug #144 (Closed): mouse over event for meta data header ( in track table ) disappear
- * on public site, when mouse over the meta data headers, no 'Select all' function appears like before
* attached is ... - 12:41 pm Bug #143 (Resolved): error when switching from intra- to inter-chromosomal display
- Fixed in v31.0.7
- 09:38 am Bug #143 (Closed): error when switching from intra- to inter-chromosomal display
- Load the browser and show some tracks in intra-chromosomal region (e.g. the default location, only within one chromos...
- 08:46 am washugb v31 release
- * We have released v31 of WashU EpiGenome Browser.
h2. Updates
* Improved user interface, for details please se... - 08:37 am Bug #142 (Closed): typo "Unselect All"
- 07:51 am Bug #142 (Resolved): typo "Unselect All"
- Fixed, it was changed into "Deselect" instead of "Unselect"
01/21/2014
- 10:30 pm Bug #142 (Closed): typo "Unselect All"
- 08:44 am Bug #141 (Resolved): improper view range in session-restored gene set view
- Fixed in v31.0.5
01/20/2014
- 04:48 pm Support #136: Collecting new Hi-C data sets
- user requested a Hi-C data set for fruit fly
Sexton T, Yaffe E, Kenigsberg E, Bantignies F et al. Three-dimensiona...
01/19/2014
- 01:31 pm Bug #141 (Closed): improper view range in session-restored gene set view
- Run gsv using a gene set, zoom in to show part of the set, save session then restore it. In the restored view the ent...
01/18/2014
- 01:24 pm Bug #140 (Closed): error with tracks of same file URL
- browser has built-in mechanism to prevent a track from being loaded twice.
But when loading a hub with duplicated ... - 09:50 am Feature #139 (Closed): metadata heatmap compatibility between data hubs
- It would be nice if the metadata heatmap could integrate categories that are shared between data hubs. In this exampl...
01/17/2014
- 06:09 pm Bug #138 (Closed): track display outside of canvas
- * what a quick fix! Closed!
- 05:14 pm Bug #138 (Resolved): track display outside of canvas
- Fixed in v31.0.1. Now when a second hub is added, the old tracks won't be pushed outside. Thanks!
- 04:58 pm Bug #138 (Closed): track display outside of canvas
- * if we got 2 json hub, load one by one
* the 1st loaded hub would be pull out of the canvas
* could use Jing's hub...
01/16/2014
- 07:48 am Bug #137 (Rejected): cutsom BED track not displayed
- Sorry but for a bed track to be displayed, it must have at least 5 fields:
4th - name, if no name, use dot or leave ...
01/15/2014
- 11:23 am Bug #137 (Rejected): cutsom BED track not displayed
- Custom bed tracks are not displayed properly when added to a session with a data hub.
First loaded data hub: http:... - 08:00 am Support #136 (Closed): Collecting new Hi-C data sets
- Collect new Hi-C data sets and build them into the browser.
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