Thank you for reminding me about the "Reset" feature. But I think there is some mistake in the default configuration of the "OMIM Pheno Loci" track.
Using "Click here to reset..." resets the configuration to a state where the "OMIM Pheno Loci" track displays items with phenotype key 0, 1, 2, 3, 4. But, after that, if you visit the configuration page for "OMIM Pheno Loci", even if you *make* *no* *changes* to the default settings, the items with phenotype key 0 will disappear, and only the ones with key 1, 2, 3, 4 remain. After that, there is no way to turn back on the ones with key 0. Track configuration page: http://genome.ucsc.edu/cgi-bin/hgTrackUi?c=chr3&g=omimLocation The "Click here to reset..." feature, is thus putting this track into a state that it is impossible to get into through normal operation of the browser. There are two possibilities, and I need to know which is correct: 1) It should be possible to see items with phenotype key 0 if the user wants to, and thus that option should be included on the track configuration page, or 2) It should never be possible to see items with phenotype key 0, and thus "Reset" should turn off the ability to see items where key is not 1,2,3 or 4. Ed -----Original Message----- From: Luvina Guruvadoo [mailto:[email protected]] Sent: Monday, July 02, 2012 10:00 AM To: Erwin, Ed Cc: [email protected] Subject: Re: [Genome] OMIM Phenotypes with map key "null" Hi Ed, Your colleague should be able to re-set her options by resetting her cart. To do this, click on "Click here to reset..." from the Genome Browser Gateway page (http://genome.ucsc.edu/cgi-bin/hgGateway?org=Human&db=hg19). Please contact us again at [email protected] if you have any further questions. --- Luvina Guruvadoo UCSC Genome Bioinformatics Group On 6/28/2012 2:32 PM, Erwin, Ed wrote: > I am seeing some strange behavior with the track "OMIM Phenotypes - Gene > Unknown" > > According to the track settings page for this track, it is supposed to only > show annotations where the "phenotype map key" is 1, 2, 3, or 4. And the > user has the ability to turn on/off each of those individual values from the > configuration page: > http://genome.ucsc.edu/cgi-bin/hgTrackUi?c=chr3&g=omimLocation > > When I visit the browser, it is true that I only see values where it is 1, 2, > 3 or 4. > > But when my colleague, on a different computer, visits the same location, she > sees some additional items which do not have the key 1,2, 3 or 4. These > additional items are drawn in gray, and correspond to OMIM phenotype map key > "null" or "0". > > Is it possible that in some past version of the browser, the configuration > page allowed her to choose to display "0" and the browser has persisted that > choice? If so, how can she re-set her options? > > Thanks, > Ed Erwin > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
