0fe94780bdaf23f4cade90e2e02e4c14cbb02376
jcasper
  Sun Apr 22 01:11:28 2018 -0700
Installing updated hg.conf files from UCSC servers

diff --git confs/rr.hg.conf confs/rr.hg.conf
index f6f9c48..ed21cd1 100644
--- confs/rr.hg.conf
+++ confs/rr.hg.conf
@@ -1,119 +1,116 @@
 # Config file for the UCSC Human Genome server
 #
 # the format is in the form of name/value pairs
 # written 'name=value' (note that there is no space between
 # the name and its value. Also, no blank lines should be in
 # this file
 ###########################################################
 
 include hg.conf.private
 
 # trackDb table to use
 db.trackDb=trackDb
 # Comment out to disable new double/query insert highlighting options:
 browser.indelOptions=on
 
 #  /data/tmp is the default tmpdir location, change this if desired elsewhere.
 #  What you want is for it to be on a local filesystem, and it must be
 #  read/write/delete enabled for the Apache browser effective user
 
 # Programs required for per-SNP geographic maps of HGDP population
 # allele frequencies:
 hgc.psxyPath=/hive/data/outside/GMT4.3.1/bin/psxy
 hgc.ps2rasterPath=/hive/data/outside/GMT4.3.1/bin/ps2raster
 hgc.ghostscriptPath=/usr/bin/ghostscript
 
 #hgHubConnect
 hgHubConnect.cacheDir=../trash/hgHubConnect/hubCrawlPublic
 
 # location of grepIndex files
 grepIndex.genbank=/gbdb/genbank/grepIndex
 grepIndex.default=/gbdb
 
 # wiki items to use the login system in the genomewiki for
 #       session management
 login.systemName=hgLogin CGI
 wiki.host=genome.ucsc.edu
 wiki.userNameCookie=wikidb_mw1_UserName
 wiki.loggedInCookie=wikidb_mw1_UserID
 
 # wiki items used by the wiki track to allow editing and fetching
 #       pages from the genomewiki
 # wikiTrack function turned on 2009, set read-only June 2012
 wikiTrack.readOnly=yes
 #  URL is the wiki location for the article pages
 wikiTrack.URL=http://genomewiki.ucsc.edu
 #  browser is the site to create links to for new wiki articles
 wikiTrack.browser=genome.cse.ucsc.edu
 #  List of wiki user names that have super user edit privileges
 #       to wiki track items.  Currently this is only a delete item privilege.
 #       A comma separated listing of Wiki user names.
 wikiTrack.editors=Hiram
 #  List of databases to enable the wikiTrack function
 wikiTrack.dbList=hg18,mm9,hg19
 # session cookie is used during wiki page edits
 wiki.sessionCookie=wikidb_mw1__session
 
 # Comment out to turn off survey link in hgTracks
 # survey=on
 
 udc.cacheDir=../trash/udcCache
 
 # log stack dumps
 browser.dumpStack=on
 
 # because Galt told us to do it 04/04/11
 signalsHandler=on
 
 # Transient setting that activates link on hgTracks and
 # hgGateway for ENCODE/modENCODE survey (March 2010).
 # Change to survey=off (or remove survey setting) to retire the survey.
 #survey=on
 #survey=https://www.surveymonkey.com/s/5YYTRWQ
 #surveyLabel=2011 ENCODE Usability Survey 
 
 # Parallel fetching of remote network resources using bigDataUrl 
 #    such as trackHubs and customTracks
 # how many threads to use (set to 0 to disable)
 parallelFetch.threads=100
 # how long to wait in seconds for parallel fetch to finish
 parallelFetch.timeout=90
 
 # Login statements requested by Chin on Jul 2, 2012
 login.browserName=UCSC Genome Browser
 login.browserAddr=http://genome.ucsc.edu
 login.mailSignature=UCSC Genome Browser Administrator
 login.mailReturnAddr=genome-www@soe.ucsc.edu
 
 #Parameters for suggestion form
 suggest.mailSignature=UCSC Genome Browser Staff
 suggest.mailReturnAddr=genome-www@soe.ucsc.edu
 suggest.browserName=UCSC Genome Browser
 
 # No Sql Injection settings
 # values for level are ignore, logOnly, warn, abort
 noSqlInj.level=abort
 # values for dumpStack are on, off
 noSqlInj.dumpStack=on
 
 #
 browser.node=1
 
 #survey=on
 #survey=https://www.surveymonkey.com/r/QYVSXKW
 #surveyLabel=Take our feedback survey!
 
 # Log visible tracks to error_log
 trackLog=on
 
 # location of CRAM reference sequences
 cramRef=/userdata/cramCache
 
 # Display phylogenetic tree in hgGateway (URL relative to cgi-bin)
 hgGateway.dbDbTaxonomy=../js/dbDbTaxonomy.js
 
 # Added as a test requested by Chris Lee
 # useBlatBigPsl=on
-
-survey=https://goo.gl/forms/OjEXtYGt1pxcukqp1
-surveyLabel=Transcript survey