d5d03d5ddbe1c3b2ad92d8c93ef5104a4787f249
jcasper
  Sun May 26 01:11:42 2019 -0700
Installing updated hg.conf files from UCSC servers

diff --git confs/asia.hg.conf confs/asia.hg.conf
index 9b9c1a4..e69de29 100644
--- confs/asia.hg.conf
+++ confs/asia.hg.conf
@@ -1,127 +0,0 @@
-#
-# This file is installed and updated by cfengine. Do not make changes here!
-# The original file is on kkstore, under the directory:
-#    kkstore:/var/cfengine/files/RR/data/apache/cgi-bin/hg.conf
-# Make changes there!
-#
-# 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
-
-# Bottleneck info for taming hyperactive web bots
-#bottleneck.host=localhost
-#bottleneck.port=17776
-
-# 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
-login.acceptIdx=no
-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.soe.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
-
-browser.node=3
-
-# 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=http://www.surveymonkey.com/s/XV666V5
-#surveyLabel=Take ENCODE Survey
-#survey=http://genome.ucsc.edu/goldenPath/help/image.html
-#surveyLabel=<BR>Trouble viewing the browser? Reload this web page.
-
-# 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
-
-#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
-
-#survey=on
-#survey=https://www.surveymonkey.com/r/QYVSXKW
-#surveyLabel=Take our feedback survey!
-
-# Display phylogenetic tree in hgGateway (URL relative to cgi-bin)
-hgGateway.dbDbTaxonomy=../js/dbDbTaxonomy.js
-
-# Added this line by request from jcasper (05/11/16)
-cramRef=/data/userdata/cramCache
-
-# Added as a test requested by Chris Lee
-# useBlatBigPsl=on
-
-# The following turns on short links for hgSession, allowing the redirect.
-# Uncommented on 1/23/19 by request from Brian Lee
-hgSession.shortLink=on
-
-# Allow the URL: /cgi-bin/hubApi to produce a WEB page
-# otherwise, it redirects to the help page, default off
-# hubApi.allowHtml=on