[GENERAL]
description = <#gbrowse_name#>
db_adaptor = Bio::DB::SeqFeature::Store
db_args = -adaptor DBI::mysql
-dsn dbi:mysql:database=<#database_name#>;host=localhost
-user 'www-data'
plugins = BatchDumper FastaDumper Submitter
# Web site configuration info
gbrowse root = gbrowse
stylesheet = gbrowse.css
buttons = images/buttons
js = js
tmpimages = tmp
region segment = 100000
# advanced features
balloon tips = 1
balloon style = GBox
drag and drop = 1
# one hour
cache time = 0
# where to link to when user clicks in detailed view
link = AUTO
# what image widths to offer
image widths = 450 640 800 1024
# default width of detailed view (pixels)
default width = 640
# max and default segment sizes for detailed view
max segment = 500000
default segment = 50000
# zoom levels
zoom levels = 50 100 200 1000 2000 5000 10000 20000 40000 100000 200000 500000 1000000
# whether to show the sources popup menu (0=false, 1=true; defaults to true)
show sources = 1
# colors of the overview, detailed map and key
overview bgcolor = #EAF3D1
detailed bgcolor = #EAF3D1
key bgcolor = lightgrey
# color of the selection rectangle
hilite fill = honeydew
hilite outline = darkseagreen
# examples to show in the introduction
#examples = MtChr1:325500..329900 MtChr1:182000..199000 MtChr1:148000..193000 MtChr3:42058653..42059652
# "automatic" classes to try when an unqualified identifier is given
automatic classes = Symbol Gene Clone
### HTML TO INSERT AT VARIOUS STRATEGIC LOCATIONS ###
# inside the section
head =
# at the top...
#header = Pulse Crop GBrowse
# a footer
#footer =
#
#
$Id: Medicago Assembly 3.5, Pulse GBrowse v 1.0 02/02/2011 laceysanderson Exp $
# Various places where you can insert your own HTML -- see configuration docs
html1 =
#html2 = All features are displayed on the Medicago 3.5 chromosomes regardless of species of origin.
html3 =
html4 =
html5 =
html6 =
# Advanced feature: custom balloons
custom balloons = [balloon]
delayTime = 500
[GBox]
balloonImage = Box.png
stem = 0
vOffset = 20
hOffset = 20
padding = 1
shadow = 0
# Advanced feature: an example of a customized popup mentu for rubber band selection
[OVERVIEW SELECT MENU]
width = 100
html =
[DETAIL SELECT MENU]
width = 250
html =
# Configuration for submitter plugin (used in above menu)
[Submitter:plugin]
submitter = [NCBI_BLAST]
confirm = 1
url = http://www.ncbi.nlm.nih.gov/blast/Blast.cgi
seq_label = QUERY
PAGE = Nucleotides
PROGRAM = blastn
DATABASE = nr
CLIENT = web
CMD = put
# Default glyph settings
[TRACK DEFAULTS]
glyph = generic
height = 8
bgcolor = cyan
fgcolor = cyan
label density = 25
bump density = 100
link = AUTO
link_target = _blank
[Genes]
feature = gene
glyph = transcript
key = Genes