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acebrowser/conf/elegans.pm  view on Meta::CPAN

use CGI 'escape','img';

# here's the root of all our stuff
$ROOT = '/perl/ace/elegans';
$WB   = '/wormbase';  # The root is at the top level

# ========= $NAME =========
# symbolic name of the database (defaults to name of file, lowercase)
$NAME = 'elegans';

# ========= $HOST  =========
# name of the host to connect to
#$HOST = 'brie2.cshl.org';
#$HOST = 'stein.cshl.org';
$HOST = 'localhost';
#$HOST = 'brie.cshl.org';

# ========= $PORT  =========
# Port number to connect to
$PORT = 2005;

# ========= $STYLESHEET =========
# stylesheet to use
$STYLESHEET = "$WB/stylesheets/wormdb.css";

# ========= $PICTURES ==========
# Where to write temporary picture files to:
#   The URL and the physical location, which must be writable
# by the web server.
@PICTURES = ('/ace_images' => '/var/tmp/ace_images');

# This controls at what point the "pic" script should stop making individually-clickable
# elements.
$MAX_IN_COLUMN = 100;

# location of random pictures to display on certain pages
$RANDOM_PICTS = "$WB/random_pic";
$PIC_SCRIPT   = "$ROOT/misc/random_pic";

#========================= WORMBASE-SPECIFIC CONFIGURATION ==================

# ========== An icon to use for "home" ==========
# leaving this undefined suppresses the generation of a "home" link
# $HOME_ICON = "$ICONS/arrows/uarrw.gif";

# =========  An icon to use for searching =======
# leaving this undefined suppresses the generation of a "search" link
# $SEARCH_ICON = "$ICONS/unknown.gif";

# position of the big banner
$BANNERS   = "$WB/banners";
$BANNERS   = "$WB/banners";
@BANNER_SIZE   = (640,56);

# fixed width for the page
$PAGEWIDTH = 660;

# position of the "cross"
$CROSS_ICON = "$WB/images/cross1.gif";
$ARROWR_ICON = "$WB/images/arrow_right.gif";
$ARROWL_ICON = "$WB/images/arrow_left.gif";

# position of neuron diagrams
$NEURON_DIAGRAMS = "$WB/cell/diagrams";

# ======== BLAST DATABASES ===========
# location of BLAST databases
$BLAST_ROOT = '/usr/local/wublast';;
$BLAST_BIN   = "$BLAST_ROOT/bin/";
$BLAST_MATRIX  = "$BLAST_ROOT/matrix";
$BLAST_FILTER  = "$BLAST_ROOT/filter";
$BLAST_DB      = "/usr/local/acedb/elegans/blast";
$BLAST_CUTOFF  = 0.001;
$BLAST_MAXHITS = 20;
@BLAST_default = ('blastp' => 'WormPep');
%BLAST_labels  = ('EST_Elegans' => 'elegans ESTs',
		  'Elegans'     => 'elegans genomic',
		  'WormPep'     => 'WormPep');
%BLAST_ok      = ('blastn'  => [qw/Elegans EST_Elegans/],
		  'tblastn' => [qw/Elegans EST_Elegans/],
		  'blastp'  => [qw/WormPep/],
		  'blastx'  => [qw/WormPep/]
		 );
# ========= $BANNER =========