New release

ChangeLog

@@ -1,7 +1,7 @@
 1.32    Mon Feb 18 17:41:28 EST 2002
 	* Made the zoom/scroll navigation bar more intuitive (in my opinion)
 	* Zoom levels more configurable
-	* Cleaned up the GIF buttons (you might need to install them manually)
+	* Cleaned up the GIF buttons (install will overwrite the old ones)
 	* Added GC and DNA content glyph to example config file
 
 1.31	Thu Jan 24 15:44:40 EST 2002

INSTALL

@@ -111,7 +111,11 @@ Note that the configuration files are always placed in a subdirectory
 named gbrowse.conf.  You cannot change this.  Similarly, the static
 files are placed in a directory named gbrowse.  The install script
 will detect if there are already configuration files in the selected
-directory and not overwrite them if so.
+directory and not overwrite them if so.  The same applies to the
+cascading stylesheet file (gbrowse.css) located in the gbrowse
+subdirectory.  However, the GIF files in the "buttons" subdirectory
+are not checked before they are overwritten, so be careful to copy the
+new copies somewhere safe if you have modified them.
 
 You can always manually move the files around after install.  See
 docs/configuration.txt for details.
@@ -125,6 +129,7 @@ and permissions to allow the web server account to write into it.  The
 directory is located in /usr/local/apache/htdocs/gbrowse/tmp by
 default.
 
+
 3. POPULATING THE DATABASE
 
 Synopsis:

Makefile.PL

@@ -115,15 +115,19 @@ htdocs_install ::
 	\@dir=$OPTIONS{HTDOCS}/gbrowse; \\
 	mkdir -p \$\$dir; \\
 	cd $Bin/htdocs; \\
-	for i in *; do \\
+	for i in *.css; do \\
 		if [ -e "\$\$dir/\$\$i" ]; then \\
 			echo "   Found \$\$i in \$\$dir. Skipping..."; \\
 		else \\
-			cp -pr \$\$i \$\$dir; \\
+			cp \$\$i \$\$dir; \\
 		fi \\
 	done; \\
+	cd $Bin/htdocs/images; \\
+	for i in *; do \\
+		cp -pr \$\$i \$\$dir; \\
+	done; \\
 	echo "Making \$\$dir/tmp..."; \\
-	mkdir \$\$dir/tmp; \\
+	mkdir -p \$\$dir/tmp; \\
 	echo "Making \$\$dir/tmp world writable..."; \\
 	chmod ugo+rwx \$\$dir/tmp
 

README

@@ -1,6 +1,6 @@
-The Generic Genome Browser (GGB) is a simple but highly configurable
-web-based genome browser.  It is a component of the Generic Model
-Organism Systems Database project (GMOD).
+The Generic Genome Browser (GBrowse) is a simple but highly
+configurable web-based genome browser.  It is a component of the
+Generic Model Organism Systems Database project (GMOD).
 
  - For a demo, go to http://www.gmod.org/ggb.
 
@@ -18,4 +18,4 @@ www.gmod.org.
 
 Lincoln Stein & the GMOD team
 lstein@cshl.org
-January 19, 2001
+February 18, 2002

lib/Bio/Graphics/Browser.pm

@@ -1,5 +1,5 @@
 package Bio::Graphics::Browser;
-# $Id: Browser.pm,v 1.4 2002-02-18 22:47:34 lstein Exp $
+# $Id: Browser.pm,v 1.5 2002-02-19 04:18:15 lstein Exp $
 
 use strict;
 use File::Basename 'basename';
@@ -162,10 +162,10 @@ sub image_and_map {
       next;
     }
 
-    # if the label is the magic "DNA/GC Content" flag, then add the segment using the
+    # if the label is the magic "dna" or "protein" flag, then add the segment using the
     # "sequence" glyph
     my $g = $conf->glyph($label);
-    if (defined $g && $g eq 'sequence') {
+    if (defined $g && ($g eq 'protein' || $g eq 'dna')) {
       $panel->add_track($segment,
 			$conf->style($label)
 			);