Tracks wont render and search does not work Gbrowse 2.0

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Tracks wont render and search does not work Gbrowse 2.0

Scooter Willis-2
Tracks wont render and search does not work Gbrowse 2.0
I really need some guidance as I have tried everything to figure out why my gbrowse2 setup stop working for my config. The pre-installed configs work as expected.

I created a new conf with just the basics and only the fasta data and it appears I get the same error which appears to be related to my problem of not rendering the tracks. The fasta file is unchanged and was working before I started updating gff3 files with more data.

I am getting the following error message “Use of initialized valie in concatenation” but I have no clue how to track down what is causing it.



Mon Jun 21 11:29:15 2010] [error] [client 10.10.250.4] File does not exist: /var/www/favicon.ico
[1950] RUN(): POST: http://dyadic-c1-server/gb2/gbrowse/yeast/ source=c1 at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 180.
[1951] RUN(): GET: http://dyadic-c1-server/gb2/gbrowse/c1/ source=c1 at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 180.
[1951] add_user_tracks() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 187.
[1951] testing for asynchronous event() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 198.
[1951] init() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 205.
[1951] update_state() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 208.
[1951] render() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 215.
[1951] cleanup at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 219.
[1951] session flush at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 223.
[1951] synchronous exit at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 225.
[Mon Jun 21 11:29:38 2010] [error] [client 10.10.250.4] File does not exist: /var/www/favicon.ico
[1953] RUN(): POST: http://dyadic-c1-server/gb2/gbrowse/c1/ prefix=1_;action=autocomplete;_= at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 180.
[1953] add_user_tracks() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 187.
[1953] testing for asynchronous event() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 198.
[1953] asynchronous exit at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 200.
[1955] RUN(): POST: http://dyadic-c1-server/gb2/gbrowse/c1/ force_submit=0;plugin_find=0;name=1_g;Search=Search at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 180.
[1955] add_user_tracks() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 187.
[1955] testing for asynchronous event() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 198.
[1955] init() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 205.
[1955] update_state() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 208.
[1955] render() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 215.
Use of uninitialized value in concatenation (.) or string at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 708.
[1955] cleanup at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 219.
[1955] session flush at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 223.
[1955] synchronous exit at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 225.
[1954] RUN(): POST: http://dyadic-c1-server/gb2/gbrowse/c1/ prefix=1_g;action=autocomplete;_= at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 180.
[1954] add_user_tracks() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 187.
[1954] testing for asynchronous event() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 198.
[Mon Jun 21 11:30:14 2010] [error] [client 10.10.250.4] File does not exist: /var/www/favicon.ico
[1954] asynchronous exit at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 200.
[1957] RUN(): POST: http://dyadic-c1-server/gb2/gbrowse/c1/ action=add_tracks;track_names=GeneMarkPredictions;_= at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 180.
[1957] add_user_tracks() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 187.
[1957] testing for asynchronous event() at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 198.
[1957] asynchronous exit at /usr/local/lib/perl/5.10.1/Bio/Graphics/Browser2/Render.pm line 200.
 


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