Gbrowse help.

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Gbrowse help.

aum1816
Dear all
I trying the Gbrowse tutorial and I follow all the instructions but when
I try to go at:
http://localhost/cgi-bin/gb2/gbrowse/volvox
I receive the following message

Internal Server Error
The server encountered an internal error or misconfiguration and was
unable to complete your request.

Please contact the server administrator, webmaster@localhost and inform
them of the time the error occurred, and anything you might have done
that may have caused the error.

More information about this error may be available in the server error
log.


________________________________________________________________________
Apache/2.2.14 (Ubuntu) Server at localhost Port 80

I check the error file and I see the next message:

[Mon Jun 23 10:15:49 2014] [error] [client ::1] File does not
exist: /var/www/favicon.ico
[Mon Jun 23 10:15:49 2014] [error] [client ::1] File does not
exist: /var/www/favicon.ico
[Mon Jun 23 10:22:58 2014] [notice] SIGUSR1 received.  Doing graceful
restart
apache2: Could not reliably determine the server's fully qualified
domain name, using 127.0.1.1 for ServerName
[Mon Jun 23 10:22:59 2014] [notice] Apache/2.2.14 (Ubuntu)
mod_fcgid/2.3.4 mod_perl/2.0.4 Perl/v5.10.1 configured -- resuming
normal operations
[Mon Jun 23 11:33:54 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8., referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:33:54 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.,
referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:33:54 2014] [error] [client ::1] Premature end of script
headers: gbrowse, referer:
http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:38:04 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8., referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:38:04 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.,
referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:38:04 2014] [error] [client ::1] Premature end of script
headers: gbrowse, referer:
http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:40:08 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8., referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:40:08 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.,
referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:40:08 2014] [error] [client ::1] Premature end of script
headers: gbrowse, referer:
http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:42:31 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8., referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:42:31 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.,
referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:42:31 2014] [error] [client ::1] Premature end of script
headers: gbrowse, referer:
http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:42:38 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8.
[Mon Jun 23 11:42:38 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.
[Mon Jun 23 11:42:38 2014] [error] [client ::1] Premature end of script
headers: gbrowse
[Mon Jun 23 11:42:47 2014] [error] [client ::1] attempt to invoke
directory as script: /usr/lib/cgi-bin/gb2/
[Mon Jun 23 11:42:59 2014] [error] [client ::1] attempt to invoke
directory as script: /usr/lib/cgi-bin/

Thanks in advance for your help.




------------------------------------------------------------------------------
Open source business process management suite built on Java and Eclipse
Turn processes into business applications with Bonita BPM Community Edition
Quickly connect people, data, and systems into organized workflows
Winner of BOSSIE, CODIE, OW2 and Gartner awards
http://p.sf.net/sfu/Bonitasoft
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Re: Gbrowse help.

Scott Cain
Hello,

Please look in the apache error log for messages that might indicate what the problem is. The location of the log varies by operating system, but frequently is at /var/log/apache2. 

Scott


Sent from my iPad

On Jun 23, 2014, at 1:34 PM, aum1816 <[hidden email]> wrote:

Dear all
I trying the Gbrowse tutorial and I follow all the instructions but when
I try to go at:
http://localhost/cgi-bin/gb2/gbrowse/volvox
I receive the following message

Internal Server Error
The server encountered an internal error or misconfiguration and was
unable to complete your request.

Please contact the server administrator, webmaster@localhost and inform
them of the time the error occurred, and anything you might have done
that may have caused the error.

More information about this error may be available in the server error
log.


________________________________________________________________________
Apache/2.2.14 (Ubuntu) Server at localhost Port 80

I check the error file and I see the next message:

[Mon Jun 23 10:15:49 2014] [error] [client ::1] File does not
exist: /var/www/favicon.ico
[Mon Jun 23 10:15:49 2014] [error] [client ::1] File does not
exist: /var/www/favicon.ico
[Mon Jun 23 10:22:58 2014] [notice] SIGUSR1 received.  Doing graceful
restart
apache2: Could not reliably determine the server's fully qualified
domain name, using 127.0.1.1 for ServerName
[Mon Jun 23 10:22:59 2014] [notice] Apache/2.2.14 (Ubuntu)
mod_fcgid/2.3.4 mod_perl/2.0.4 Perl/v5.10.1 configured -- resuming
normal operations
[Mon Jun 23 11:33:54 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8., referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:33:54 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.,
referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:33:54 2014] [error] [client ::1] Premature end of script
headers: gbrowse, referer:
http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:38:04 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8., referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:38:04 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.,
referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:38:04 2014] [error] [client ::1] Premature end of script
headers: gbrowse, referer:
http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:40:08 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8., referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:40:08 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.,
referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:40:08 2014] [error] [client ::1] Premature end of script
headers: gbrowse, referer:
http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:42:31 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8., referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:42:31 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.,
referer: http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:42:31 2014] [error] [client ::1] Premature end of script
headers: gbrowse, referer:
http://localhost/gbrowse2/tutorial/tutorial.html
[Mon Jun 23 11:42:38 2014] [error] [client ::1] Can't locate
Bio/Graphics/Browser2.pm in @INC (@INC contains:
lib /etc/perl /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl .) at /usr/lib/cgi-bin/gb2/gbrowse line 8.
[Mon Jun 23 11:42:38 2014] [error] [client ::1] BEGIN
failed--compilation aborted at /usr/lib/cgi-bin/gb2/gbrowse line 8.
[Mon Jun 23 11:42:38 2014] [error] [client ::1] Premature end of script
headers: gbrowse
[Mon Jun 23 11:42:47 2014] [error] [client ::1] attempt to invoke
directory as script: /usr/lib/cgi-bin/gb2/
[Mon Jun 23 11:42:59 2014] [error] [client ::1] attempt to invoke
directory as script: /usr/lib/cgi-bin/

Thanks in advance for your help.



------------------------------------------------------------------------------
Open source business process management suite built on Java and Eclipse
Turn processes into business applications with Bonita BPM Community Edition
Quickly connect people, data, and systems into organized workflows
Winner of BOSSIE, CODIE, OW2 and Gartner awards
http://p.sf.net/sfu/Bonitasoft
_______________________________________________
Gmod-gbrowse mailing list
[hidden email]
https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse

------------------------------------------------------------------------------
Open source business process management suite built on Java and Eclipse
Turn processes into business applications with Bonita BPM Community Edition
Quickly connect people, data, and systems into organized workflows
Winner of BOSSIE, CODIE, OW2 and Gartner awards
http://p.sf.net/sfu/Bonitasoft
_______________________________________________
Gmod-gbrowse mailing list
[hidden email]
https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse