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Re: How to Downgrade GBrowse

by Ajendrex :: Rate this Message:

Hello lincoln,

During GBrowse installation a big number of messages appear to the screen, I supose many of them were error, as usual in Perl :S

However, now, in the apache log files (error_log and acces_log) there is not one line about anything regarding GBrowse... Oh!, wait a moment... I did a resize of the image to 1024 (width) and I have the following message, I think it is for you...

[error_log apache]
[Sun Jun 07 07:36:10 2009] [notice] Apache/2.2.11 (Ubuntu) PHP/5.2.6-3ubuntu4.1 with Suhosin-Patch mod_perl/2.0.4 Perl/v5.10.0 configured -- resuming normal operations
[Mon Jun 08 12:45:15 2009] [error] [client 127.0.0.1] BUG: working around no ref defined bug; tell Lincoln bug is not fixed at /usr/local/lib/perl/5.10.0/Bio/Graphics/Browser/Render.pm line 2396., referer: http://localhost/cgi-bin/gb2/gbrowse/yeast_advanced/?name=Sequence:YBR037C;dbid=
[Mon Jun 08 12:45:16 2009] [error] [client 127.0.0.1] Use of uninitialized value in concatenation (.) or string at /usr/local/lib/perl/5.10.0/Bio/Graphics/Browser/Render.pm line 2405., referer: http://localhost/cgi-bin/gb2/gbrowse/yeast_advanced/?name=Sequence:YBR037C;dbid=
[Mon Jun 08 12:45:17 2009] [error] [client 127.0.0.1] Illegal division by zero at /usr/local/lib/perl/5.10.0/Bio/Graphics/Panel.pm line 237., referer: http://localhost/cgi-bin/gb2/gbrowse/yeast_advanced/?name=Sequence:YBR037C;dbid=
[Mon Jun 08 12:45:17 2009] [error] [client 127.0.0.1] Premature end of script headers: gbrowse, referer: http://localhost/cgi-bin/gb2/gbrowse/yeast_advanced/?name=Sequence:YBR037C;dbid=

Lincoln Stein-3 wrote:

Hi,

The example yeast installation did not work at all? Did you see any error
messages during installation?

lincoln

On Mon, Jun 8, 2009 at 2:57 PM, Ajendrex <ajendrex@gmail.com> wrote:

>
> Hello,
>
> Is there any way to safely downgrade GBrowse? I have GBrowse installed,
> version 1.993, but it is not working well (not showing "overview"
> neither "Details", plus errors like "The landmark named
> chrI:80,000..120,000 is not recognized. See the help pages for
> suggestions" just after installation), so I want to perform a GBrowse
> downgrade (to version 1.69, the one I understand is more stable). Could
> anyone tell me how to do this?
>
> Basically, I want to know how to UNINSTALL GBrowse :) which I installed
> with CPAN (as far as I know, cpan does not have an "uninstall"
> instruction).
>
> Thanks!
> --
> View this message in context:
> http://www.nabble.com/How-to-Downgrade-GBrowse-tp23930030p23930030.html
> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>
>
>
> ------------------------------------------------------------------------------
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>

--
Lincoln D. Stein
Director, Informatics and Biocomputing Platform
Ontario Institute for Cancer Research
101 College St., Suite 800
Toronto, ON, Canada M5G0A3
416 673-8514
Assistant: Renata Musa <Renata.Musa@oicr.on.ca>

------------------------------------------------------------------------------
Crystal Reports - New Free Runtime and 30 Day Trial
Check out the new simplified licensing option that enables unlimited
royalty-free distribution of the report engine for externally facing
server and web deployment.
http://p.sf.net/sfu/businessobjects
_______________________________________________
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