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Re: error to reinstall GBrowse v2

by Biliards :: Rate this Message:

I commented line
LoadModule perl_module /usr/lib/apache2/modules/mod_perl.so

in /etc/apache2/mods-available/perl.load

and I obtain only normal error about page not found when I request
http://gbrowse.cribi.unipd.it/mpublic/gbrowse/vitis_vinifera_8x/

other apache errors log about fpublic are egual.

I have got two directory about perl:

/usr/local/lib/perl/5.10.0/
and /usr/local/share/perl/5.10.0/
but I checked these directories and there are not file in each
directories: there are not file double.

>-------------------------------------------<
others apache error log
>-------------------------------------------<

I'm testing gbrowse mysql databases that they works with gbrowse v1.69
(db_adaptor=Bio::DB::GFF), as
http://gbrowse.cribi.unipd.it/public/gbrowse/vitis_vinifera_8x/

and if I click one track for gbrowse_details page, I obtain page with
this warning:
"Requested feature not found in database."

instead, when I test others databases with
db_adaptor=Bio::DB::SeqFeature::Store (there are private, with pw, but
if it is important I could create example gbrowse for you) this I
obtain apache error log:

"my" variable $name masks earlier declaration in same scope at (eval
107) line 3.
"my" variable $name masks earlier declaration in same scope at (eval
112) line 3.

Alessandra.

On Thu, Jun 4, 2009 at 4:40 PM, <zph@...> wrote:

>
> What happens if mod_perl is turned off?
>
> Are there more than one version of Perl on the server? And
> which perl is used by GBrowse?
>
>
>
> On Wed, 3 Jun 2009, Alessandra wrote:
>
> I don't understand because if I run command line:
> perl -MCPAN -e 'install Apache2::ServerUtil'
>
> CPAN: Storable loaded ok (v2.18)
> Going to read /root/.cpan/Metadata
> Database was generated on Wed, 03 Jun 2009 01:29:51 GMT
> CPAN: YAML loaded ok (v0.66)
> Going to read /root/.cpan/build/
> ............................................................................DONE
> Found 1 old build, restored the state of 1
> Apache2::ServerUtil is up to date (2.000004).
>
> and idem about I run:
> locate Apache2/ServerUtil
>
> /usr/lib/perl5/Apache2/ServerUtil.pm
>
> Ale.
>
> On Wed, Jun 3, 2009 at 5:49 PM, <zph@...> wrote:
>> On Wed, 3 Jun 2009, Alessandra wrote:
>> [snip]
>> [Wed Jun 03 15:41:26 2009] [error] [client 192.168.20.79] failed to
>> resolve handler `ModPerl::Registry': Can't locate loadable object for
>> module Apache2::ServerUtil in @INC (@INC contains: /etc/perl
>> [snip]
>>
>> This means the perl module Apache2::ServerUtil isn't installed
>> on your server or cannot be found at run time.
>>
>> Regards,
>>
>> Zong-Pei
> [snip]
>
>

--
Alessandra Bilardi, Ph. D.
----
CRIBI, University of Padova, Italy
Via Ugo Bassi, 58/B - 35121 Padova
Tel +390498276165 Fax +390498276159
http://www.linkedin.com/in/bilardi
----
La semplicità è la più alta forma di perfezione (Leonardo Da Vinci)
Keep simple, stupid (KISS, IT)
----

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« Return to Thread: error to reinstall GBrowse v2