On 19/02/09 1:01 PM, "[email protected]"
<[email protected]> wrote:
>
> Hi,
>
> I have configured my own dataset, I filled the diffreent registry file in the
> directory conf on biomart-perl folder.
> When I lauch the command perl bin/configure.pl conf/registryURLPointer.xml, I
> get this error.
Hi Berenice,
How does your registry file look like?
A.
>
> Checking prerequisites ...[Looks good]
>
> APACHE: /usr/sbin/apache2
> HOST: localhost
> PORT: 80
> PROXY:
> LOCATION: biomart
> APXS/2:
>
> You can change the above configuration by editing
> "biomart-perl/conf/settings.conf"
>
>
>
> Got usable Apache in /usr/sbin/apache2, probing for version & ModPerl
> configuration
> Have Apache DSO-support and ModPerl library file present, configuring ModPerl
> in httpd.conf.
> Libdir /home/cropdesign/biomart/biomart-perl/lib is not in @INC, adding to
> @INC
>
> Cached Registry Unavailable...
>
> Running Complete Clean...
>
>
> Problems with the web server: 500 Can't connect to localhost:80 (connect:
> Connection refused)
>
>
>
>
> ERROR something wrong with your registry: Problems with the retrieval of
> dataset configuration
> Please check:
> that your mart Registry files contains correct connection
> params,
> that you are using the correct version on XML::Simple,
> that BioMart databases contain a populated meta_conf tables and
> that you have set martUser correctly if you are running in
> restricted data
> access mode (populated meta_conf__user__dm)
>
>
>
> Trace begun at
> /home/cropdesign/biomart/biomart-perl/bin/../lib/BioMart/Initializer.pm line
> 254
> BioMart::Initializer::_init('BioMart::Initializer=HASH(0xa4a2c68)',
> 'registryFile',
> '/home/cropdesign/biomart/biomart-perl/conf/registryURLPointer.xml', 'action',
> 'cached', 'mode', 'memory') called at
> /home/cropdesign/biomart/biomart-perl/bin/../lib/BioMart/Initializer.pm line
> 377
> BioMart::Initializer::init_clean('BioMart::Initializer=HASH(0xa4a2c68)',
> 'registryFile',
> '/home/cropdesign/biomart/biomart-perl/conf/registryURLPointer.xml', 'action',
> 'cached', 'mode', 'memory') called at
> /home/cropdesign/biomart/biomart-perl/bin/../lib/BioMart/Initializer.pm line
> 328
> BioMart::Initializer::init_cached('BioMart::Initializer=HASH(0xa4a2c68)',
> 'registryFile',
> '/home/cropdesign/biomart/biomart-perl/conf/registryURLPointer.xml', 'action',
> 'cached', 'mode', 'memory') called at
> /home/cropdesign/biomart/biomart-perl/bin/../lib/BioMart/Initializer.pm line
> 168
> BioMart::Initializer::_new('BioMart::Initializer=HASH(0xa4a2c68)',
> 'registryFile',
> '/home/cropdesign/biomart/biomart-perl/conf/registryURLPointer.xml', 'action',
> 'cached', 'mode', 'memory') called at
> /home/cropdesign/biomart/biomart-perl/bin/../lib/BioMart/RootI.pm line 64
> BioMart::RootI::new('BioMart::Initializer', 'registryFile',
> '/home/cropdesign/biomart/biomart-perl/conf/registryURLPointer.xml', 'action',
> 'cached', 'mode', 'memory') called at
> /home/cropdesign/biomart/biomart-perl/bin/configureBioMart.pl line 330
> eval {...} at /home/cropdesign/biomart/biomart-perl/bin/configureBioMart.pl
> line 329
>
> Do you have an idea on what could be wrong, I have no errorlog created.
>
> Best regards,
>
> Bérénice
>
>
> Berenice Wulbrecht
>
> Phone: +32 9 242 9172, E-Mail: [email protected]
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>
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>
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