Hi Leandro and Syed,
Thanks a lot for the quick replies. My perl version is 5.8.8. I have
also attached the registryURLPointer file.
The --clean option did the trick. Got this message in the end
"Compiling templates for visible datasets".
Thanks a lot again.
Could you kindly help me with the next step.
In order to start and stop the mart view, the help document says I have to type
/my/chosen/Apache/binary -d $PWD -f $PWD/conf/httpd.conf
So I try and type
/local/biomart/apache/bin -d $pwd -f $pwd/conf/httpd.conf
And I get an error message. I know I am doing something wrong here.
Could you tell me how to correct the mistake and start the mart view
correctly?
Thanks and Regards,
Sri Krishna
On Wed, Dec 15, 2010 at 12:53 AM, Syed Haider <[email protected]> wrote:
> Hi Sri,
>
> have you tried --clean option while you do perl bin/configure ?
>
>
> Syed
>
> On 14/12/2010 15:32, Sri Krishna Suresh Kumar wrote:
>>
>> Hello,
>>
>> I have been trying to install Biomart in my work system.
>>
>> I was able to install pre-requisites for biomart-perl using CPAN and
>> also completed the installation of Apache (2.2.17) and
>> mod-perl(2.0.4).
>>
>> I have also installed the Biomart-perl api (step 1.4.3.1) and I
>> recieved the message "Looks good... You are done".
>>
>> After this step, when I try to configure the MartView, after chaging
>> the setting.conf file and executing the command perl "bin/configure.pl
>> -r conf/registryURLPointer.xml" with the answer n to the subsequent
>> question, I did not get the message "Compiling templates for visible
>> datasets". Instead It stops prematurely with out any major error
>> outputs. However I see a warning message of use of uninitialised
>> variable in a CPAN module. I am attaching the file with the command
>> issued and the subsequent output received.
>>
>> Could you let me know if I am doing anything wrong? Or if this is normal?
>>
>> Thanks and Regards,
>> Sri Krishna Suresh Kumar
>
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE MartRegistry>
<MartRegistry>
<RegistryURLPointer
name = "central_server"
host = "www.biomart.org"
port = "80"
path = ""
includeMarts = "msd,uniprot"
/>
</MartRegistry>
