[ensembl-dev] Condel Plugin not working for VEP 71

Guillermo Marco Puche guillermo.marco at sistemasgenomicos.com
Wed Apr 17 15:55:28 BST 2013


On 04/17/13 14:52, Will McLaren wrote:
> Hi Guillermo,
>
> I'd guess you haven't got your configuration set up properly.
>
> If you have your plugins in the default directory (which it looks like
> you do), you need to edit the file:
>
> $HOME/.vep/Plugins/config/Condel/config/condel_SP.conf
>
> so that the condel.dir parameter points to the Condel config
> directory, I'm guessing in your case something like:
>
> condel.dir='/home/likewise-open/SGNET/gmarco/.vep/Plugins/config/Condel/'
I had added last config folder to absolute path in config.
Now it seems VEP is running even if i'm still getting this message:

2013-04-17 16:17:08 - Read existing cache info

2013-04-17 16:17:08 - Warning: plugin Condel,/home/likewise-open/SGNET/gmarco/.vep/Plugins/config/Condel/config,b version (2.4) does not match the current VEP version (71)

2013-04-17 16:17:08 - You may experience unexpected behaviour with this plugin

2013-04-17 16:17:08 - Loaded plugin: Condel

2013-04-17 16:17:10 - INFO: Database will be accessed when using --hgvs

2013-04-17 16:17:10 - Starting...

But Condel value is being calculated :)

Thank you.

Best regards,
Guillermo.
>
> Regards
>
> Will
>
> On 17 April 2013 11:30, Guillermo Marco Puche
> <guillermo.marco at sistemasgenomicos.com> wrote:
>> Hello,
>>
>> I'm trying to use the latest Condel Plugin obtained from GIT repository. I'm
>> struggling with the following error message.
>>
>> 2013-04-17 12:24:19 - Read existing cache inforeadline() on closed
>> filehandle SIFT at /home/likewise-open/SGNET/gmarco/.vep/Plugins/Condel.pm
>> line 136.
>>
>> readline() on closed filehandle POLYPHEN at
>> /home/likewise-open/SGNET/gmarco/.vep/Plugins/Condel.pm line 147.
>>
>> 2013-04-17 12:24:20 - Warning: plugin
>> Condel,/home/likewise-open/SGNET/gmarco/.vep/Plugins/config/Condel/config,b
>> version (2.4) does not match the current VEP version (71)
>>
>>
>> Thank you.
>>
>> Best regards,
>> Guillermo.
>>
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