[ensembl-dev] VEP feature request - different plugin and cache folder locations

[Duarte Molha]

Will I believe there is an error in your code line 525

1262:  unshift @INC, $config->{dir_plugins}."/Plugins";


If you have already defined the plugins location using the argument,  (for
example: "--dir_plugins /vep_plugins"), this line will make the script look
for the plugins in  /vep_plugins/Plugins

I am sure this is not the intended behavior

Best regards

Duarte



=========================
     Duarte Miguel Paulo Molha
         http://about.me/duarte
=========================


On Wed, May 15, 2013 at 1:15 PM, Duarte Molha <duartemolha at gmail.com> wrote:

> Thanks...
>
> It was right in front of my face but I wasn't able to see it :)
>
> However, please correct me if I am wrong... but the
>
> http://www.ensembl.org/info/docs/variation/vep/vep_script.html#top
>
> Version is the one in head right? So that one would not have the new
> arguments right?
>
> Thanks
>
> Duarte
>
>
> =========================
>      Duarte Miguel Paulo Molha
>          http://about.me/duarte
> =========================
>
>
> On Wed, May 15, 2013 at 1:12 PM, Will McLaren <wm2 at ebi.ac.uk> wrote:
>
>> You just need the script from the ensembl-tools module.
>>
>> You could just download from the web page too:
>>
>> http://www.ensembl.org/info/docs/variation/vep/vep_script.html#top
>>
>> Will
>>
>>
>> On 15 May 2013 12:56, Duarte Molha <duartemolha at gmail.com> wrote:
>>
>>> I am terrible sorry ... But I just downloaded you CSV repository. Where
>>> in the branch 71 can I checkout your code?
>>>
>>> Thanks
>>>
>>> Duarte
>>>
>>> =========================
>>>      Duarte Miguel Paulo Molha
>>>          http://about.me/duarte
>>> =========================
>>>
>>>
>>> On Wed, May 15, 2013 at 12:26 PM, Will McLaren <wm2 at ebi.ac.uk> wrote:
>>>
>>>> --dir_cache and --dir_plugins are now available on branch 71.
>>>>
>>>> Will
>>>>
>>>>
>>>> On 15 May 2013 12:13, LAW Andy <andy.law at roslin.ed.ac.uk> wrote:
>>>>
>>>>>
>>>>> On 15 May 2013, at 12:08, Duarte Molha <duartemolha at gmail.com> wrote:
>>>>>
>>>>> >
>>>>> > I would not call myself "normal" but I agree with Andy Law that
>>>>> users would appreciate the option :)
>>>>> >
>>>>>
>>>>> No-one that knows me thinks *I'm* normal, but when a discussion
>>>>> descends into suggesting esoteric manipulation of environment variables
>>>>> relating to Perl installations as an acceptable alternative to introducing
>>>>> simple and logical command-line arguments into a script, I think a bit of a
>>>>> reality check is perhaps in order.
>>>>>
>>>>>
>>>>> Later,
>>>>>
>>>>> Andy
>>>>> --------
>>>>> Yada, yada, yada...
>>>>>
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