[Bioperl-l] After Checkout of Bioperl-live version doesn't seem tochange

[Mark A. Jensen]

You probably want to change the file
/etc/profile
(no .) --MAJ
----- Original Message ----- 
From: "Lacey Sanderson" <laceyanne_sanderson at shaw.ca>
To: "Mark A. Jensen" <maj at fortinbras.us>
Cc: <bioperl-l at lists.open-bio.org>
Sent: Wednesday, February 03, 2010 2:38 PM
Subject: Re: [Bioperl-l] After Checkout of Bioperl-live version doesn't seem 
tochange


> Okay,
>> directly from the command line (don't relogin)
>>
>> $ export PERL5LIB=/usr/local/share/applications/Bioperl/bioperl-live: 
>> $PERL5LIB
>> $ perl -MBio::Perl -e 'print Bio::Perl->VERSION'
> That gives me the correct version... For that user until I log out...
>
> I sudoed in to .profile and added the line directly but that doesn't  seem to 
> have helped.
>
> How would I tell perl to look in the same place for Bioperl for ALL  users?
>
> Lacey
>
> On 3-Feb-10, at 12:34 PM, Mark A. Jensen wrote:
>
>> Well, that's progress. It hard to debug these things remotely, but now
>> you can at least work around the problem by using the -I flag. The  next
>> weak link I would try to eliminate is the append to the .profile  file. Just
>> do directly from the command line (don't relogin)
>>
>> $ export PERL5LIB=/usr/local/share/applications/Bioperl/bioperl-live: 
>> $PERL5LIB
>> $ perl -MBio::Perl -e 'print Bio::Perl->VERSION'
>>
>> If this gives 1.0069, then the problem is in that append (and, you  can also 
>> do your work!).
>> (If you're a sudoer, I'd just edit that file directly.)
>>
>> cheers MAJ
>> ----- Original Message ----- From: "Lacey Sanderson" 
>> <laceyanne_sanderson at shaw.ca
>> >
>> To: "Mark A. Jensen" <maj at fortinbras.us>
>> Cc: <bioperl-l at lists.open-bio.org>
>> Sent: Wednesday, February 03, 2010 1:21 PM
>> Subject: Re: [Bioperl-l] After Checkout of Bioperl-live version  doesn't seem 
>> tochange
>>
>>
>>> That gives me the 1.069 that I was wanting so the problem seems to  be  that 
>>> perl is finding the wrong installation by default...
>>>
>>> Lacey
>>>
>>> On 3-Feb-10, at 12:14 PM, Mark A. Jensen wrote:
>>>
>>>> perl -MBio::Perl -I/usr/local/share/applications/Bioperl/bioperl-  live -le 
>>>> 'print Bio::Perl->VERSION;'
>>>
>>>
>>
>
> ---------------------------------
> Lacey Sanderson
> Bioinformaticist
> Pulse Crop Breeding and Genetics
> Department of Plant Sciences
> University of Saskatchewan.
>
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