[Bioperl-l] Extreme newbie question.

Chris Fields cjfields at illinois.edu
Thu Jun 25 16:07:44 EDT 2009


That would mean, within the cpan shell, type 'o conf init  
urllist' (again, requires sudo).

chris

On Jun 25, 2009, at 1:59 PM, Adlai Burman wrote:

> Hey again, I'm right into trying to install again and I now get a  
> new error:
>
> Client not fully configured, please proceed with configuring.
> o conf init urllist
>
> any ideas?
>
> Adlai
>
> On Jun 25, 2009, at 5:21 PM, Kevin Brown wrote:
>
>> http://www.bioperl.org/wiki/Installing_Bioperl_for_Unix
>>
>> Or http://www.bioperl.org/wiki/Getting_BioPerl#Mac_OS_X_using_fink
>>
>> That error suggests that the install fails and you need to figure out
>> why from the install error messages. I suspect you aren't doing the
>> install as root, but as a normal user who lacks the needed  
>> permissions
>> to change files in certain directories.
>>
>>> -----Original Message-----
>>> From: bioperl-l-bounces at lists.open-bio.org
>>> [mailto:bioperl-l-bounces at lists.open-bio.org] On Behalf Of
>>> Adlai Burman
>>> Sent: Wednesday, June 24, 2009 7:09 PM
>>> To: bioperl-l at lists.open-bio.org
>>> Subject: [Bioperl-l] Extreme newbie question.
>>>
>>> I have been trying to install BioPerl for a while now and after
>>> pummeling my hard drive (Mac OS 10.5 intel) with several attempts at
>>> Fink installation, a >cpan installation and removing my .cpan
>>> folder I
>>> am still at square 0. I do not want to do anymore damage to my
>>> computer, yet I really need a working install (especially to
>>> interface
>>> with remote DBs like GenBank. Can anyone give me some advice here?
>>> After each attempt, I have tried to run perldoc bptutorial.pl and
>>> tried test scripts with "use Bio::Perl" in the headers and I just
>>> receive  error mesages like the following:
>>>
>>> Can't locate Bio/Perl.pm in @INC (@INC contains: /home/users/dag/ 
>>> lib/
>>> perl5/ /Library/Perl/Updates/5.8.8/darwin-thread-multi-2level
>>> /Library/
>>> Perl/Updates/5.8.8 /System/Library/Perl/5.8.8/darwin-thread-
>>> multi-2level /System/Library/Perl/5.8.8 /Library/Perl/5.8.8/darwin-
>>> thread-multi-2level /Library/Perl/5.8.8 /Library/Perl
>>> /Network/Library/
>>> Perl/5.8.8/darwin-thread-multi-2level /Network/Library/Perl/5.8.8 /
>>> Network/Library/Perl /System/Library/Perl/Extras/5.8.8/darwin- 
>>> thread-
>>> multi-2level /System/Library/Perl/Extras/5.8.8 /Library/Perl/5.8.6 /
>>> Library/Perl/5.8.1 .) at trsh.pl line 1.
>>>
>>> I have been working from the OReilly book astering Perl for
>>> Bioinformatics and the INSTALL file and have scoured around the
>>> BioPerl website and am still stuck.
>>>
>>> Thanks in advance,
>>>
>>> Adlai
>>> _______________________________________________
>>> Bioperl-l mailing list
>>> Bioperl-l at lists.open-bio.org
>>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>>>
>>
>
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