cjfields at illinois.edu
Tue Feb 7 16:02:50 EST 2012
I guess one key question is where these CPAN installation instructions
come from. They're a bit odd, and if this is from the wiki we need to
do some updating.
Re: local::lib, the docs on CPAN are pretty nice if one wants to use a
single perl version.
In my case I use perlbrew (which is all local by default, and allows
switching between perl versions). Highly recommend using either simple
local::lib or perlbrew in combination with cpanm.
On 02/07/2012 02:55 PM, Scott Cain wrote:
> hi Cassandra,
> I don't have an answer for you at the moment. It seems to me that
> using local::lib is a good idea, but I've never found a good tutorial
> for using it, so I haven't. Perhaps someone else on the list can
> suggest one.
> The other thing I just wanted to mention as the admin that approved
> your message--I came very close to deleting it from the queue without
> looking at it because it is not unusual for spam messages to have
> generic subjects like "help!" (just for future reference :-)
> On Tue, Feb 7, 2012 at 11:11 AM, Casandra<kasandrah at gmail.com> wrote:
>> I'm trying to install Bioperl but I'm a bit lost. I know I have perl
>> installed becaused I have already write some scripts but I'm biologist so...
>> not pretty sure about what messages say.
>> My perl version:
>> This is perl, v5.8.8 built for darwin-thread-multi-2level
>> My computer:
>> Mac OS X Vesion 10.5.8
>> I was following this preliminary steps:
>> PRELIMINARY PREPARATION
>> This is optional, but regardless of your subsequent choice of
>> installation method, it will help to carry out the following steps.
>> They will increase the likelyhood of installation success
>> (especially of optional dependencies).
>> * Upgrade CPAN:
>> >perl -MCPAN -e shell
>> cpan>install Bundle::CPAN
>> * Install/upgrade Module::Build, and make it your preferred
>> cpan>install Module::Build
>> cpan>o conf prefer_installer MB
>> cpan>o conf commit
>> * Install the expat library by whatever method is
>> appropriate for your system.
>> * If your expat library is installed in a non-standard location,
>> tell CPAN about it:
>> cpan>o conf makepl_arg "EXPATLIBPATH=/non-standard/lib
>> cpan>o conf commit
>> And I think I did "Upgrade CPAN properly" but when I tried the next one it
>> started asking too many things to me, and finally it stopped due to "some
>> problems". In text file you can see the whole process.
>> What did I do wrong?
>> After solving these preliminary steps, what should I do? What exactly .tar
>> or .whatever should I download to install?
>> I don't see the difference between installing it through "built.PL" or
>> CPAN. And I don't know if I should do this or that "Fink*" stuff for MAC.
>> * I went to Fink webpage and what I expected to see was "hello! download
>> Bioperl simply clicking here!" but far from this, what it seems is that
>> first I have to download some kinf of Fink-program before starting with
>> Bioperl... is it something close to this?
>> I'm sorry, too many questions... But I really want to learn to use Bioperl
>> but I have no people to ask it face to face.
>> Thank you so much,
>> Bioperl-l mailing list
>> Bioperl-l at lists.open-bio.org
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