[Bioperl-l] Newbie question installing on MacOSX
Adam Witney
awitney at sgul.ac.uk
Thu Jul 29 15:06:01 UTC 2010
Hi James,
You are mixing up your installation methods. Either install with fink, or download the source and install from there, not both.
I would personally recommend installing it from source or better still install from cpan. Take a look here:
http://www.bioperl.org/wiki/Installing_Bioperl_for_Unix#INSTALLING_BIOPERL_THE_EASY_WAY_USING_Build.PL
http://www.bioperl.org/wiki/Installing_Bioperl_for_Unix#INSTALLING_BIOPERL_THE_EASY_WAY_USING_CPAN
If you really want to use fink then take a look here:
http://www.bioperl.org/wiki/Getting_BioPerl#Mac_OS_X_using_fink
It looks like the command for this is:
fink install bioperl-pm588
but I don't use fink any more so I am not certain of how that works.
adam
On 29 Jul 2010, at 15:18, James wrote:
> Sorry for the newbie question.
>
> I am having trouble installing Bioperl.
>
> I'm on MacOSX 10.5.8.
>
> I downloaded and installed fink:
>
> $ fink --version
> Package manager version: 0.27.13
> Distribution version: 0.9.0 i386
>
> I then downloaded Bioperl-1.6.1, I'm trying to install it from source,
> as explained (http://www.bioperl.org/wiki/Getting_BioPerl). I have
> Xcode installed etc.
>
> '# fink install bioperl-pmXXX'
>
> I try this:
>
> BioPerl-1.6.1 James$ fink install BioPerl-pm
>
> Information about 2521 packages read in 1 seconds.
> Failed: no package found for specification 'BioPerl-pm'!
>
>
> The version of perl I'm running is 5.8.8, I have tried 'fink install
> BioPerl588' but this doesn't work either.
>
> Thanks very much,
>
> James
>
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