Installing BioPerl on Mac OSX

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Yes, you can install BioPerl on Mac OS X, using Fink.

For the generic instructions, see: Installing BioPerl on Unix.

Mac OS X using fink

Before installing BioPerl on Mac OS X, several other packages and perl modules need to be installed that are required by BioPerl. The fink package manager will make it easy to download and install all the required packages, modules and BioPerl itself. However not all optional prerequisites are available through fink, so some functionality may be not working. To learn more about installing and using fink read this and this.

BioPerl version 1.6.9 is available through fink. If you are going to install BioPerl from source, you'll first need install the developer tools from Apple. You can obtain these here. If you haven't already, you'll need to register to become an ADC member before you can download the tools. To download the tools (called Xcode), a free membership is sufficient.

To install BioPerl from source, issue the following command:

# fink install bioperl-pmXXX

Where XXX is the perl version that is installed on your system, eg 588 or 5100. Bioperl-Run is also available through fink:

# fink install bioperl-run-pmXXX

If you don't want to install from source, BioPerl version 1.5.1 is available for Mac OS X 10.5 and higher through the binary distribution of fink and can be installed using the following command:

# sudo apt-get install bioperl-pmXXX

Where XXX is the perl version that is installed on your system, eg 586 or 588.

Note (2013-20-06): Currently, there is no Fink binary package available for OSX 10.8 using the default versions of Perl that ships with OSX 10.8 (5.10 or 5.12). For OSX 10.8 users, follow instructions for a general UNIX installation.

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