viernes, 23 de marzo de 2012

The quest to install Biopieces

This is my own experience installing Biopieces on Ubuntu 10.04 Lucid Lynx LTS.

sudo apt-get install subversion
sudo perl -MCPAN -e 'install inline'
sudo perl -MCPAN -e 'install JSON::XS'
sudo apt-get install curl
bash -s stable < <(curl -s https://raw.github.com/wayneeseguin/rvm/master/binscripts/rvm-installer)
source ~/.rvm/scripts/rvm
rvm install 1.9.3
sudo gem install rubygems-update
cd /var/lib/gems/1.9.1/bin
sudo ./update_rybygems
sudo gem install gnuplot
sudo apt-get install ruby1.9.3-dev
sudo gem install narray
sudo gem install RubyInline
sudo bash biopieces_install....sh

Warnings: blastall, blat, bwa, bowtie, formatdb, gnuplot, idba, mummer, mysql, prodigal, ray, scan_for_matches, usearch, velveth, velvetg, vmatch

Does biopieces deserve its own Linux distribution?

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