BreseqDevelopment < Lab

<noautolink>
---+ Breseq Developer Notes

In addition to the normal prerequisites for *breseq*, you will also need updated versions of these tools to work on *breseq* development. On Mac OS X, these can be installed using [[http://www.macports.org/][MacPorts]].

   * [[http://mercurial.selenic.com/][Mercurial]]
   * [[http://www.gnu.org/software/automake/][automake]]
   * [[http://www.gnu.org/software/autoconf/][autoconf]]
   * [[http://www.gnu.org/software/libtool/][libtool]]

To get started, first clone the *breseq* code repository.

<code><div style="border-color: grey; border-style: solid; border-width: 1px; padding:1px;">
&nbsp;&gt;hg clone http://barricklab.org/hg<br>
</div></code>

Then change into the breseq directory and run the bootstrap script. 

<code><div style="border-color: grey; border-style: solid; border-width: 1px; padding:1px;">
&nbsp;&gt;./bootstrap<br>
</div></code>

This generates the usual configure script, so now you can:

<code><div style="border-color: grey; border-style: solid; border-width: 1px; padding:1px;">
&nbsp;&gt;./configure<br>
&nbsp;&gt;make<br>
&nbsp;&gt;make install<br>
</div></code>

In order to <code>make dist</code> you will also need to install:
   * [[http://sphinx.pocoo.org/][Sphinx]]

Again, this can be done using [[http://www.macports.org/][MacPorts]] on Mac OS X.

Barrick Lab > SoftwareList > ToolsBacterialGenomeResequencing > BreseqDevelopment

Topic revision: r2 - 2011-01-30 - 01:44:54 - Main.JeffreyBarrick