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The Stacks Pipeline
-------------------
0. Prerequisites
Stacks should build on any standard UNIX-like environment (Apple OS X, Linux,
etc.) Stacks is an independent pipeline and can be run without any additional
external software.
If compiling with the standard GCC compiler, Stacks needs a version of the compiler
newer than GCC 4.9.0.
1. Build the software. Stacks uses the standard autotools install:
% tar xfvz stacks-x.xx.tar.gz
% cd stacks-x.xx
% ./configure
You can change the root of the install location (/usr/local/ on most
operating systems) by specifying the --prefix command line option to
the configure script.
% ./configure --prefix=/home/smith/local
You can enable Sparsehash by adding the following options:
% ./configure --enable-sparsehash
% make
You can speed up the build if you have more than one processor:
% make -j 8
3. Install the software.
% sudo make install
A default Stacks install will install files in the following way:
/usr/local/bin - stacks executables and perl scripts
The pipeline is now ready to run.
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