Short Read Micro re-Aligner
#sync
git clone git://srma.git.sourceforge.net/gitroot/srma/srma srma
cd srma
cd c-code
#samtools must be present as a subfolder to compile srma.
svn co https://samtools.svn.sourceforge.net/svnroot/samtools/trunk/samtools samtools
cd samtools;make
cd ..
sh autogen.sh && ./configure && make
#if goes well, you will see a binary "srma"
./srma
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