Smalt

SMALT aligns DNA sequencing reads with a reference genome.

• Version: 0.7.6
• Added: March, 2016
• Link: http://www.sanger.ac.uk/science/tools/smalt-0

See which versions of smalt are available:

$ module avail smalt

Load smalt

$ module load smalt/0.7.6

Notes from the sysadmin during installation:

$ cd /tmp
$ wget "http://downloads.sourceforge.net/project/smalt/smalt-0.7.6.tar.gz?r=https%3A%2F%2Fsourceforge.net%2Fprojects%2Fsmalt%2Ffiles%2F%3Fsource%3Dnavbar&ts=1458724179&use_mirror=liquidtelecom" -O smalt-0.7.6.tar.gz
$ tar -xvf smalt-0.7.6.tar.gz
$ cd smalt-0.7.6
$ scl enable devtoolset-2 bash
$ sudo mkdir -p /export/apps/smalt/0.7.6
$ sudo chown joguya:joguya /export/apps/smalt/0.7.6
$ ./configure --prefix=/export/apps/smalt/0.7.6
$ make
$ make install
$ sudo chown -R root:root /export/apps/smalt/0.7.6