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smalt-software [2016/03/24 16:53] (current)
joguya created
Line 1: Line 1:
 +====== Smalt ======
  
 +SMALT aligns DNA sequencing reads with a reference genome.
 +
 +===== Information =====
 +
 +  * Version: 0.7.6
 +  * Added: March, 2016
 +  * Link: http://​www.sanger.ac.uk/​science/​tools/​smalt-0
 +
 +===== Usage =====
 +
 +See which versions of smalt are available:
 +<​code>​$ module avail smalt
 +</​code>​
 +
 +Load smalt
 +<​code>​$ module load smalt/​0.7.6</​code>​
 +
 +===== Installation ======
 +
 +Notes from the sysadmin during installation:​
 +
 +<​code>​
 +$ 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
 +</​code>​
smalt-software.txt · Last modified: 2016/03/24 16:53 by joguya