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cd-hit-software [2016/08/30 10:13] (current)
joguya created
Line 1: Line 1:
 +====== CD-HIT ======
 +
 +A program for clustering and comparing protein or nucleotide sequences.
 +
 +===== Information =====
 +
 +  * Version: 4.6.6
 +  * Added: August, 2016
 +  * Link: http://​weizhongli-lab.org/​cd-hit/​
 +
 +===== Usage =====
 +
 +See which versions of cd-hit are available:
 +<​code>​$ module avail cd-hit</​code>​
 +
 +Load cd-hit
 +<​code>​$ module load cd-hit/​4.6.6</​code>​
 +
 +===== Installation ======
 +
 +Notes from the sysadmin during installation:​
 +
 +<​code>​
 +$ cd /tmp
 +$ wget -qO - https://​github.com/​weizhongli/​cdhit/​archive/​V4.6.6.tar.gz | tar -xzv
 +$ cd cdhit-4.6.6/​
 +$ scl enable devtoolset-2 bash
 +$ module load openmpi/​1.8.2
 +$ sudo mkdir -p /​export/​apps/​cd-hit/​4.6.6/​
 +$ sudo chown joguya:​joguya /​export/​apps/​cd-hit/​4.6.6/​
 +$ make
 +$ sed -i '​s|#​!/​usr/​bin/​perl|#​!/​usr/​bin/​env perl|g'​ *.pl
 +$ find . -type f -perm /o+x -exec cp -v {} /​export/​apps/​cd-hit/​4.6.6/​ \;
 +$ cd cd-hit-auxtools
 +$ make
 +$ sed -i '​s|#​!/​usr/​bin/​perl|#​!/​usr/​bin/​env perl|g'​ *.pl
 +$ find . -type f -perm /o+x -exec cp -v {} /​export/​apps/​cd-hit/​4.6.6/​ \;
 +$ sudo chown -R root:root /​export/​apps/​cd-hit/​4.6.6/</​code>​
  
cd-hit-software.txt · Last modified: 2016/08/30 10:13 by joguya