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cd-hit-software [2016/08/30 10:13]
joguya created
cd-hit-software [2018/11/16 17:46] (current)
aorth
Line 1: Line 1:
 ====== CD-HIT ====== ====== CD-HIT ======
- 
 A program for clustering and comparing protein or nucleotide sequences. A program for clustering and comparing protein or nucleotide sequences.
  
 ===== Information ===== ===== Information =====
  
-  * Version: 4.6.6+  * Version: 4.6.8
   * Added: August, 2016   * Added: August, 2016
 +  * Updated: November, 2018
   * Link: http://​weizhongli-lab.org/​cd-hit/​   * Link: http://​weizhongli-lab.org/​cd-hit/​
  
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 <​code>​$ module avail cd-hit</​code>​ <​code>​$ module avail cd-hit</​code>​
  
-Load cd-hit +Load one version into your environment and run it: 
-<​code>​$ module load cd-hit/4.6.6</​code>​+<​code>​$ module load cd-hit/4.6.8</​code>​
  
 ===== Installation ====== ===== Installation ======
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 Notes from the sysadmin during installation:​ Notes from the sysadmin during installation:​
  
-<​code>​ +<​code>​$ cd /tmp 
-$ cd /tmp +$ wget https://​github.com/​weizhongli/​cdhit/​archive/​V4.6.8.tar.gz 
-$ wget -qO - https://​github.com/​weizhongli/​cdhit/​archive/​V4.6.6.tar.gz ​| tar -xzv +$ cd cdhit-4.6.8
-$ 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 $ make
-sed -i 's|#!/usr/bin/perl|#!/usr/bin/env perl|g'​ *.pl +sudo mkdir -/export/apps/cd-hit/4.6.8 
-find . -type f -perm /o+x -exec cp -v {} /​export/​apps/​cd-hit/​4.6.6/ \; +sudo chown aorth /​export/​apps/​cd-hit/​4.6.8 
-cd cd-hit-auxtools +PREFIX=/​export/​apps/​cd-hit/​4.6.8 make install 
-$ make +$ sudo chown root /​export/​apps/​cd-hit/​4.6.8/*</​code>​
-$ 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.1472541182.txt.gz · Last modified: 2016/08/30 10:13 by joguya