User Tools

Site Tools


trimmomatic-software

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revisionPrevious revision
Next revision
Previous revision
trimmomatic-software [2018/06/01 23:03] aorthtrimmomatic-software [2021/09/05 11:10] (current) aorth
Line 4: Line 4:
 ===== Information ===== ===== Information =====
  
-  * Version: 0.38+  * Version: 0.39
   * Added: September, 2015   * Added: September, 2015
-  * Updated: June2018 +  * Updated: September2021 
-  * Link: http://www.usadellab.org/cms/?page=trimmomatic+  * Link: https://github.com/usadellab/Trimmomatic
  
 ===== Usage ===== ===== Usage =====
Line 15: Line 15:
  
 Load one version into your environment and run it: Load one version into your environment and run it:
-<code>$ module load trimmomatic/0.38+<code>$ module load trimmomatic/0.39
 $ trimmomatic</code> $ trimmomatic</code>
  
Line 22: Line 22:
  
 <code>$ cd /tmp <code>$ cd /tmp
-$ wget http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/Trimmomatic-0.38.zip +$ wget http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/Trimmomatic-0.39.zip 
-$ unzip Trimmomatic-0.38.zip +$ unzip Trimmomatic-0.39.zip 
-$ sudo mkdir -p /export/apps/trimmomatic/0.38 +$ sudo mkdir -p /export/apps/trimmomatic/0.39 
-$ sudo cp -r Trimmomatic-0.38/* /export/apps/trimmomatic/0.38</code>+$ sudo cp -r Trimmomatic-0.39/* /export/apps/trimmomatic/0.39</code>
  
 Trimmomatic is distributed as a jar file and is not easy for users to run. I created a wrapper shell script named ''trimmomatic'': Trimmomatic is distributed as a jar file and is not easy for users to run. I created a wrapper shell script named ''trimmomatic'':
Line 32: Line 32:
  
 readonly PREFIX=$(dirname $0) readonly PREFIX=$(dirname $0)
-java -jar $PREFIX/trimmomatic-0.38.jar $*</code>+java -jar $PREFIX/trimmomatic-0.39.jar $*</code>
trimmomatic-software.txt · Last modified: 2021/09/05 11:10 by aorth