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trimmomatic-software [2015/09/25 11:22]
joguya created
trimmomatic-software [2018/06/02 02:03]
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 ===== Information ===== ===== Information =====
-  * Version: 0.33+  * Version: 0.38
   * Added: September, 2015   * Added: September, 2015
 +  * Updated: June, 2018
   * Link: http://​​cms/?​page=trimmomatic   * Link: http://​​cms/?​page=trimmomatic
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 <​code>​$ module avail trimmomatic</​code>​ <​code>​$ module avail trimmomatic</​code>​
-Load and run trimmomatic+Load one version into your environment ​and run it
-<​code>​$ module load trimmomatic/​0.33+<​code>​$ module load trimmomatic/​0.38
 $ trimmomatic</​code>​ $ trimmomatic</​code>​
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 Notes from the sysadmin during installation:​ Notes from the sysadmin during installation:​
-<​code>​$ cd /tmp/ +<​code>​$ cd /tmp 
-$ wget http://​​cms/​uploads/​supplementary/​Trimmomatic/​ +$ wget http://​​cms/​uploads/​supplementary/​Trimmomatic/​ 
-cd Trimmomatic-0.33 +unzip 
-$ sudo mkdir -p /​export/​apps/​trimmomatic/​0.33 +$ sudo mkdir -p /​export/​apps/​trimmomatic/​0.38 
-$ sudo cp -rv . /​export/​apps/​trimmomatic/​0.33/ +$ sudo cp -r Trimmomatic-0.38/* /​export/​apps/​trimmomatic/​0.38</​code>​
-I created a wrapper shell script named ''​trimmomatic''​ to run Trimmomatic,​ otherwise, you'll have to specify a path to trimmomatic-0.33.jar—''​java -jar <path to trimmomatic.jar>​ ...''​—which is unfriendly. ''/​export/​apps/​trimmomatic/​0.33/​trimmomatic'':<​code>​ +Trimmomatic is distributed as a jar file and is not easy for users to run. I created a wrapper shell script named ''​trimmomatic'':​ 
-#​!/​usr/​bin/​env bash+ 
 +<​code>#​!/​usr/​bin/​env bash
 readonly PREFIX=$(dirname $0) readonly PREFIX=$(dirname $0)
-java -jar $PREFIX/​trimmomatic-0.33.jar $* +java -jar $PREFIX/​trimmomatic-0.38.jar $*</​code>​
trimmomatic-software.txt · Last modified: 2018/06/02 02:03 by aorth