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trinity-software [2018/03/27 16:00]
aorth
trinity-software [2020/10/28 11:28] (current)
aorth
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 ===== Information ===== ===== Information =====
  
-  * Latest Version: v2.6.6+  * Latest Version: v2.11.0
   * Added: March, 2015   * Added: March, 2015
-  * Updated: March2018+  * Updated: October2020
   * Link: https://trinityrnaseq.github.io   * Link: https://trinityrnaseq.github.io
  
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 Load one version into your environment and run it: Load one version into your environment and run it:
-<code>$ module load trinity/v2.6.6+<code>$ module load trinity/v2.11.0
 $ Trinity</code> $ Trinity</code>
  
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 <code>$ cd /tmp <code>$ cd /tmp
-$ wget https://github.com/trinityrnaseq/trinityrnaseq/releases/download/Trinity-v2.6.6/Trinityrnaseq-v2.6.6.wExtSampleData.tar.gz +$ wget https://github.com/trinityrnaseq/trinityrnaseq/releases/download/v2.11.0/trinityrnaseq-v2.11.0.FULL.tar.gz 
-$ tar xf Trinityrnaseq-v2.6.6.wExtSampleData.tar.gz +$ tar xf trinityrnaseq-v2.11.0.FULL.tar.gz 
-$ cd Trinityrnaseq-v2.6.6+$ cd trinityrnaseq-v2.11.
 +$ sed -i 's/cmake/cmake3/' Chrysalis/Makefile Inchworm/Makefile
 $ make $ make
 $ make plugins $ make plugins
-$ sudo yum install numpy +$ sudo yum install python36-numpy.x86_64 
-$ sudo mkdir /export/apps/trinity/v2.6.+$ sudo mkdir -p /export/apps/trinity/v2.11.0 
-$ make test_trinity +$ sudo cp -r . /export/apps/trinity/v2.11.0 
-$ sudo cp -r . /export/apps/trinity/v2.6.6</code>+$ export TRINITY_HOME=/export/apps/trinity/v2.11.0 
 +$ module load samtools/1.9 salmon/1.3.0 bowtie2/2.3.4.1 jellyfish/2.3.0 
 +$ cd sample_data/test_Trinity_Assembly 
 +$ ./runMe.sh</code>
  
-Consult the [[https://github.com/trinityrnaseq/trinityrnaseq/wiki/Installing-Trinity|installing Trinity]] guide in the documentation, although it misses some dependencies!+Consult the [[https://github.com/trinityrnaseq/trinityrnaseq/wiki/Installing-Trinity|installing Trinity]] guide in the documentation.
trinity-software.txt · Last modified: 2020/10/28 11:28 by aorth