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raxml-software [2015/07/27 07:18] – joguyaraxml-software [2025/05/14 12:03] (current) – aorth
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 RAxML (Randomized Axelerated Maximum Likelihood) is a program for sequential and parallel Maximum Likelihood based inference of large phylogenetic trees.  RAxML (Randomized Axelerated Maximum Likelihood) is a program for sequential and parallel Maximum Likelihood based inference of large phylogenetic trees. 
  
-  * Latest Version: 8.2.0+===== Information ===== 
 + 
 +  * Latest Version: 8.2.12
   * Added: June, 2011   * Added: June, 2011
-  * Updated: July, 2015+  * Updated: May, 2025
   * Link: https://github.com/stamatak/standard-RAxML   * Link: https://github.com/stamatak/standard-RAxML
  
 === Usage === === Usage ===
-  * Show all available versions of RAxML<code>module avail RAxML</code> + 
-  * Load RAxML module: <code>module load RAxML/8.2.0</code>+Show all available versions: 
 + 
 +<code>$ module avail RAxML</code> 
 + 
 +Load one version into your environment and run it: 
 + 
 +<code>$ module load RAxML/8.2.12 
 +$ raxmlHPC-PTHREADS-AVX2</code> 
 + 
 +Note: you should set the number of concurrent CPU threads using the ''-T'' option. For example, if you have requested five CPUs in your SLURM batch script, you can tell RAxML to use five threads: 
 + 
 +<code>$ raxmlHPC-PTHREADS-AVX2 -T 5</code>
  
 === Installation === === Installation ===
-  *Notes from the sysadmin during installation:<code> +Notes from the sysadmin during installation: 
-wget https://github.com/stamatak/standard-RAxML/archive/v8.2.0.tar.gz + 
-tar -xvf v8.2.0.tar.gz +<code>$ cd /tmp 
-cd standard-RAxML-8.2.0/ +$ wget https://github.com/stamatak/standard-RAxML/archive/v8.2.12.tar.gz 
-make -f Makefile.AVX.gcc +$ tar xf v8.2.12.tar.gz 
-rm *.o +$ cd standard-RAxML-8.2.12 
-make -f Makefile.AVX.PTHREADS.gcc +$ make -f Makefile.SSE3.gcc 
-rm *.o +$ make -f Makefile.SSE3.PTHREADS.gcc 
-module load openmpi/1.8.2 +$ make -f Makefile.AVX.gcc 
-make -f Makefile.MPI.gcc +$ make -f Makefile.AVX.PTHREADS.gcc 
-rm *.o +$ make -f Makefile.AVX2.gcc 
-sudo mkdir -p /export/apps/RAxML/8.2.0/bin +$ make -f Makefile.AVX2.PTHREADS.gcc 
-sudo cp -v raxmlHPC* /export/apps/RAxML/8.2.0/bin/ +$ sudo mkdir -p /export/apps/RAxML/8.2.12/bin 
-</code>+$ sudo cp raxmlHPC-* /export/apps/RAxML/8.2.12/bin</code>
raxml-software.1437981510.txt.gz · Last modified: by joguya