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beagle-software [2015/08/03 13:08]
aorth created
beagle-software [2021/06/21 07:52] (current)
aorth
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-====== beagle ======+====== Beagle ======
 BEAGLE is a high-performance library that can perform the core calculations at the heart of most Bayesian and Maximum Likelihood phylogenetics packages such as BEAST. BEAGLE is a high-performance library that can perform the core calculations at the heart of most Bayesian and Maximum Likelihood phylogenetics packages such as BEAST.
  
 ===== Information ===== ===== Information =====
  
-  * Version: git-c455af1f+  * Latest Version: 3.1.2
   * Added: August, 2015   * Added: August, 2015
 +  * Updated: June, 2021
   * Link: https://github.com/beagle-dev/beagle-lib   * Link: https://github.com/beagle-dev/beagle-lib
 +  
 ===== Usage ===== ===== Usage =====
  
-=== See versions of beagle which are available ===+See which versions of beagle are available:
 <code>$ module avail beagle</code> <code>$ module avail beagle</code>
  
-To use with BEAST, make sure beagle is loaded first!+Load one version into your environment: 
 +<code>$ module load beagle/3.1.2</code> 
 + 
 +Beagle is not useful by itself, but you can use it to speed up [[https://hpc.ilri.cgiar.org/beast-software|BEAST]] and [[https://hpc.ilri.cgiar.org/beast2-software|BEAST2]].
  
 ===== Installation ====== ===== Installation ======
 Notes from the sysadmin during installation: Notes from the sysadmin during installation:
  
-<code>$ cd /tmp +<code>$ git clone https://github.com/beagle-dev/beagle-lib.git -b v3.1.2
-$ git clone https://github.com/beagle-dev/beagle-lib.git+
 $ cd beagle-lib $ cd beagle-lib
-$ scl enable devtoolset-bash+$ sed -i 's/compute_30/compute_70/' configure.ac 
 +$ scl enable devtoolset-bash 
 +$ sudo yum install libtool
 $ ./autogen.sh $ ./autogen.sh
-$ ./configure --prefix=/export/apps/beagle/git-c455af1f +$ ./configure --prefix=/export/apps/beagle/3.1.2 
-$ sudo mkdir -p /export/apps/beagle/git-c455af1f +$ sudo mkdir -p /export/apps/beagle/3.1.2 
-$ sudo chown aorth /export/apps/beagle/git-c455af1f+$ sudo chown aorth /export/apps/beagle/3.1.2
 $ make install $ make install
-$ sudo chown -R root:root /export/apps/beagle/git-c455af1f +$ sudo chown -R root:root /export/apps/beagle/3.1.2</code> 
-$ exit</code>+ 
 +**Note (2021-06-21):** Re-compiled on compute06 with support for NVIDIA GPU compute capability 7.0, but still seems to run on other nodes without modification.
beagle-software.1438607313.txt.gz · Last modified: 2015/08/03 13:08 by aorth