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unicycler-software [2020/01/21 09:35] – [Installation] jean-bakaunicycler-software [2023/06/12 13:17] (current) aorth
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 ===== Information ===== ===== Information =====
  
-  * Version: 0.47.0+  * Version: 0.5.0
   * Added: February, 2019   * Added: February, 2019
 +  * Updated: June, 2023
   * Link: https://github.com/rrwick/Unicycler   * Link: https://github.com/rrwick/Unicycler
  
 ===== Usage ===== ===== Usage =====
  
-See versions of unicycler which are available:+See versions which are available:
 <code>$ module avail unicycler</code> <code>$ module avail unicycler</code>
  
 Load one version into your environment and run it: Load one version into your environment and run it:
-<code>$ module load unicycler/0.47.0+<code>$ module load unicycler/0.5.0
 $ unicycler</code> $ unicycler</code>
  
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 #SBATCH -J unicycler #SBATCH -J unicycler
  
-module load unicycler/0.4.7+module load unicycler/0.5.0
  
 readonly DATADIR=~/sample_data readonly DATADIR=~/sample_data
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 <code>$ cd /tmp <code>$ cd /tmp
-$ wget https://github.com/rrwick/Unicycler/archive/v0.4.7.zip +$ wget https://github.com/rrwick/Unicycler/archive/refs/tags/v0.5.0.tar.gz 
-unzip v0.4.7.zip +tar xf v0.5.0.tar.gz 
-$ cd Unicycler-0.4.7 +$ cd Unicycler-0.5.0 
-sudo yum install centos-release-scl +module load python/3.8 
-$ sudo yum install devtoolset-6-gcc.x86_64 devtoolset-6-gcc-c++.x86_64 python36 python36-setuptools +$ sudo mkdir -p /export/apps/unicycler/0.5.0 
-$ scl enable devtoolset-6 bash +$ sudo chown aorth /export/apps/unicycler/0.5.0 
-$ sudo mkdir -p /export/apps/unicycler/0.4.7 +python3.8 setup.py install --prefix=/export/apps/unicycler/0.5.0 
-$ sudo chown aorth /export/apps/unicycler/0.4.7 +$ sudo chown -R root:root /export/apps/unicycler/0.5.0</code>
-python36 setup.py install --prefix=/export/apps/unicycler/0.4.7 +
-$ sudo chown -R root:root /export/apps/unicycler/0.4.7</code> +
- +
-The devtoolset is used because Unicycler requires a GCC compiler newer than 4.9.1. +
- +
-Note by JB: way after this install, on 21 Jan 2020, I had to change the header in /export/apps/unicycler/0.4.7/bin/unicycler from +
-$ #!/usr/bin/python36 +
-to +
-$ #!/usr/bin/python3.6 +
-because there is no (no longer?) python36 in the $PATH.+
unicycler-software.1579599355.txt.gz · Last modified: 2020/01/21 09:35 by jean-baka