Differences

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--- abyss-software [2015/06/10 11:50] – [Installation] joguya
+++ abyss-software [2018/11/17 20:35] – aorth
@@ Line 4: / Line 4: @@
 ===== Information =====
-  * Version: 1.5.2
+  * Version: 2.1.4
   * Added: August, 2013
-  * Updated: March, 2015
+  * Updated: November, 2018
-  * K-mer size: 64 (default at compile time)
+  * K-mer size: 128 (default at compile time)
   * Link: http://www.bcgsc.ca/platform/bioinfo/software/abyss
@@ Line 14: / Line 14: @@
 See versions of abyss which are available:
 <code>$ module avail abyss</code>
+Load one version into your environment and run it:
+<code>$ module load abyss/2.1.4
+$ abyss-pe help</code>
 ===== Installation ======
@@ Line 19: / Line 23: @@
 <code>$ cd /tmp
-$ wget https://github.com/bcgsc/abyss/releases/download/1.9.0/abyss-1.9.0.tar.gz
+$ wget http://www.bcgsc.ca/platform/bioinfo/software/abyss/releases/2.1.4/abyss-2.1.4.tar.gz
-$ tar -xvf abyss-1.9.0.tar.gz
+$ tar xf abyss-2.1.4.tar.gz
-$ cd abyss-1.9.0
+$ cd abyss-2.1.4
-$ scl enable devtoolset-2 bash
+$ sudo yum install sparsehash-devel.x86_64 openmpi-devel.x86_64
-$ sudo mkdir /export/apps/abyss/1.9.0
+$ ./configure --prefix=/export/apps/abyss/2.1.4
-$ sudo chown joguya:joguya /export/apps/abyss/1.9.0
-$ CC=clang ./configure --prefix=/export/apps/abyss/1.9.0 --with-boost=/export/apps/boost/1.50.0/include --with-mpi=/export/apps/openmpi/1.8.2
 $ make -j4
+$ sudo mkdir -p /export/apps/abyss/2.1.4
+$ sudo chown aorth /export/apps/abyss/2.1.4
 $ make install
-$ sudo chown -R root:root /export/apps/abyss/1.9.0
+$ sudo chown -R root:root /export/apps/abyss/2.1.4
-</code>
+$ sudo yum remove sparsehash-devel.x86_64 openmpi-devel.x86_64</code>