Differences

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--- jellyfish-software [2015/03/27 09:19] – created joguya
+++ jellyfish-software [2020/10/28 09:20] (current) – aorth
@@ Line 1: / Line 1: @@
 ====== Jellyfish ======
-Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA
+Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA.
 ===== Information =====
-  * Version: 2.2.0
+  * Latest version: 2.3.0
   * Added: March, 2015
-  * Link: http://www.genome.umd.edu/jellyfish.html
+  * Updated: October, 2020
+  * Link: https://github.com/gmarcais/Jellyfish
 ===== Usage =====
+See versions of jellyfish which are available:
-=== See versions of jellyfish which are available ===
 <code>$ module avail jellyfish</code>
-=== Load and run jellyfish ===
+Load one version of jellyfish into your environment and run it:
-<code>$ module load jellyfish
+<code>$ module load jellyfish/2.3.0
 $ jellyfish</code>
@@ Line 20: / Line 20: @@
 Notes from the sysadmin during installation:
-<code>cd /tmp
+<code>$ cd /tmp
-wget ftp://ftp.genome.umd.edu/pub/jellyfish/jellyfish-2.2.0.tar.gz
+$ wget https://github.com/gmarcais/Jellyfish/releases/download/v2.3.0/jellyfish-linux
-tar -xvf jellyfish-2.2.0.tar.gz
+$ chmod +x jellyfish-linux
-cd jellyfish-2.2.0
+$ sudo mkdir -p /export/apps/jellyfish/2.3.0/bin
-sudo mkdir -p /export/apps/jellyfish/2.2.0
+$ sudo cp jellyfish-linux /export/apps/jellyfish/2.3.0/bin/jellyfish</code>
-sudo chown joguya:joguya /export/apps/jellyfish/2.2.0
-scl enable devtoolset-2 bash
-./configure CC=clang --prefix=/export/apps/jellyfish/2.2.0
-make
-make install
-sudo chown root:root /export/apps/jellyfish/2.2.0
-</code>