Differences

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--- ea-utils-software [2015/10/08 12:51] – joguya
+++ ea-utils-software [2018/11/18 09:14] (current) – aorth
@@ Line 1: / Line 1: @@
 ====== ea-utils ======
-FASTQ processing utilities.
+Command-line tools for processing biological sequencing data. Barcode demultiplexing, adapter trimming, etc. Primarily written to support an Illumina based pipeline - but should work with any FASTQs.
 ===== Information =====
-  * Version: 1.1.2
+  * Version: 1.04.807
   * Added: October, 2015
-  * Link: https://code.google.com/p/ea-utils/
+  * Updated: November, 2018
+  * Link: https://expressionanalysis.github.io/ea-utils/
 ===== Usage =====
-See versions of ea-utils which are available:
+See available versions:
 <code>$ module avail ea-utils</code>
-Load ea-utils:
+Load one version into your environment:
-<code>$ module load ea-utils/1.1.2
+<code>$ module load ea-utils/1.04.807</code>
-</code>
 ===== Installation ======
 Notes from the sysadmin during installation:
-<code>
+<code>$ cd /tmp
-$ wget "https://drive.google.com/uc?id=0B7KhouP0YeRAc2xackxzRnFrUEU&export=download" -O ea-utils.1.1.2-806.tar.gz
+$ wget https://github.com/ExpressionAnalysis/ea-utils/archive/1.04.807.tar.gz
-$ tar -xvf ea-utils.1.1.2-806.tar.gz
+$ sudo yum install gsl-devel perl-Test-Base
-$ cd ea-utils.1.1.2-806
+$ tar xf 1.04.807.tar.gz
-$ scl enable devtoolset-2 bash
+$ cd ea-utils-1.04.807/clipper
-$ module load samtools/1.2
+$ make
-$ sudo mkdir -p /export/apps/ea-utils/1.1.2
+$ sudo mkdir -p /export/apps/ea-utils/1.04.807
-$ sudo chown -R joguya:joguya /export/apps/ea-utils/1.1.2
+$ sudo chown aorth /export/apps/ea-utils/1.04.807
-$ module load perl/5.16.3.1603
+$ make install PREFIX=/export/apps/ea-utils/1.04.807
-$ PREFIX=/export/apps/ea-utils/1.1.2 make install
+$ sudo yum remove gsl-devel perl-Test-Base
-$ sudo chown -R root:root /export/apps/ea-utils/1.1.2
+$ sudo chown -R root:root /export/apps/ea-utils/1.04.807</code>
-</code>