Ghana-Installation-software.md

@@ -34,11 +34,27 @@ AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences.
 
 URL : http://bioinf.uni-greifswald.de/augustus/
 
+Dependencies: bamtools, samtools, bfctools, tabix
+
 ### Installation :
 
       wget  https://github.com/Gaius-Augustus/Augustus/archive/3.3.2.tar.gz
       tar xfvz 3.3.2.tar.gz -C /usr/local/bioinfo/
       cd /usr/local/bioinfo/Augustus-3.3.2
+
+Modify the following files with the PATH of your bamtools:
+      
+`/usr/local/bioinfo/Augustus-3.3.2/auxprogs/bam2hints/Makefile`
+
+with:
+
+       INCLUDES = /usr/local/PATH_TO_BAMTOOLS/include
+
+Example:
+
+       INCLUDES = /usr/local/bioinfo/bamtools-2.3/include
+
+ 
       make
       make install