Ghana-Installation-software.md

@@ -46,21 +46,19 @@ There are number of metrics generated which can be useful for filtering out fals
 
 bam-readcount does not support in source builds. Create a new build directory, enter it, and run:
 
-        cmake /path/to/bam-readcount/repo
-        cd /path/to/bam-readcount/repo
+      cd bam-readcount
+      mkdir build
+      cd build        
+      cmake /path/to/bam-readcount/
       make
 
+Add /usr/local/bam-readcount/build/bin to the path :
 
-### Usage :
-
-The easiest way to run the program is to run the script called art in the Artemis installation directory, like this:
-           
-        art
-           
-Alternatively you can start Artemis with the name of a sequence file or embl file, eg:
+       echo  'export PATH=/usr/local/bam-readcount/bin:$PATH' >>/etc/profile
+       source /etc/profile
 
-        art artemis/etc/c1215.embl
+### Usage :
 
-For other available options use:
+Help is currently available on the commandline if you do not supply the program
+any arguments.
 
-        art -help