allow expfile_downstream file to have different gene names than expfile_upstream

[MiqG]

As I was playing around with ARACNe-AP, I was getting the following error because the gene names in expfile_downstream did not match expfile_upstream:

Exception in thread "main" java.lang.NullPointerException
        at aracne.MI.<init>(Unknown Source)
        at aracne.Aracne.runAracne(Unknown Source)
        at aracne.Aracne.main(Unknown Source)

Looking at the code, I realized this information was only used here to get the number of samples.

I made a little workaround and it worked! :)

Miquel

[MiqG]

I have realized that the tfList variable was being filtered by the gene variable obtained from the expfile_downstream instead leading to emptying the list if the names did not coincide. So, I specified it to use the temporary variable gene1 which corresponds to the genes in expfile_upstream