The second trimmomatic step in demux script may not include options

[Nicklas Nordborg]

When generating the script for the second trimmomatic step the options specified may not be included since there is an incorrect check:

if (demux_trimmomaticOptions1 != null)
{
   trimCmd2 += " " + demux_trimmomaticOptions2;
}

The if statement should check demux_trimmomaticOptions2. Fortunately both options are required and should never be null at this stage.

[Nicklas Nordborg]

(In [3141]) Fixes #743: The second trimmomatic step in demux script may not include options