Hi Jacek

Well, it should, but there is a bug (that we have not yet looked into) that can (quite often) lead to an incorrect printout of that line. 

By default, DTIPrep will not write out a final QC'ed image if there were indeed too many gradients excluded (as defined by the "QC_badGradientPercentTolerance" parameter). So, if DTIPrep generated the QC'ed DWI image, then you are all fine.

If no QC'ed DWI image as generated, then indeed there were too many bad gradients. Please, be aware that the default threshold for that is set a bit stringent, i.e. it's perfectly fine to relax it a bit, e.g. to 0.3 (30%), or even higher depending on the number of starting gradients.

Martin