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...ting variance components for fixed model... Fitting mixed effect model... Finish gene number 100 ... (...) Finish gene number 3500 ... Error in next.fix:(next.fix + ncols - 1) : NA/NaN argument I was inspecting the files of data and there's nothing wrong close to the probe 3500. Then I calculei the average for each probe in Excel. I tried to perform the analysis again adjusting the option n.rep = 1 and avgreps = 0. There was the same mistake: Finish gene number 3500 ... Error in next.fix:(next.fix + ncols - 1) : NA/NaN argument Then I decided do a permutation on my data and the...