Error with low amount of variant sites

[pgcudahy]

I've been getting errors with a few samples saying

Traceback (most recent call last):
  File "/home/pgcudahy/ngs-tools/SplitStrains/splitStrains.py", line 925, in <module>
    writeResult(bamFilePath, LR , thresh, alpha_level, [1])
NameError: name 'LR' is not defined

I think this issue is that with low variation samples, writeResult is called with LR as a parameter, but LR isn't defined until after the call.

# call single strain if not enough variation is found
    if len(freqVec) < 5:
        logging.info(f'Not enough variant sites.')
        writeResult(bamFilePath, LR , thresh, alpha_level, [1])
        exit()

# test null and alt hypthesis
    thresh, LR = likelyhood_ratio_test(freqVec, alpha_level, upperLimit, num_iter, init_p, init_err)