$alignframes -StandardInput
UseGPU	0
PairwiseFrames 7
GroupSize 1
AlignAndSumBinning	10 2
FixedTotalDose	45.0
AntialiasFilter 4
RefineAlignment 0
StopIterationsAtShift 0.100000
ShiftLimit 20
MinForSplineSmoothing 0
FilterRadius2 0.050000
FilterSigma2 0.007145
VaryFilter 0.050000
InputFile 2-g2_03431.tif
OutputImageFile Y:/UMASS_cryoCore/Chris_Virginia/20190905/2-g2_03431_ali.mrc
ScalingOfSum 32.000000
GainReferenceFile SuperRef_2-g2_00000.dm4
RotationAndFlip -1