leginonbot
commented
7 months ago Original Redmine Comment Author Name: Anchi Cheng (@anchi2c) Original Date: 2010-12-23T16:20:49Z
Am I crazy to even try to run this? I wanted to check the setRunDir behavior of uploadXmippRefine.py
Author Name: Anchi Cheng (@anchi2c) Original Redmine Issue: 1111, https://emg.nysbc.org/redmine/issues/1111 Original Date: 2010-12-23 Original Assignee: Anchi Cheng
Happened when I run this, but can happen any time model need to be rescaled. xmippRefine.py is still under development so other bugs may show up even if it passes this one
xmippRefine.py \ --projectid=234 --stackid=4 --modelid=3 --rundir=. --pixelSize=1.63 \ --boxSize=168 --NumberOfIterations=10 --MaskRadius=82 --Mask= \ --InnerRadius=4 --OuterRadius=82 --AngularSteps=1x10 --MaxAngularChange=1x1000 \ --MaxChangeOffset=1000 --Search5DShift=0 --Search5DStep=2 --SymmetryGroup=d7 \ --DiscardPercentage=10 --ReconstructionMethod=fourier --ARTLambda=0.15 \ --FourierMaxFrequencyOfInterest=0.25 --DoComputeResolution \ --DoLowPassFilter --DontUseFscForFilter --ConstantToAddToFiltration=0.1 \ --NumberOfMPIProcesses=2 --NumberOfThreads=8
Traceback (most recent call last): File "/opt/appion/bin/xmippRefine.py", line 351, in ? refine3d.start() File "/opt/appion/bin/xmippRefine.py", line 167, in start apModel.rescaleModel(self.params['modelid'], fnRef, self.params['boxSize'], self.p arams['pixelSize'], spider=True) File "/usr/lib64/python2.4/site-packages/appionlib/apModel.py", line 25, in rescaleM odel apVolume.rescaleVolume(modelfile, outfile, inapix, newapix, newbox, spider=False) NameError: global name 'inapix' is not defined