本文整理匯總了Python中EMAN.appinit方法的典型用法代碼示例。如果您正苦於以下問題：Python EMAN.appinit方法的具體用法？Python EMAN.appinit怎麽用？Python EMAN.appinit使用的例子？那麽, 這裏精選的方法代碼示例或許可以為您提供幫助。您也可以進一步了解該方法所在類EMAN的用法示例。
在下文中一共展示了EMAN.appinit方法的1個代碼示例，這些例子默認根據受歡迎程度排序。您可以為喜歡或者感覺有用的代碼點讚，您的評價將有助於係統推薦出更棒的Python代碼示例。
示例1: main
# 需要導入模塊: import EMAN [as 別名]
# 或者: from EMAN import appinit [as 別名]
def main():
if sys.argv[-1].startswith("usefs="): sys.argv = sys.argv[:-1] # remove the runpar fileserver info
(options,args) = parse_command_line()
if not options.nolog and (not mpi or (mpi and mpi.rank==0)): EMAN.appinit(sys.argv)
inputParm = EMAN.ccmlInputParm()
sf = EMAN.XYData()
if options.sfFileName != "" :
readsf = sf.readFile(options.sfFileName)
if ((readsf == -1) and (options.verbose > 0)) :
print "The file of scattering factor does NOT exist"
inputParm.scateringFactor = sf
startNumOfRawImages = options.startNumOfRawImages
#endNumOfRawImages = options.endNumOfRawImages
refImageFileName = args[-1]
numOfRefImages = options.numOfRefImages
solutionFile = options.solutionFile
# write log info to .emanlog file so that eman program can browse the history
if not options.nolog and (not mpi or (mpi and mpi.rank==0)):
pid = EMAN.LOGbegin(sys.argv)
for f in args[0:-1]: EMAN.LOGInfile(pid,f)
EMAN.LOGReffile(pid,args[-1])
if options.solutionFile: EMAN.LOGOutfile(pid,options.solutionFile)
if options.listFile: EMAN.LOGOutfile(pid,options.listFile)
if options.mrcSolutionFile: EMAN.LOGOutfile(pid,options.mrcSolutionFile)
inputParm.sym = options.sym
inputParm.FFTOverSampleScale = options.FFTOverSampleScale
inputParm.pftStepSize = options.pftStepSize
inputParm.deltaR = options.deltaR
inputParm.RMin = options.RMin
inputParm.RMax = options.RMax
inputParm.searchMode = options.searchMode
inputParm.scalingMode = options.scalingMode
inputParm.residualMode = options.residualMode
inputParm.weightMode = options.weightMode
# inputParm.rawImageFN will be set later
inputParm.refImagesFN = refImageFileName
inputParm.rawImageIniParmFN = options.rawImageIniParmFN
inputParm.rawImagePhaseCorrected = options.phasecorrected
inputParm.maxNumOfRun = options.maxNumOfRun
inputParm.zScoreCriterion = options.zScoreCriterion
inputParm.residualCriterion = options.residualCriterion
inputParm.solutionCenterDiffCriterion = options.solutionCenterDiffCriterion
inputParm.solutionOrientationDiffCriterion = options.solutionOrientationDiffCriterion/180.0*pi
inputParm.maxNumOfIteration = options.maxNumOfIteration
inputParm.numOfRandomJump = options.numOfRandomJump
inputParm.numOfFastShrink = options.numOfFastShrink
inputParm.numOfStartConfigurations = options.numOfStartConfigurations
inputParm.orientationSearchRange = options.orientationSearchRange/180.0*pi
inputParm.centerSearchRange = options.centerSearchRange
inputParm.numOfRefImages = options.numOfRefImages
inputParm.refEulerConvention = options.refEulerConvention
#maskR = options.maskR
#if (maskR<=0): maskR = refImageSizeY/2
inputParm.verbose = options.verbose
verbose = options.verbose
#verboseSolution = options.verboseSolution
updataHeader = options.updataHeader
solutionFile = options.solutionFile
mrcSolutionFile = options.mrcSolutionFile
iniCenterOrientationMode = options.iniCenterOrientationMode
refCenterOrientationMode = options.refCenterOrientationMode
rawImages = []
if not mpi or (mpi and mpi.rank==0):
for imgfile in args[0:-1]:
imgnum = EMAN.fileCount(imgfile)[0]
for i in range(imgnum): rawImages.append((imgfile, i))
if mpi: rawImages = mpi.bcast(rawImages)
endNumOfRawImages = options.endNumOfRawImages
if endNumOfRawImages <=0 or endNumOfRawImages > len(rawImages):
endNumOfRawImages = len(rawImages)
numRawImages = endNumOfRawImages - startNumOfRawImages
if mpi:
ptclset = range(startNumOfRawImages + mpi.rank, endNumOfRawImages, mpi.size)
else:
ptclset = range(startNumOfRawImages, endNumOfRawImages)
solutions = []
rMask = options.rMask #mask size is given
if options.rMask <= 0 : rMask = refImageSizeY/2 #mask size = half image size
rMask1 = options.rMask1 #output tnf mask size is given
if options.rMask1 <= 0 : rMask1 = rMask #output tnf mask size = half image size
inputParm.rMask = rMask
#.........這裏部分代碼省略.........