def main(): if (len(sys.argv) > 1 and os.path.exists(sys.argv[1]) and os.path.isfile(sys.argv[1])): filename = sys.argv[1] else: filename = gui.get_path("*.csv",defaultFile="data.csv") commonPath = os.path.abspath(os.path.split(filename)[0]) measurementName = os.path.split(os.path.split(filename)[0])[1] outputFilename = commonPath + "/odmanalysis.csv" readerProcess, readerQueue = startReadAsync(filename) dataProcessor = ChunkedODMDataProcessor(commonPath) chunkWriter = ChunkWriter(outputFilename) while True: try: rawChunk = readerQueue.get(timeout=10) except: #done break rawChunk = rawChunk[rawChunk.intensityProfile.map(len) > 0] if len(rawChunk) is not 0: processedChunk = dataProcessor.processDataFrame(rawChunk) chunkWriter.writeDataFrame(processedChunk) readerProcess.join() #make plots df = odm.readAnalysisData(outputFilename) settings = odm.CurveFitSettings.loadFromFile(commonPath + '/odmSettings.ini') makeDisplacementPlots(df,commonPath,measurementName,settings.pxToNm)
def main(): if (len(sys.argv) > 1 and os.path.exists(sys.argv[1]) and os.path.isfile(sys.argv[1])): filename = sys.argv[1] else: filename = gui.get_path("*.csv",defaultFile="data.csv") commonPath = os.path.abspath(os.path.split(filename)[0]) measurementName = os.path.split(os.path.split(filename)[0])[1] settings = odm.CurveFitSettings.loadFromFileOrCreateDefault(commonPath + '/odmSettings.ini') df,movingPeakFitSettings,referencePeakFitSettings,measurementName = fitRawODMData(filename) settings = odm.CurveFitSettings.loadFromFileOrCreateDefault(commonPath + '/odmSettings.ini') plotKwargs = {'savePath' : commonPath, 'measurementName' : measurementName, 'nmPerPx' : settings.pxToNm} print "creating plots..." makeDisplacementPlots(df, **plotKwargs) makeIntensityProfilePlots(df, movingPeakFitSettings,referencePeakFitSettings, **plotKwargs) print "ALL DONE" plt.show()