#FILE_Cy5_BS_RE_bit = FILE_Cy5_BS+'_RE_bit' a060_RunSegmentation.main( FILE_GFP_BS_CV_RE_bit, FARSIGHT_BIN_EXE, optionsSegm, runSegm_log ) shutil.rmtree(LOCAL_DATASET_PATH_SEGM_TEMP) elapsed_1 = (time.clock() - start_1) print "\t\tTime_1: "+str(elapsed_1) if runSegm_db == 1: start_2 = time.clock() runSegm_db_log = LOCAL_DATASET_PATH_LOG +'/runSegm_db.log' TEMP_FILE = open(runSegm_db_log, 'w') TEMP_FILE.write('SegmentLog\n') TEMP_FILE.close() a021_Project.main( LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_GFP_BS_CV_RE_bit+'_soma', runSegm_db_log, 'ORG_RES_BIN' ) a021_Project.main( LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_GFP_BS_CV_RE_bit+'_label', runSegm_db_log, 'ORG_RES_BIN' ) a023_ProjectRGB.main( LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_GFP_BS_CV_RE_bit, FILE_GFP_BS_CV_RE_bit+'_soma', '_GFP_SOMA_', runSegm_db_log ) a023_ProjectRGB.main( LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_DAP_BS_RE_bit, FILE_GFP_BS_CV_RE_bit+'_label', '_DAPI_LABEL_', runSegm_db_log ) elapsed_2 = (time.clock() - start_2) print "\t\tTime_2: "+str(elapsed_2) print "# ---------------------------------------------------------------------------------------------------------------------------------------" print "# Run Tracing: "+DATA_FOLDER print "# ---------------------------------------------------------------------------------------------------------------------------------------" print "# ---------------------------------------------------------------------------------------------------------------------------------------" print "# Move Files: "+DATA_FOLDER print "# ---------------------------------------------------------------------------------------------------------------------------------------"
runSegm_db_log = LOCAL_DATASET_PATH_LOG + '/runSegm_db.log' TEMP_FILE = open(runSegm_db_log, 'w') TEMP_FILE.write('SegmentLog\n') TEMP_FILE.close() a021_Project.main(LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_GFP_BS_CV_RE_bit + '_soma', runSegm_db_log, 'ORG_RES_BIN') a021_Project.main(LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_GFP_BS_CV_RE_bit + '_label', runSegm_db_log, 'ORG_RES_BIN') a023_ProjectRGB.main(LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_GFP_BS_CV_RE_bit, FILE_GFP_BS_CV_RE_bit + '_soma', '_GFP_SOMA_', runSegm_db_log) a023_ProjectRGB.main(LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_DAP_BS_RE_bit, FILE_GFP_BS_CV_RE_bit + '_label', '_DAPI_LABEL_', runSegm_db_log) elapsed_2 = (time.clock() - start_2) print "\t\tTime_2: " + str(elapsed_2) print "# ---------------------------------------------------------------------------------------------------------------------------------------" print "# Run Tracing: " + DATA_FOLDER print "# ---------------------------------------------------------------------------------------------------------------------------------------" print "# ---------------------------------------------------------------------------------------------------------------------------------------" print "# Move Files: " + DATA_FOLDER
"TIFF", ) a021_Project.main( LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_GFP_BS_CV_RE_bit + "_label", runSegm_db_log, "ORG_RES_BIN_HISTO", "TIFF", ) a023_ProjectRGB.main( LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_GFP_BS_CV_RE_bit, FILE_GFP_BS_CV_RE_bit + "_soma", "_GFP_SOMA_", runSegm_db_log, ) a023_ProjectRGB.main( LOCAL_DATASET_PATH_LOG, FARSIGHT_BIN_EXE, LOCAL_DATASET_PATH_SEGM_DEBUG, FILE_DAP_BS_RE_bit, FILE_GFP_BS_CV_RE_bit + "_label", "_DAPI_LABEL_", runSegm_db_log, ) a023_ProjectRGB.main( LOCAL_DATASET_PATH_LOG,