t_mmap_online = time() fname = save_tif_to_mmap_online( 'k31_20160104_MMA_150um_65mW_zoom2p2_00001_00001.tif', border_to_0=border_to_0, add_to_movie=add_to_movie) t_mmap_online_1 = time() print((t_mmap_online_1 - t_mmap_online)) #%% #Yr, dims, T = cm.load_memmap(fname) #d1, d2 = dims #images = np.reshape(Yr.T, [T] + list(dims), order='F') images = tifffile.TiffFile( 'k31_20160104_MMA_150um_65mW_zoom2p2_00001_00001.tif') t_mc_online = time() shifts, xcorrs, template = motion_correct_online(images, save_base_name=None, border_to_0=border_to_0, add_to_movie=add_to_movie) t_mc_online_1 = time() print((t_mc_online_1 - t_mc_online)) #%% fls = glob.glob('k*.tif') fls = fls[:3] t_mmap_mc_online = time() all_names, all_shifts, all_xcorrs, all_templates = motion_correct_online_multifile( fls, add_to_movie) t_mmap_mc_online_1 = time() print((t_mmap_mc_online_1 - t_mmap_mc_online)) #%% t_mmap_join = time() fname_new = cm.mmapping.save_memmap_join(all_names, base_name='Yr_MC_MF_',
def motion_correction_online(self,max_shift_w=25,max_shift_h=25,init_frames_template=100,show_movie=False,bilateral_blur=False,template=None,min_count=1000): return motion_correct_online(self,max_shift_w=max_shift_w,max_shift_h=max_shift_h,init_frames_template=init_frames_template,show_movie=show_movie,bilateral_blur=bilateral_blur,template=template,min_count=min_count)
name_new.sort() print(name_new) t_mmap_1 = time() print((t_mmap_1-t_mmap)) #%% t_mmap_online = time() fname = save_tif_to_mmap_online('k31_20160104_MMA_150um_65mW_zoom2p2_00001_00001.tif',border_to_0=border_to_0,add_to_movie=add_to_movie) t_mmap_online_1 = time() print((t_mmap_online_1-t_mmap_online)) #%% #Yr, dims, T = cm.load_memmap(fname) #d1, d2 = dims #images = np.reshape(Yr.T, [T] + list(dims), order='F') images = tifffile.TiffFile('k31_20160104_MMA_150um_65mW_zoom2p2_00001_00001.tif') t_mc_online = time() shifts,xcorrs,template = motion_correct_online(images, save_base_name=None,border_to_0=border_to_0,add_to_movie=add_to_movie) t_mc_online_1 = time() print((t_mc_online_1-t_mc_online)) #%% fls = glob.glob('k*.tif') fls=fls[:3] t_mmap_mc_online = time() all_names, all_shifts, all_xcorrs, all_templates = motion_correct_online_multifile(fls,add_to_movie) t_mmap_mc_online_1 = time() print((t_mmap_mc_online_1 - t_mmap_mc_online)) #%% t_mmap_join = time() fname_new = cm.mmapping.save_memmap_join(all_names, base_name= 'Yr_MC_MF_', n_chunks=100, dview=dview,async=False) t_mmap_join_1 = time() print((t_mmap_join_1 - t_mmap_join)) #%%