如何解决Trackpy tp.batch 有效但 annotate.3d 给出与图像尺寸相关的属性错误?
我有一个来自我在斐济创建的视频的 tiff 堆栈。我想跟踪粒子并随着时间跟踪它们的强度。
我遵循了 Trackpy 的演练,它似乎适用于 tp.batch,但是当我尝试使用 annotate 3d 来可视化结果时,出现错误:
if image.ndim != 3 and not (image.ndim == 4 and image.shape[-1] in (3,4)):
File "PATH",line 256,in __getattr__
raise AttributeError
AttributeError
这里是 tp.batch 和 head() 的结果
Frame 5: 1 features
Frame 6: 1 features
Frame 7: 1 features
Frame 8: 1 features
Frame 9: 1 features
Frame 10: 1 features
Frame 11: 2 features
Frame 12: 2 features
Frame 13: 2 features
Frame 14: 2 features
Out[77]:
y x mass ... ep_y ep_x frame
0 9.478312 642.114524 11851.919420 ... 0.021276 0.085622 5
1 9.298654 608.647362 10689.680487 ... 0.024296 0.097777 6
2 9.034290 575.615509 10385.377583 ... 0.025193 0.101387 7
3 9.060161 541.555573 10356.535314 ... 0.025626 0.103128 8
4 8.994890 507.360459 9833.859577 ... 0.029229 0.117628 9
这里是来自斐济的tiff信息
Title: stack4.tif
Width: 1330 pixels
Height: 24 pixels
Depth: 301 pixels
Size: 9.2MB
Voxel size: 1x1x1 pixel^3
ID: -4
Bits per pixel: 8 (grayscale LUT)
display range: 0-255
Frame: 1/301 (slice:600)
Frame rate: 5.88235 fps
Frame interval: 0.01700 sec
No threshold
ScaletoFit: false
Uncalibrated
Path: PATH/stack4.tif
Screen location: 100,245 (1440x900)
SetMenuBarCount: 5 (0ms)
Coordinate origin: 0,0
No properties
No overlay
No selection
这是我的代码
import pims
import trackpy as tp
frames=pims.open('PATH/stack4.tif');
plt.imshow(frames[10]);
plt.show()
f = tp.locate(frames[10],(11,39),threshold=75,minmass=100,separation=5);
tp.annotate(f,frames[10]);
f = tp.batch(frames[5:15],separation=5);
f.head()
tp.annotate3d(f,frames[5:15]);
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