3D data

[rajlakshmi-sawale]

Hi @chenhungling,
Does the GUI work on 3D data? I have 3D data and I'm getting this error when I try to load it:
Can we solve this?

(caiman) C:\Users\au711234\CaimanGUI\gui>python caiman_gui.py
Traceback (most recent call last):
  File "C:\Users\au711234\CaimanGUI\gui\caiman_gui.py", line 126, in <lambda>
    openHDF5.triggered.connect(lambda: self.load_data(click=True))
  File "C:\Users\au711234\CaimanGUI\gui\caiman_gui.py", line 243, in load_data
    img_components = [A[:,i].reshape(dims,order='F').toarray() for i in range(A.shape[1])]
  File "C:\Users\au711234\CaimanGUI\gui\caiman_gui.py", line 243, in <listcomp>
    img_components = [A[:,i].reshape(dims,order='F').toarray() for i in range(A.shape[1])]
  File "C:\ProgramData\Anaconda3\envs\caiman\lib\site-packages\scipy\sparse\_base.py", line 161, in reshape
    shape = check_shape(args, self.shape, allow_1d=is_array)
  File "C:\ProgramData\Anaconda3\envs\caiman\lib\site-packages\scipy\sparse\_sputils.py", line 362, in check_shape
    raise ValueError('matrix shape must be two-dimensional')
ValueError: matrix shape must be two-dimensional

[chenhungling]

Hi Rajlakshmi, Sorry that our GUI was not designed to take 3D data but rather focused on time series of single plane data. If you have only a few planes with no overlapping cells, you can always split the planes and treat them independently. Best regards, Hung-Ling

…

On Wed, Aug 14, 2024 at 4:02 PM Rajlakshmi Sawale ***@***.***> wrote: Hi @chenhungling <https://github.com/chenhungling>, Does the GUI work on 3D data? I have 3D data and I'm getting this error when I try to load it: Can we solve this? (caiman) C:\Users\au711234\CaimanGUI\gui>python caiman_gui.py Traceback (most recent call last): File "C:\Users\au711234\CaimanGUI\gui\caiman_gui.py", line 126, in <lambda> openHDF5.triggered.connect(lambda: self.load_data(click=True)) File "C:\Users\au711234\CaimanGUI\gui\caiman_gui.py", line 243, in load_data img_components = [A[:,i].reshape(dims,order='F').toarray() for i in range(A.shape[1])] File "C:\Users\au711234\CaimanGUI\gui\caiman_gui.py", line 243, in <listcomp> img_components = [A[:,i].reshape(dims,order='F').toarray() for i in range(A.shape[1])] File "C:\ProgramData\Anaconda3\envs\caiman\lib\site-packages\scipy\sparse\_base.py", line 161, in reshape shape = check_shape(args, self.shape, allow_1d=is_array) File "C:\ProgramData\Anaconda3\envs\caiman\lib\site-packages\scipy\sparse\_sputils.py", line 362, in check_shape raise ValueError('matrix shape must be two-dimensional') ValueError: matrix shape must be two-dimensional — Reply to this email directly, view it on GitHub <#1>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AUDKHPTCT3W6OUTOPGQL3P3ZRMFKRAVCNFSM6AAAAABMPZHPTCVHI2DSMVQWIX3LMV43ASLTON2WKOZSGQ3DKMJWGQYDKOI> . You are receiving this because you were mentioned.Message ID: ***@***.***>