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Custom Atlas ROI in CAT12 (r2470)

Computational Anatomy Toolbox (CAT12) is rapidly developed tool, so the post is based on r2470.

When use custom atlas segmentation in segmentation step, the csv should NOT provide as comma separated file. Although its .csv, the file should be separated with semicolon (;).


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ML-agents training error due to importlib-metadata

If the importlib-metadata version is not properly matched, the mlagents-learn will stop with below error. Downgrade the importlib-metadata.

  Version information:
  ml-agents: 0.29.0,
  ml-agents-envs: 0.29.0,
  Communicator API: 1.5.0,
  PyTorch: 1.7.0


AttributeError: 'str' object has no attribute '_key'

In above setting, version 4.4 works.

pip install importlib-metadata==4.4
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Resolve Bedpostx issue

If one previously established SGE engine environment for some other job, bedpostx_gpu will display error and stop.

exit: 412: Illegal number: -1
You will get an email at the end of the post-processing stage.

Of course the mail will never arrive.

Simple resolution. The error is due to inappropriate FSLPARALLEL setting.

unset SGE_ROOT

Than run bedpostx_gpu.

Again and always, thanks so much, Moises.

Using Google Coral in MacOS 10.13.5

Google announced that Coral TPU is now support Mac OS!

Unfortunately, there are several limitations. The official TF lite distribution only supports Mac OS >10.14.

However, the .whl file is just .zip file. so, Download the .whl with proper Python version, unzip and copy them to dist-packages folder just works.

After install edgetpu runtime file, the dylib path modification is required.

install_name_tool -change /opt/local/lib/libusb-1.0.0.dylib /usr/local/lib/libusb-1.0.0.dylib /usr/local/lib/libedgetpu.1.dylib

Also, the latest libusb-1.0.0 should be installed. Below error means libusb is too old to support USB 3.0. Just remove old libusb and install it with homebrew.

Incompatible library version: libedgetpu requires version 3.0.0 or later, but libusb-1.0.0.dylib provides version 2.0.0

Than Works like charm!

It’s really beneficial to test the TFlite model with edge TPU in development system.

Finally Intel OpenVino supports NCS2 in MacOS

From Intel OpenVino Version 2019R3, NCS2 is fully supported in MacOS.

The Official page mentioned the minimum requirement is 10.4.4, but the Installation and Compilation completed flawlessly in 10.3.6.

As expected, slight fluctuations in probability were observed.

To run examples, it is recommended to install OpenCV independently, instead of OpenCV-Core-Vino automatically installed with OpenVino installer. Some dylib needs via install_name_tool like below.

sudo install_name_tool -change @rpath/libmkl_tiny_tbb.dylib /opt/intel/openvino/deployment_tools/inference_engine/external/mkltiny_mac/lib/libmkl_tiny_tbb.dylib /opt/intel/openvino_2019.3.376/deployment_tools/inference_engine/lib/intel64/libMKLDNNPlugin.dylib


Also, the c++ error might be raised in OpenCV 4.1 homebrew environment. (Due to AVCaptureDeviceauthorization issue in <10.14 Mojave). Upgrade OpenCV to 4.2.1 resolves the issue.


API version ………… 2.1

Build ……………… 32974

Description ……. API

[ INFO ] Parsing input parameters

[ INFO ] Reading input

2020-01-13 01:34:57.003 interactive_face_detection_demo[97791:3322633] +[AVCaptureDevice authorizationStatusForMediaType:]: unrecognized selector sent to class 0x7fff821896a0

[ERROR:0] global /localdisk/jenkins/workspace/OpenCV/OpenVINO/build/opencv/modules/videoio/src/cap.cpp (193) open VIDEOIO(AVFOUNDATION): raised unknown C++ exception!

[ ERROR ] Cannot open input file or camera: cam


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