Hello,
I am running SCT from my personal computer, Windows SO, with Ubuntu 20.04 LTS.
I tried to run sct_label_utils and this happens
sct_label_utils -i n4_CNS_001_0_T1w.nii -create-viewer 3 -o c3label.nii.gz
qt.qpa.screen: QXcbConnection: Could not connect to display Could not connect to any X display.
sct_check_dependencies gives me
/mnt/Aran/SC_Segmentations$ sct_check_dependencies
--
Spinal Cord Toolbox (5.0.1)
sct_check_dependencies
--
SCT info:
- version: 5.0.1
- path: /home/aran/sct_5.0.1
OS: linux (Linux-4.4.0-19041-Microsoft-x86_64-with-debian-bullseye-sid)
CPU cores: Available: 8, Used by ITK functions: 8
RAM: Total: 16270MB, Used: 8285MB, Available: 7944MB
Check Python executable.............................[OK]
Using bundled python 3.6.12 |Anaconda, Inc.| (default, Sep 8 2020, 23:10:56)
[GCC 7.3.0] at /home/aran/sct_5.0.1/python/envs/venv_sct/bin/python
Check if data are installed.........................[OK]
Check if colored is installed.......................[OK] (1.4.2)
Check if dipy is installed..........................[OK] (1.3.0)
Check if futures is installed.......................[OK]
Check if h5py is installed..........................[OK] (2.10.0)
Check if ivadomed (2.4.0) is installed..............[OK] (2.4.0)
Check if Keras (2.1.5) is installed.................[OK] (2.1.5)
Check if matplotlib is installed....................[OK] (3.3.3)
Check if nibabel is installed.......................[OK] (3.2.0)
Check if numpy is installed.........................[OK] (1.19.4)
Check if onnxruntime (1.4.0) is installed...........[OK] (1.4.0)
Check if pandas is installed........................[OK] (1.1.4)
Check if psutil is installed........................[OK] (5.7.3)
Check if pyqt5 (5.11.3) is installed................[OK] (5.11.3)
Check if pytest is installed........................[OK] (6.1.2)
Check if pytest-cov is installed....................[OK] (__version__ = '2.10.1')
Check if raven is installed.........................[OK]
Check if requests is installed......................[OK] (2.25.0)
Check if requirements-parser is installed...........[OK] (0.2.0)
Check if scipy is installed.........................[OK] (1.5.4)
Check if scikit-image is installed..................[OK] (0.17.2)
Check if scikit-learn is installed..................[OK] (0.23.2)
Check if tensorflow (1.5.0) is installed............[OK] (1.5.0)
Check if torch (1.5.0+cpu) is installed.............[OK] (1.5.0+cpu)
Check if torchvision (0.6.0+cpu) is installed.......[OK] (0.6.0+cpu)
Check if xlwt is installed..........................[OK] (1.3.0)
Check if tqdm is installed..........................[OK] (4.51.0)
Check if transforms3d is installed..................[OK] (0.3.1)
Check if urllib3 is installed.......................[OK] (1.26.2)
Check if pytest_console_scripts is installed........[OK]
Check if pytest-xdist is installed..................[OK] (2.1.0)
Check if spinalcordtoolbox is installed.............[OK]
Check ANTs compatibility with OS ...................[OK]
Check PropSeg compatibility with OS ................[OK]
Check if DISPLAY variable is set....................[FAIL]
I noticed the same problem in another thread and you were discussing it here also but I don’t know whether you found a solution!
Thanks
Aran