sct_check_dependencies
--
Spinal Cord Toolbox (4.2.1)
SCT info:
- version: 4.2.1
- path: /home/sct/sct_4.2.1
OS: linux (Linux-4.9.184-linuxkit-x86_64-with-debian-buster-sid)
CPU cores: Available: 4, Used by SCT: 4
RAM: MemTotal: 4042196 kB
total used free shared buff/cache available
Mem: 3947 382 464 0 3100 3281
Swap: 1023 0 1023
Check Python executable.............................[OK]
Using bundled python 3.6.10 |Anaconda, Inc.| (default, Jan 7 2020, 21:14:29)
[GCC 7.3.0] at /home/sct/sct_4.2.1/python/envs/venv_sct/bin/python
Check if data are installed.........................[OK]
Check if numpy is installed.........................[OK] (1.17.4)
Check if cryptography is installed..................[OK] (2.8)
Check if dipy is installed..........................[OK] (1.0.0)
Check if futures is installed.......................[OK]
Check if h5py is installed..........................[OK] (2.10.0)
Check if Keras is installed.........................[OK] (2.3.1)
Check if matplotlib is installed....................[OK] (3.1.2)
Check if nibabel is installed.......................[OK] (3.0.0)
Check if pandas is installed........................[OK] (0.25.3)
Check if psutil is installed........................[OK] (5.6.7)
Check if pyqt5 (5.11.3) is installed................[OK]
Check if pytest is installed........................[OK] (5.3.2)
Check if pytest-cov is installed....................[OK] (2.8.1)
Check if raven is installed.........................[OK]
Check if requests is installed......................[OK] (2.22.0)
Check if scipy is installed.........................[OK] (1.4.0)
Check if scikit-image is installed..................[OK] (0.16.2)
Check if scikit-learn is installed..................[OK] (0.22)
Check if tensorflow is installed....................[OK] (2.0.0)
Check if xlrd is installed..........................[OK] (1.2.0)
Check if xlutils is installed.......................[OK]
Check if xlwt is installed..........................[OK] (1.3.0)
Check if tqdm is installed..........................[OK] (4.40.2)
Check if transforms3d is installed..................[OK] (0.3.1)
Check if urllib3[secure] is installed...............[OK] (1.25.7)
Check if spinalcordtoolbox is installed.............[OK]
Check ANTs compatibility with OS ...................[OK]
Check PropSeg compatibility with OS ................[OK]
Check if DISPLAY variable is set....................[OK]
Check if figure can be opened with PyQt.............QStandardPaths: XDG_RUNTIME_DIR not set, defaulting to '/tmp/runtime-sct'
libGL error: No matching fbConfigs or visuals found
libGL error: failed to load driver: swrast
[OK]
When trying to open fsleyes
sct@aec4bf3dc413:~$ fsleyes
(fsleyes:5057): Gdk-ERROR **: 18:19:42.709: The program 'fsleyes' received an X Window System error.
This probably reflects a bug in the program.
The error was 'GLXBadContext'.
(Details: serial 391 error_code 160 request_code 149 (GLX) minor_code 6)
(Note to programmers: normally, X errors are reported asynchronously;
that is, you will receive the error a while after causing it.
To debug your program, run it with the GDK_SYNCHRONIZE environment
variable to change this behavior. You can then get a meaningful
backtrace from your debugger if you break on the gdk_x_error() function.)
Trace/breakpoint trap
I did a pull of the docker neuropoly/sct:sct-v4.2.1-official
When running sct_check_dependencies:
When trying to open fsleyes