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google / neuroglancer

WebGL-based viewer for volumetric data
Apache License 2.0
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`video_tool.py` problems with rendering on an HPC #598

Open hash-ir opened 1 month ago

hash-ir commented 1 month ago

Hi,

I am running a viewer locally on an HPC cluster and using the video tool to create a script. The script is created successfully however when I try to render with a web driver, I get the following error:

selenium.common.exceptions.SessionNotCreatedException: Message: session not created: Chrome failed to start: exited normally.
(session not created: DevToolsActivePort file doesn't exist)
(The process started from chrome location /u/hashirah/.cache/selenium/chrome/linux64/125.0.6422.141/chrome is no longer running, so ChromeDriver is assuming that Chrome has crashed.)

I tried rendering without a web-driver but it also has issues where 0 chunks are identified and the window is an empty neuroglancer viewer:

Open the following URLs to begin rendering
http://127.0.0.1:1337/v/8b760429ffc4419fb98ff0897ffd81e341958173/
2024-06-06T11:2614.962285 [0.000/    4] Requesting screenshot
2024-06-06T11:2621.058847 [0.000/    4] Screenshot in progress:      0/     0 chunks loaded (         0 bytes),   0 downloading
2024-06-06T11:2622.033892 [0.000/    4] Screenshot in progress:      0/     0 chunks loaded (         0 bytes),   0 downloading
2024-06-06T11:2623.038067 [0.000/    4] Screenshot in progress:      0/     0 chunks loaded (         0 bytes),   0 downloading

Here is the script which was created using the tool:

https://neuroglancer-demo.appspot.com#!%7B%22dimensions%22:%7B%22y%22:%5B9e-09,%22m%22%5D,%22x%22:%5B9e-09,%22m%22%5D,%22z%22:%5B2e-08,%22m%22%5D%7D,%22position%22:%5B5332.5,5456.5,2850.5%5D,%22crossSectionScale%22:1,%22projectionScale%22:16384,%22layers%22:%5B%7B%22type%22:%22image%22,%22source%22:%22python://volume/synem.e1571b6c6d771165b525f5d5fbaa7824b8e4c6ab%22,%22tab%22:%22source%22,%22name%22:%22img%22%7D,%7B%22type%22:%22segmentation%22,%22source%22:%22python://volume/synem.1dc92b93cd1f6f353519c1170492739c1ac73da6%22,%22tab%22:%22source%22,%22segments%22:%5B%5D,%22name%22:%22seg%22%7D%5D,%22layout%22:%224panel%22%7D
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https://neuroglancer-demo.appspot.com#!%7B%22dimensions%22:%7B%22y%22:%5B9e-09,%22m%22%5D,%22x%22:%5B9e-09,%22m%22%5D,%22z%22:%5B2e-08,%22m%22%5D%7D,%22position%22:%5B5332.5,5456.5,2850.5%5D,%22crossSectionScale%22:1,%22projectionScale%22:16384,%22layers%22:%5B%7B%22type%22:%22image%22,%22source%22:%22python://volume/synem.e1571b6c6d771165b525f5d5fbaa7824b8e4c6ab%22,%22tab%22:%22source%22,%22name%22:%22img%22%7D,%7B%22type%22:%22segmentation%22,%22source%22:%22python://volume/synem.1dc92b93cd1f6f353519c1170492739c1ac73da6%22,%22tab%22:%22source%22,%22segments%22:%5B%5D,%22name%22:%22seg%22%7D%5D,%22layout%22:%224panel%22%7D
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https://neuroglancer-demo.appspot.com#!%7B%22dimensions%22:%7B%22y%22:%5B9e-09,%22m%22%5D,%22x%22:%5B9e-09,%22m%22%5D,%22z%22:%5B2e-08,%22m%22%5D%7D,%22position%22:%5B5726.5,5312.5,2850.5%5D,%22crossSectionScale%22:1,%22projectionOrientation%22:%5B-0.24128201603889465,-0.4746597111225128,-0.009776276536285877,0.8463956117630005%5D,%22projectionScale%22:4934.765967969518,%22layers%22:%5B%7B%22type%22:%22image%22,%22source%22:%22python://volume/synem.e1571b6c6d771165b525f5d5fbaa7824b8e4c6ab%22,%22tab%22:%22source%22,%22name%22:%22img%22%7D,%7B%22type%22:%22segmentation%22,%22source%22:%22python://volume/synem.1dc92b93cd1f6f353519c1170492739c1ac73da6%22,%22tab%22:%22source%22,%22segments%22:%5B%5D,%22name%22:%22seg%22%7D%5D,%22layout%22:%22xy-3d%22%7D
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https://neuroglancer-demo.appspot.com#!%7B%22dimensions%22:%7B%22y%22:%5B9e-09,%22m%22%5D,%22x%22:%5B9e-09,%22m%22%5D,%22z%22:%5B2e-08,%22m%22%5D%7D,%22position%22:%5B5743.34423828125,5297.53759765625,2850.5%5D,%22crossSectionScale%22:0.301194211912202,%22projectionOrientation%22:%5B-0.24128201603889465,-0.4746597111225128,-0.009776276536285877,0.8463956117630005%5D,%22projectionScale%22:4934.765967969518,%22layers%22:%5B%7B%22type%22:%22image%22,%22source%22:%22python://volume/synem.e1571b6c6d771165b525f5d5fbaa7824b8e4c6ab%22,%22tab%22:%22source%22,%22name%22:%22img%22%7D,%7B%22type%22:%22segmentation%22,%22source%22:%22python://volume/synem.1dc92b93cd1f6f353519c1170492739c1ac73da6%22,%22tab%22:%22source%22,%22segments%22:%5B%5D,%22name%22:%22seg%22,%22visible%22:false%7D%5D,%22layout%22:%22xy-3d%22%7D
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https://neuroglancer-demo.appspot.com#!%7B%22dimensions%22:%7B%22y%22:%5B9e-09,%22m%22%5D,%22x%22:%5B9e-09,%22m%22%5D,%22z%22:%5B2e-08,%22m%22%5D%7D,%22position%22:%5B5445.384765625,5251.00439453125,2850.5%5D,%22crossSectionScale%22:0.9999999999999992,%22projectionOrientation%22:%5B-0.17828431725502014,-0.3193039000034332,-0.015502532944083214,0.9306016564369202%5D,%22projectionScale%22:29853.594425598087,%22layers%22:%5B%7B%22type%22:%22image%22,%22source%22:%22python://volume/synem.e1571b6c6d771165b525f5d5fbaa7824b8e4c6ab%22,%22tab%22:%22source%22,%22name%22:%22img%22,%22visible%22:false%7D,%7B%22type%22:%22segmentation%22,%22source%22:%22python://volume/synem.1dc92b93cd1f6f353519c1170492739c1ac73da6%22,%22tab%22:%22source%22,%22segments%22:%5B%5D,%22name%22:%22seg%22%7D%5D,%22layout%22:%223d%22%7D
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I was also wondering why the script had URLs with the prefix neuroglancer-demo.appspot.com when I launch the viewer locally and it should be localhost:1337?