With SIBT linear scanning the tile preview commonly contains duplicate tiles

SWC-Advanced-Microscopy / BakingTray

Serial-section automated anatomy extension for ScanImage

https://bakingtray.mouse.vision/

GNU Lesser General Public License v3.0

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With SIBT linear scanning the tile preview commonly contains duplicate tiles #20

Open raacampbell opened 7 years ago

raacampbell commented 7 years ago

Often the same tile is laid down two more more times on adjacent x/y positions. This hasn't been seen with resonant scanning ever. The actual data are not affected. Only the preview image looks wrong. This appears to be a bug in ScanImage that is causing the data not to update, but this isn't clear. duplicate

At the moment the preferred solution to this is to upgrade the rig (even if it's linear scanners) to an FPGA.

raacampbell commented 4 years ago

Vidrio can not replicate, so need to make a minimal test example. Steps to achieve:

[ ] Confirm these tiles are perfect duplicates. If so, we can easily write code to search for them.
[ ] Confirm whether this problem happens without fast-z
[ ] Can we just acquire noise and tile scan and find these events?
[ ] If above holds. Make a stripped down version of SIBT.tileAcqDone and see whether the problem can be replicated.

raacampbell commented 4 years ago

Add debugging code to optionally keep all tiles from the last section (70a67d8e0d7ac964aca177df53c3cef90260687d) and find duplicates in that cache (5b7b50012efbe8fa3eb150f485822c55e72d26b0)

raacampbell commented 4 years ago

I set up sample RC_LR_05_AutofindTest_03 to test the autoROI on NV and also look for duplicate tiles. There were no duplicates that I can see. This is surprising. It's 2 channels, 4.47 x 4.4, 2 optical planes. Nothing unusual.

raacampbell commented 3 years ago

This problem weirdly went away at some point and now there are no more known linear rigs.