rahix/openflexure-microscope-server
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858 commits

Author SHA1 Message Date
jaknapper
143bbdfea1 Add URL to wiki if firmware out of date 2026-02-17 13:42:11 +00:00
Joe Knapper
79e8230ac5 Merge branch 'Extend-autofocus-in-scan' into 'v3' 
Increase dz range to 400 to 3000

Closes #675

See merge request openflexure/openflexure-microscope-server!478
 2026-02-16 17:11:03 +00:00
Joe Knapper
a027111022 Apply suggestions from code review of branch Extend-autofocus-in-scan 
Co-authored-by: Julian Stirling <julian@julianstirling.co.uk>
 2026-02-16 13:38:53 +00:00
Julian Stirling
015d6c5f03 Developer Mode set from environment variable 2026-02-15 17:11:56 +00:00
Julian Stirling
d4f26e8536 Fix static file check and associated tests 2026-02-15 16:03:06 +00:00
Antonio Anaya
e438b642bd ui_migration lint(fix): ruff format 2026-02-15 02:57:41 -06:00
Antonio Anaya
1b16917542 ui_migration lint(fix): ruff fix 2026-02-15 02:47:04 -06:00
Antonio Anaya
5a62b92f45 ui_migration fix(deps): --preliminary-- --python-- added developer options that add cors options to enable connecting ui from another IP 2026-02-13 19:24:06 -06:00
Joe Knapper
03a8e2ab79 Increase dz range to 500 to 3000 2026-02-13 16:40:56 +00:00
Joe Knapper
704fc5569f Merge branch 'flash-led-sim' into 'v3' 
Illumination Thing

See merge request openflexure/openflexure-microscope-server!468
 2026-02-12 16:37:53 +00:00
Joe Knapper
bb5cce3d4e Only generate frame if LED is on 2026-02-12 13:54:12 +00:00
Joe Knapper
fdf33ce4a8 Apply suggestions from code review of branch flash-led-sim 
Co-authored-by: Julian Stirling <julian@julianstirling.co.uk>
 2026-02-12 13:48:12 +00:00
Julian Stirling
18477a663d Define flash in illumination base class 2026-02-12 13:40:20 +00:00
Julian Stirling
2a38375040 Consolidate moves_between and total_moves_between into 1 function with switchable metrics 2026-02-12 11:00:03 +00:00
jaknapper
8081dc9426 Split moves_between to support Manhattan or Chebyshev distance 2026-02-11 15:13:47 +00:00
Julian Stirling
511b37176e Add clarifying docstring 2026-02-11 11:03:08 +00:00
Julian Stirling
5d5bae7f79 Apply suggestions from code review of branch More-workflow-layers 
Co-authored-by: Joe Knapper <joe.knapper@glasgow.ac.uk>
 2026-02-11 11:03:08 +00:00
Julian Stirling
af5c8f01da Update scan_planner module docstring 2026-02-11 11:03:08 +00:00
Julian Stirling
351a66a42c Cleaning up workflows and fixing tests. 2026-02-11 11:03:08 +00:00
Julian Stirling
86fa48fb9b Update select_nearby_focus_site to use moves between 2026-02-11 11:03:07 +00:00
Julian Stirling
9e477a26d8 Simplify planners a little to consolidate snake and raster 2026-02-11 10:39:30 +00:00
Joe Knapper
16458db85b Fix simulated imports 2026-02-11 10:26:04 +00:00
Joe Knapper
676d34842a Apply suggestions from code review of branch flash-led-sim 
Co-authored-by: Julian Stirling <julian@julianstirling.co.uk>
 2026-02-11 10:19:19 +00:00
Joe Knapper
4d788a2817 Remove flash from stage baseclass, add to sim config 2026-02-10 22:19:49 +00:00
jaknapper
5682b4d28d Illumination Things for sangaboard and simulator 2026-02-10 18:42:59 +00:00
Joe Knapper
8435f6ae98 Move illumination to new IlluminationThing 2026-02-10 18:06:21 +00:00
Julian Stirling
1221b6ca02 Apply suggestions from code review of branch More-workflow-layers 
Co-authored-by: Joe Knapper <joe.knapper@glasgow.ac.uk>
 2026-02-10 16:40:11 +00:00
Julian Stirling
0e5f9f46ca Fix docstring error 2026-02-10 16:37:32 +00:00
Julian Stirling
15798d9b7d Further layering of the classes for scan workflows 2026-02-10 16:02:18 +00:00
Joe Knapper
1de4366df7 Flash LED endpoint in simulator for parity 2026-02-10 15:59:18 +00:00
jaknapper
1f01717a1b Fix UI workflow test as order changed 2026-02-10 14:24:41 +00:00
jaknapper
f1845c3039 RectangleWorkflow as a baseclass 2026-02-10 14:05:38 +00:00
jaknapper
6294cde471 Fully subclass Rectangle basescanner for raster and snake 2026-02-09 19:35:19 +00:00
Joe Knapper
1a0dd71f30 Intermediate level RectangleScan class for all three scanners 2026-02-09 18:48:49 +00:00
Joe Knapper
3beb8e1147 Auto-populate workflow dropdown 2026-02-09 18:48:49 +00:00
Joe Knapper
0177596fb6 Add raster scan, with generic typing to allow subclassed settings 2026-02-09 18:48:49 +00:00
Joe Knapper
eb88e1f1c0 Apply suggestions from code review of branch snake-scan 
Co-authored-by: Julian Stirling <julian@julianstirling.co.uk>
 2026-02-09 16:05:49 +00:00
Joe Knapper
1c17b27c05 Apply suggestions from code review of branch snake-scan 
Co-authored-by: Julian Stirling <julian@julianstirling.co.uk>
 2026-02-09 16:05:22 +00:00
Joe Knapper
7413aa57f8 Docstring and typehints suggestions from @julianstirling 2026-02-09 15:08:53 +00:00
Joe Knapper
f230eef2dc New scan workflow for snake scans, move next pos into scan baseclass 
Update tests that were testing wrong method, update all to new select_nearby_focus_site
 2026-02-09 13:19:10 +00:00
Joe Knapper
e59d5e82d8 mypy fix for coords list 2026-02-09 13:09:09 +00:00
Joe Knapper
b4957e0420 SnakeScan as a scan planner 2026-02-09 13:09:07 +00:00
Julian Stirling
8f30f08bdf Apply suggestions from code review of branch scan-workflows 
Co-authored-by: Joe Knapper <joe.knapper@glasgow.ac.uk>
 2026-02-06 13:28:30 +00:00
Julian Stirling
b26dda60a4 More tests and assoicated bugfixes 2026-01-18 23:19:44 +01:00
Julian Stirling
eb93342d9f Add test of logic for selecting worflow. 2026-01-18 14:23:18 +00:00
Julian Stirling
b22fcf4b88 Complete testing of HistoScanWorkflow 2026-01-16 18:16:50 +00:00
Julian Stirling
1bc6b9e0c4 Add a number of extra tests to ScanWorkflows 2026-01-16 17:02:07 +00:00
Julian Stirling
57b20782a0 Further fixes after introducing scan workflow selection 2026-01-16 13:04:23 +00:00
Julian Stirling
21b779a4a5 Dynamic UI for scan workflows 2026-01-16 12:18:54 +00:00
Julian Stirling
2a3a54b936 Get unit tests passing with Scan Workflows 2026-01-16 09:28:15 +00:00