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Author SHA1 Message Date
Julian Stirling
aa704239ed Modify background detect check to check for all squares having no std. As LUV appears insensitive to low colour noise 2025-12-02 09:57:24 +00:00
Julian Stirling
3ebc4578d3 Show which background detector is active in GUI 2025-12-02 09:57:24 +00:00
Julian Stirling
1f2099e46f Add minimum standard deviations for ColourChannelDetectLUV 2025-12-02 09:57:24 +00:00
Julian Stirling
a2a6d870e2 Make turing point check in z-stack optional 2025-12-02 09:57:24 +00:00
Julian Stirling
873968877b Log warning rather than error if the named background detector doesn't exist to prevent not booting if detectors change 2025-12-02 09:57:24 +00:00
Julian Stirling
79c94c96ed Set channel minima and error if any LUV channels have std==0 2025-12-02 09:57:24 +00:00
Julian Stirling
38b8c5baa5 Apply suggestions from code review of branch scanning-stability 
Co-authored-by: Joe Knapper <joe.knapper@glasgow.ac.uk>
 2025-12-02 09:57:24 +00:00
Julian Stirling
23f87869ac Add a new background detector based on an 8x8 grid 2025-12-02 09:57:24 +00:00
Julian Stirling
cf92d4f3ac Make autofocus considerably stricter, forcing a parabolic fit, and only one turning point 
Background can still pass this much stricter check
 2025-12-02 09:57:24 +00:00
Julian Stirling
dabb195b08 Ensure smart stack exits and saves on failure only if check background is false 2025-12-02 09:57:24 +00:00
Julian Stirling
d3bd921db2 Merge branch 'visit-secondary-locations-first' into 'v3' 
Visit secondary locations first

See merge request openflexure/openflexure-microscope-server!444
 2025-12-01 16:31:24 +00:00
Julian Stirling
a5d5ba4af8 Update scan planner test pickles 2025-11-28 12:00:35 +00:00
Julian Stirling
dfe7fb6c42 Stop scan planner plots erroring if there are no secondary locations 2025-11-28 12:00:35 +00:00
Julian Stirling
90be139575 Update scan planners so secondary locations are imaged first and don't affect later planning 2025-11-28 09:53:24 +00:00
Julian Stirling
cd53024c4f Update the scan test helpers so it is easier to save and plot 2025-11-28 09:52:09 +00:00
Joe Knapper
23989977c2 Merge branch 'manual-config' into 'v3' 
Configuration for manual microscope

See merge request openflexure/openflexure-microscope-server!439
 2025-11-13 14:42:29 +00:00
Julian Stirling
11e9374dfa Merge branch 'consolidate-action-button' into 'v3' 
Consolidate action buton to just a button

Closes #535

See merge request openflexure/openflexure-microscope-server!437
 2025-11-13 12:12:31 +00:00
Julian Stirling
fe77908253 Make the findOngoingActions function plural to match what happens 2025-11-13 11:51:03 +00:00
Julian Stirling
8333165307 Merge branch '569-release-checklist' into 'v3' 
Resolve "Release Checklist"

Closes #569

See merge request openflexure/openflexure-microscope-server!440
 2025-11-12 16:10:30 +00:00
Beth Probert
7df1fea643 Fix typo 2025-11-12 15:32:18 +00:00
Beth Probert
560f863c47 Apply suggestions from code review of branch 569-release-checklist 
Co-authored-by: Julian Stirling <julian@julianstirling.co.uk>
 2025-11-12 15:29:15 +00:00
Beth Probert
1311cc103e Responding to comment on branching. 2025-11-12 11:27:02 +00:00
Beth Probert
f128caedff Apply suggestions from code review of branch 569-release-checklist 
Co-authored-by: Julian Stirling <julian@julianstirling.co.uk>
 2025-11-12 11:10:44 +00:00
Julian Stirling
f3c79b746f Fix RGB vs BGR issue for opencv camera 2025-11-11 18:12:37 +00:00
Julian Stirling
abb2698687 Add config json for manual microscope 2025-11-11 18:12:37 +00:00
Julian Stirling
3ecc41720d Merge branch 'recentre-with-rom-methods' into 'v3' 
Recentre using RangeOfMotionThing methods

Closes #499 and #573

See merge request openflexure/openflexure-microscope-server!429
 2025-11-11 17:49:08 +00:00
Julian Stirling
614fd8b9e9 Apply suggestions from code review of branch recentre-with-rom-methods 
Co-authored-by: Richard Bowman <richard.bowman@cantab.net>
 2025-11-11 17:15:20 +00:00
Julian Stirling
b0b755f19b Update unit tests for algorithmic change to recentre 2025-11-11 17:13:52 +00:00
Julian Stirling
2937010e95 Move progress bar into the action button to stop components jumping 2025-11-11 14:41:24 +00:00
Julian Stirling
8b785823ab Fix end of action behaviours and looging errors 2025-11-11 14:41:24 +00:00
Julian Stirling
dd0a57520b Action button uses mixins for invoking and polling actions 2025-11-11 14:41:24 +00:00
Julian Stirling
4910bef717 Split the action status modal from the action button 2025-11-11 14:41:24 +00:00
Julian Stirling
5074f75442 Merge branch 'fewer-ui-assumptions' into 'v3' 
UI customises to available Things

Closes #510 and #385

See merge request openflexure/openflexure-microscope-server!435
 2025-11-11 14:36:22 +00:00
Julian Stirling
ed9b8ff01d Adjust algorithm to start checks for centre after first 5 mendium sized moves & improve logging. 2025-11-11 12:51:04 +00:00
Julian Stirling
b8742b449c Apply suggestions from code review of branch recentre-with-rom-methods 
Co-authored-by: Joe Knapper <joe.knapper@glasgow.ac.uk>
 2025-11-11 12:37:09 +00:00
Julian Stirling
bb703ab2b1 Merge branch 'temperature-ccm' into 'v3' 
Ship our own default tuning files

Closes #427 and #565

See merge request openflexure/openflexure-microscope-server!410
 2025-11-11 12:04:07 +00:00
Julian Stirling
7354f09319 Update picamera coverage info 2025-11-11 11:29:49 +00:00
Julian Stirling
8a4e6390c7 Apply suggestions from code review of branch temperature-ccm 
Co-authored-by: Joe Knapper <joe.knapper@glasgow.ac.uk>
 2025-11-11 11:20:08 +00:00
Julian Stirling
d0d30222b4 Update sensor mode picamera test to ensure that camera tests don't use saved settings 2025-11-11 11:20:08 +00:00
Julian Stirling
5c56c1e851 Apply suggestions from code review of branch temperature-ccm 
Co-authored-by: Richard Bowman <richard.bowman@cantab.net>
 2025-11-11 11:20:08 +00:00
Julian Stirling
f432247446 Fix typos during refactor caught by CI 2025-11-11 11:20:08 +00:00
Julian Stirling
982c55905c Update default exposure in picam and defaul LST values in tuning files, and set default colour gains from LST 2025-11-11 11:20:08 +00:00
Julian Stirling
c0362ee8dd Make picamera tests compatible with updates 2025-11-11 11:20:08 +00:00
Julian Stirling
13d3871059 Add testing for loading the tuning files in the normal test suite now not tied to picamera 2025-11-11 11:20:08 +00:00
Julian Stirling
6763845e38 Let the tuning file utils handle lens shading table manipulation. 2025-11-11 11:20:08 +00:00
Julian Stirling
ec16cc17f8 Update tuning file utils for our own tuning files. 2025-11-11 11:20:07 +00:00
Julian Stirling
f74a51866a Adjust tuning files to have adaptive algorithms turned off. 2025-11-11 11:20:07 +00:00
Julian Stirling
01a883e95c Reset CCM resets to the CCM in the default tuning file. 2025-11-11 11:20:07 +00:00
Julian Stirling
cec6f4af73 Load tuning files in without using Picamera2 2025-11-11 11:20:07 +00:00
Julian Stirling
a2900b0c16 Move tuning files into vc4 folder in case we support pisp (Pi5) later and update README 2025-11-11 11:20:07 +00:00