Julian Stirling
e4cfcc76a7
Add some extra rules to ruff, also add a more complete ruff config that fails
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Over time we can enable more rules for `ruff check`
2025-04-11 11:56:55 +01:00
Julian Stirling
5ab0a62964
Merge branch 'refactor-scanning' into 'v3'
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Refactor scanning
See merge request openflexure/openflexure-microscope-server!240
2025-04-10 22:05:40 +00:00
Julian Stirling
b7c472bb24
fix comment on number of zeros padding the scan name
2025-04-10 22:39:22 +01:00
Julian Stirling
31c768c12a
Move @_scan_running decorator out of class and tidy as suggested in review
2025-04-10 22:14:56 +01:00
Julian Stirling
e030eb576b
Add @scan_running decorator for scans to try to access to the scan logger for methods not called by the scan
2025-04-10 17:52:12 +01:00
Julian Stirling
26e265f026
Fixes from review (mostly spellings)
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Co authored by:
* Joe Knapper <jaknapper@hotmail.com>
* Beth Probert <beth_probert@outlook.com>
2025-04-10 16:35:49 +00:00
Julian Stirling
840c527cc2
Remove unused Stitching Thing
2025-04-10 13:53:51 +01:00
Julian Stirling
a5d55c95b8
Further tidying of scan directory variables
2025-04-10 13:24:11 +01:00
Julian Stirling
90cfce146d
Fix default scan name
2025-04-10 11:46:16 +01:00
Julian Stirling
040373ef88
Run check background aonly fter scan variables are stored
2025-04-10 11:45:57 +01:00
Julian Stirling
83d2930d1f
Fix capture error handing
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The error handling for capture needs to still send the aquired event
or it will lock forever. On getting the errors to work there
were some other minor issues in how the errors were called.
2025-04-09 23:52:47 +01:00
Julian Stirling
70e7a21a29
Starting to refactor smart scan to rely on class variables
2025-04-09 22:55:35 +01:00
Julian Stirling
ff1184d453
Handle errors in capture thread
2025-04-09 22:45:18 +01:00
Julian Stirling
5dd23f6ef4
Merge branch 'scanning-cleanup' into 'v3'
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Scanning cleanup
See merge request openflexure/openflexure-microscope-server!239
2025-04-09 17:13:59 +00:00
Joe Knapper
1d5d67f35a
Split out background detect into a new file
2025-04-09 17:25:19 +01:00
Joe Knapper
f4db9b6e52
Removed commented out code and unused functions
2025-04-09 15:32:13 +01:00
jaknapper
a5d1f1e965
Removed commented out code
2025-04-09 15:11:26 +01:00
jaknapper
e28a160b22
Ruff formatting adding commas
2025-04-09 14:59:20 +01:00
jaknapper
8d14aee27c
Breaking out capture and save code into three seperate methods
2025-04-09 13:20:06 +01:00
Joe Knapper
6ec7487001
Merge branch 'inverse_colours' into 'v3'
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Inverse colours
See merge request openflexure/openflexure-microscope-server!236
2025-04-09 11:08:59 +00:00
jaknapper
9c2ab977c5
Removed imports and variable to pass Ruff linting
2025-04-08 19:07:23 +01:00
jaknapper
52532a90d7
More spacing below buttons
2025-04-08 18:41:11 +01:00
jaknapper
4fa2813e6a
More spacing and nicer dark mode colours
2025-04-08 18:30:40 +01:00
jaknapper
574aa1c6c0
Only grab a JPEG from the stream to get scanning working
2025-04-08 17:52:55 +01:00
Joe Knapper
d4247235e3
Merge branch 'csm-return-to-start' into 'v3'
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CSM always returns to start on error
See merge request openflexure/openflexure-microscope-server!227
2025-04-08 12:49:38 +00:00
Joe Knapper
bf82f37c47
Dependency bump for camera_stage_mapping to 0.1.8
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Returns the errors we expect
2025-04-08 12:09:15 +00:00
Joe Knapper
e4ef8b2717
Merge branch 'consistent-logging' into 'v3'
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Stop uvicorn.run disabling existing loggers
Closes #284
See merge request openflexure/openflexure-microscope-server!228
2025-04-08 11:31:33 +00:00
Joe Knapper
2cffe21727
Merge branch 'background-UV' into 'v3'
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Use the UV channels only to determine if an area is background or sample
Closes #300
See merge request openflexure/openflexure-microscope-server!211
2025-04-08 10:30:17 +00:00
Julian Stirling
a4390255db
Merge branch 'reorder_tabs' into 'v3'
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Reorder tabs
See merge request openflexure/openflexure-microscope-server!231
2025-04-08 10:27:18 +00:00
jaknapper
b340da488e
Use the UV channels only to determine if an area is background or sample
2025-04-08 11:14:17 +01:00
Julian Stirling
3dab8f09a4
Merge branch 'purge-windows-line-endings' into 'v3'
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Purge all windows line endings and add check to formatter.
Closes #317
See merge request openflexure/openflexure-microscope-server!232
2025-04-08 10:07:14 +00:00
Julian Stirling
1493f51212
Purge all windows line endings and add check to formatter.
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Also changes python version in pyproject.toml as it is incorrect
2025-04-08 10:51:26 +01:00
Julian Stirling
3a47151694
Serve logfile and logs for UI seperately
2025-04-07 23:45:19 +01:00
Julian Stirling
70d9e2f758
Add custom log handler for sending logs to UI
2025-04-07 23:16:00 +01:00
jaknapper
421d4a5f10
Spaces in tab names, more space, centred
2025-04-07 18:54:30 +01:00
jaknapper
3e82286245
Reorder GUI tabs to match the order of use
2025-04-07 18:18:16 +01:00
jaknapper
33c74741fe
Fixed import and re-raise cancelled error
2025-04-07 15:46:20 +01:00
Joe Knapper
a506625e40
Treat cancellation and other errors differently
2025-04-07 14:22:43 +01:00
Joe Knapper
9995e5b3bb
Import custom Mapping error from camera_stage_mapping
2025-04-07 14:18:07 +01:00
Julian Stirling
dd0b30df51
Stop uvicorn.run disabling existing loggers
2025-04-06 15:26:39 +01:00
jaknapper
67443ff939
Capture ValueErrors, which covers most CSM errors, not all Exceptions
2025-04-03 13:52:04 +01:00
jaknapper
46d513d9e6
Catch cancelled and other errors in single line
2025-04-02 18:25:35 +01:00
Julian Stirling
26d488e75f
Merge branch 'exposure-time-name' into 'v3'
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Rename exposure (with limit)
See merge request openflexure/openflexure-microscope-server!225
2025-04-02 17:09:26 +00:00
Joe Knapper
79b396a66f
CSM always returns to start on error
2025-04-02 17:54:12 +01:00
Julian Stirling
550c977f59
Merge branch 'split-ruff-ci' into 'v3'
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Split up ruff format and lint
See merge request openflexure/openflexure-microscope-server!226
2025-04-02 13:41:35 +00:00
Julian Stirling
32f2a7ce70
Fix spurious line endings, don't allow ruff-format to fail anymore
2025-04-02 14:25:22 +01:00
Julian Stirling
928d5ef300
Try pinning pydantic version as server now fails tests with error
2025-04-02 14:05:38 +01:00
Julian Stirling
336b504377
Split up ruff format and lint allowing format to fail
2025-04-02 13:39:12 +01:00
jaknapper
01d906e46a
Rename exposure (with limit)
2025-04-02 13:02:01 +01:00
Julian Stirling
9fb417e4e6
Edit v3 branch readme as we make it the Default branch to point people to master if they are looking for v2 code
2025-02-21 10:40:25 +00:00
