jtc42
8c3302644a
Automatically add microscope ID and name to metadata
2019-06-07 17:28:57 +01:00
jtc42
235aa984f9
Updated docs
2019-06-07 13:37:20 +01:00
Joel Collins
70be245c2a
Ensure stream recording at start of fast_up_down_up_autofocus
2019-05-30 10:43:46 +01:00
Joel Collins
5e34b998dd
Fixed plugin calling old focus_rel method
2019-05-28 09:27:47 +01:00
Joel Collins
092181348b
Load capture objects from files. Remove YAML database.
2019-05-15 16:32:58 +01:00
Joel Collins
ff534e6a51
Initial support for SBv3 and MockStage
2019-05-15 13:25:04 +01:00
Joel Collins
941aadebfe
Merge branch 'temporary-scan-captures' into 'master'
...
Temporary scan captures
See merge request openflexure/openflexure-microscope-server!10
2019-04-14 09:00:21 +00:00
Joel Collins
7cf54240be
Temp capture folder now handled by camera
2019-04-11 07:13:32 +01:00
Joel Collins
a1965f606c
Removed redundant z-stack import
2019-04-09 15:12:31 +01:00
Joel Collins
915958885b
Added temporary support to scans
2019-04-09 14:57:28 +01:00
Richard Bowman
e90eb7c2d4
deleted old autofocus plugin
2019-04-08 22:40:50 +01:00
Richard Bowman
7aea6291c7
Refactored fast autofocus
...
Tidied up the fast autofocus code, including moving the bulk of the
new code from the `scan` plugin into `autofocus` and updating it to
reflect the fact that the autofocus plugin now merges both old and
new functionality (i.e. fast_autofocus is no longer a separate
plugin). Also fixed a bug that caused it to overshoot on scans.
2019-04-08 19:56:29 +01:00
Richard Bowman
7e83d724b8
Added fast autofocus integrated with Z stacking in the scan code
2019-04-08 16:12:31 +01:00
Joel Collins
24ded8de32
Restructured fast autofocus into main autofocus plugin
2019-04-08 15:09:36 +03:00
Joel Collins
edc5e7c241
Fixed malformed JSONIFY task responses
2019-04-08 08:10:57 +01:00
Richard Bowman
ef3aeb0581
Added fast autofocus
2019-04-07 19:58:08 +01:00
Richard Bowman
bb8312835a
Auto-calibrate now correctly freezes settings
2019-04-04 17:04:38 +01:00
Joel Collins
f30d48e59d
Added brief wait before z-stack captures
2019-03-29 17:32:57 +00:00
Joel Collins
b5c0acb705
Improved scan argument parsing
2019-03-29 16:17:24 +00:00
Joel Collins
980e64397d
Improved scan metadata
2019-03-28 17:34:50 +00:00
Joel Collins
6237762309
Combined stack and tile scans
2019-03-28 14:18:14 +00:00
Joel Collins
89ea6a69de
Fixed imports, and PEP8 styling
2019-03-07 10:58:08 +00:00
Joel Collins
298bc2ba6a
Added scan API routes
2019-03-07 09:54:43 +00:00
Joel Collins
d10263adf8
Added arg to affix metadata and tags to scans
2019-03-07 09:53:25 +00:00
Joel Collins
cd4bab94ab
Renamed stack plugin to scan
2019-03-06 21:08:56 +00:00
Joel Collins
4d82b4df8a
Initial tile/stack plugin
2019-03-06 17:04:32 +00:00
Joel Collins
e175bb1f92
Fixed broken plugin namespace
2019-03-06 17:04:18 +00:00
Richard Bowman
0520f058ad
Explicitly set ISO=0 (auto) when adjusting gain.
2019-02-05 18:42:50 +00:00
Joel Collins
0948c9308a
Went on a PEP-8 rampage
2019-01-31 17:20:46 +00:00
Joel Collins
036fb82628
Moved calibration plugin to defaults. Save config when calibration finishes.
2019-01-31 16:46:34 +00:00
Joel Collins
e9d74c07e6
Separated updating/writing from saving config
2019-01-31 13:51:02 +00:00
Joel Collins
4450ee132e
Moved autofocus plugin to its own module
2019-01-30 13:51:20 +00:00
Joel Collins
a6791d55ac
Plugin routes are now fully qualified
2019-01-30 13:51:09 +00:00
Joel Collins
0c156128fc
Minor formatting changes
2019-01-30 12:02:35 +00:00
Richard Bowman
416b74cb4a
A plugin to allow recalibration via the web API
...
This adds a plugin with a single endpoint, "recalibrate".
The recalibrate methods are deliberately simple and not aware
of the StreamingCamera because I want to share the maximum
amount of code with non-microscope projects that also want
to flatten the lens shading.
The plugin is microscope-specific, and therefore handles
shutting down the stream and managing the resolution of
the camera, to allow the calibration to run without
restarting the microscope server.
Currently it **DOES NOT SAVE SETTINGS**.
TODO: save the settings after recalibration.
Arguably this isn't a job for this plugin, what we would
need is:
* A method to sync the StreamingCamera's settings with the
underlying PiCamera object
* A method to save the StreamingCamera's settings to disk.
I think it would be neatest to provide the first of these as
a method of the StreamingCamera class, and call it from the
plugin. Saving the settings to disk (e.g. to the microscope
rc file, or to somewhere else) should be a separate endpoint
(although most interfaces will probably call it immediately
after recalibration).
2019-01-30 09:10:33 +00:00
Joel Collins
d7e19c40e2
Included Richards autofocus plugin in defaults
2019-01-29 13:54:47 +00:00
Joel Collins
bda946bcc9
Errors in plugins no longer caught as if the module just didn't exist
2019-01-29 13:42:32 +00:00
Joel Collins
a11d2145d9
Fixed broken error handling for long-running tasks
2019-01-28 17:49:44 +00:00
Joel Collins
465ed647d3
Fixed docstrings
2019-01-24 16:24:14 +00:00
Joel Collins
9860ace394
Fixed broken legacy import
2019-01-24 14:09:47 +00:00
Joel Collins
5c86c7f350
Updated to use CompositeLock
2019-01-24 14:05:25 +00:00
Joel Collins
4be89866ee
Added lock to stage positioning
2019-01-24 13:28:46 +00:00
Joel Collins
8292ebf7c7
Implement hardware locks
2019-01-24 12:11:01 +00:00
Joel Collins
a40cb9b9f6
Implemented basic threaded tasks for long-running functionality
2019-01-23 16:48:49 +00:00
Joel Collins
4bd6a562d3
Better example of JsonPayload use
2019-01-09 16:33:36 +00:00
Joel Collins
fb1f848a83
Updated example plugin to use new JsonPayload
2019-01-09 16:23:30 +00:00
Joel Collins
eb5c9c3fee
Updated simple plugin test
2019-01-08 16:15:39 +00:00
Joel Collins
95a3abde7e
Restructured builtin plugins and docstrings
2018-12-20 15:44:43 +00:00
Joel Collins
d681a2069d
Started re-writing plugin documentation
2018-12-20 11:31:50 +00:00
Joel Collins
6d464349b7
Completely rewritten plugin loader to accept absolute modules, or single file paths
2018-12-12 15:00:30 +00:00
