fix calibration -y, better default pump cal from Mo's data

CHANGELOG.md

@@ -3,7 +3,7 @@
 
 #### Enhancements
  - Improved chart colors in the UI
- - The OD reading CLI has a new option, `--snapshot`, that will start the job, take a single reading, and exit.
+ - The OD reading CLI has a new option, `--snapshot`, that will start the job, take a single reading, and exit. This is useful for scripting purposes.
  - A new CLI for pumps: `pio run pumps`. Add pumps as options:
    ```
    pio run pumps --media 1 --waste 2
@@ -12,9 +12,11 @@
    ```
    pio run pumps --waste 2 --media 1 --waste 2
    ```
- - support for 40ml
- - Run multiple experiment profiles per experiment.
-
+ - Initial support for 40ml
+ - Run multiple experiment profiles per experiment!
+ - Specify which Pioreactor to update on the Updates page (option is only available with release archives.)
+ - Choose the level of detail on the new Event Logs page.
+ - Added index to stirring_rates table.
 
 #### Web API changes
 
@@ -38,7 +40,8 @@
 
 #### Bug fixes
  - fixed ui not showing 3p calibrations
- - experiment profiles start now use the unit_api directly. I think this mitigates the huey workers stampeding on each other when try to start many jobs.
+ - experiment profiles start now use the unit_api directly. This may mitigate the issue where huey workers stampeding on each other when try to start many jobs.
+ - fix `pio calibrations run ... -y` not saving as active.
 
 ### 25.1.21
 

pioreactor/actions/pump.py

@@ -34,12 +34,12 @@
 DEFAULT_PWM_CALIBRATION = structs.SimplePeristalticPumpCalibration(
     calibrated_on_pioreactor_unit=get_unit_name(),
     created_at=default_datetime_for_pioreactor(),
-    hz=200.0,
-    dc=100.0,
+    hz=250.0,
+    dc=95.0,
     voltage=-1,
     calibration_name="default_pump_calibration",
     curve_type="poly",
-    curve_data_=[1.0, 0.0],
+    curve_data_=[0.0911, 0.0],  # 0.0911 is a pretty okay estimate for the slope of the calibration curve
     recorded_data={"x": [], "y": []},
 )
 

pioreactor/calibrations/stirring_calibration.py

@@ -50,9 +50,9 @@ def run_stirring_calibration(
 
         # go up and down to observe any hysteresis.
         dcs = (
-            list(range(round(max_dc), round(min_dc) - 3, -3))
+            list(range(round(max_dc), round(min_dc) - 2, -3))
             + list(range(round(min_dc), round(max_dc) + 3, 3))
-            + list(range(round(max_dc), round(min_dc) - 3, -3))
+            + list(range(round(max_dc), round(min_dc) - 2, -3))
         )
         n_samples = len(dcs)
 

pioreactor/cli/calibrations.py

@@ -121,6 +121,8 @@ def run_calibration(ctx, device: str, protocol_name: str | None, y: bool) -> Non
             click.echo(
                 f"Okay. You can use 'pio calibration set-active --device {device} --name {calibration_struct.calibration_name}' to set this calibration as the active one."
             )
+    else:
+        calibration_struct.set_as_active_calibration_for_device(device)
 
     click.echo(
         f"Calibration '{calibration_struct.calibration_name}' of device '{device}' saved to {out_file} ✅"

pioreactor/cli/run.py

@@ -62,9 +62,9 @@ def run() -> None:
 for plugin in plugin_management.get_plugins().values():
     for possible_entry_point in dir(plugin.module):
         if possible_entry_point.startswith("click_"):
-            print(
-                "The `click` API is deprecated and will stop working in the future. You should update your plugins."
-            )
+            # print(
+            #    "The `click` API is deprecated and will stop working in the future. You should update your plugins."
+            # )
             run.add_command(getattr(plugin.module, possible_entry_point))
 
 if am_I_leader():