adding calibrations dir

Author: CamDavidsonPilon

…ng your Pioreactor/05-calibrate-od600.md …or/02-Calibrations/05-calibrate-od600.mduser-guide/03-Extending your Pioreactor/05-calibrate-od600.md renamed to user-guide/03-Extending your Pioreactor/02-Calibrations/05-calibrate-od600.md user-guide/03-Extending your Pioreactor/05-calibrate-od600.md renamed to user-guide/03-Extending your Pioreactor/02-Calibrations/05-calibrate-od600.md

@@ -50,25 +50,7 @@ By default, we fit the calibration curve with a polynomial. You can choose the d
 
 ![Final data points with generated curve.](/img/user-guide/03-extending-your-pioreactor/05-calibrate-od600/od_cal_45_deg_with_curve.png)
 
-## Using calibrations in your experiments
-
-Calibrations are applied automatically during OD Readings. That is, after performing a calibration, your future experiments that use optical density readings will use the post-calibration values and be displayed in the UI and saved to the database.
-
-To change the OD calibration you wish to use for an experiment, visit the Calibrations page, select the calibration you wish to use, and select "Set Active". Only one calibration can be Active at a time.
-
-![Final data points on OD calibration.](/img/user-guide/03-extending-your-pioreactor/05-calibrate-od600/od_cal_active.png)
-
-You can disable calibrations by changing the OD device to have no _Active_ calibration in the Calibrations page.
-
-## Editing your previous calibrations
-
-The calibrations are saved as a YAML file on your Pioreactor. You can edit these files directly on the command line. If you want to re-analyze the dataset, you can use the following tool:
-```
-pio calibrations analyze --device od --name <name of your calibration>
-```
-
-## Sharing calibrations
-
-Since the calibrations are just YAML files, you can easily share existing calibrations to other Pioreactors.
+## Managing calibrations
 
+Once you have an OD calibration, you can set it active, edit it, and share it from the Calibrations page. See [Managing calibrations](/user-guide/managing-calibrations) for the full workflow.
 

…r Pioreactor/08-hardware-calibrations.md …Calibrations/08-hardware-calibrations.mduser-guide/03-Extending your Pioreactor/08-hardware-calibrations.md renamed to user-guide/03-Extending your Pioreactor/02-Calibrations/08-hardware-calibrations.md user-guide/03-Extending your Pioreactor/08-hardware-calibrations.md renamed to user-guide/03-Extending your Pioreactor/02-Calibrations/08-hardware-calibrations.md

@@ -64,16 +64,4 @@ There are three pumps on the Pioreactor: media, alt-media, and waste. You don't
 
 ## Managing calibrations
 
-From both the UI and the command line, you can manage your Pioreactor's calibrations.
-
-![Calibrations page showing filters, table, and chart.](/img/user-guide/03-extending-your-pioreactor/08-hardware-calibrations/calibrations-page.png)
-
-**In the UI**
-- Use the `Pioreactor` and `Device` filters at the top of the Calibrations page to focus on a specific unit and hardware type. Toggle **Only Active calibrations** to hide everything except the curve currently in use.
-- Click any calibration row to open its detail view. Use **Set active** to mark that calibration as the one the Pioreactor will use for that device (only one calibration can be active per device per Pioreactor). Use **Set inactive** to clear it and disable calibration for that device.
-- The chart in both the list view and detail view has a download icon—click it to export a PNG of the calibration curve for lab notes. The top-level **Download all calibrations** button grabs all calibration YAML files for backup.
-- To edit a calibration, open its detail view and choose **View YAML**. Make small changes, save the YAML, and re-upload it via **Upload calibration** (or edit the YAML on-disk and use `pio calibrations display` to confirm before setting it active).
-
-**From the command line**
-- List what you have with `pio calibrations list` or scope to a single device with `pio calibrations list --device <device>`.
-- Set which calibration is active with `pio calibrations set-active --device <device> --name <calibration_name>`. Omit `--name` to clear the active calibration for that device.
+For setting active calibrations, editing YAML, and sharing backups, see [Managing calibrations](/user-guide/managing-calibrations).

user-guide/03-Extending your Pioreactor/02-Calibrations/99-managing-calibrations.md

@@ -0,0 +1,38 @@
+---
+title: Managing calibrations
+slug: /managing-calibrations
+hide_table_of_contents: true
+---
+
+Once you have one or more calibrations (stirring, pumps, OD), you can set which one is active, export it, edit it, or share it.
+
+## Using calibrations in experiments
+
+Calibrations are applied automatically whenever a device has an active calibration. For OD readings, that means future experiments will use the post-calibration values in the UI and database.
+
+To change which calibration is active, visit the Calibrations page, select the calibration you want, and choose **Set active**. Only one calibration can be active per device on a Pioreactor at a time. You can disable calibrations by clearing the active calibration for that device.
+
+## Managing calibrations in the UI
+
+![Calibrations page showing filters, table, and chart.](/img/user-guide/03-extending-your-pioreactor/08-hardware-calibrations/calibrations-page.png)
+
+- Use the `Pioreactor` and `Device` filters at the top of the Calibrations page to focus on a specific unit and hardware type. Toggle **Only Active calibrations** to hide everything except the curve currently in use.
+- Click any calibration row to open its detail view. Use **Set active** to mark that calibration as the one the Pioreactor will use for that device (only one calibration can be active per device per Pioreactor). Use **Set inactive** to clear it and disable calibration for that device.
+- The chart in both the list view and detail view has a download icon. Click it to export a PNG of the calibration curve for lab notes. The top-level **Download all calibrations** button grabs all calibration YAML files for backup.
+- To edit a calibration, open its detail view and choose **View YAML**. Make small changes, save the YAML, and re-upload it via **Upload calibration** (or edit the YAML on-disk and use `pio calibrations display` to confirm before setting it active).
+
+## Managing calibrations from the command line
+
+- List what you have with `pio calibrations list` or scope to a single device with `pio calibrations list --device <device>`.
+- Set which calibration is active with `pio calibrations set-active --device <device> --name <calibration_name>`. Omit `--name` to clear the active calibration for that device.
+
+## Editing and sharing calibrations
+
+Calibrations are saved as YAML files on your Pioreactor. You can edit these files directly on the command line or in the UI.
+
+If you want to re-analyze an OD calibration dataset, use:
+```
+pio calibrations analyze --device od --name <name of your calibration>
+```
+
+Since the calibrations are just YAML files, you can easily share existing calibrations to other Pioreactors.

user-guide/03-Extending your Pioreactor/02-Calibrations/_category_.yaml

@@ -0,0 +1,3 @@
+collapsed: true
+collapsible: true
+label: "Calibrations"