Fix broken links in docs

Author: cmdcolin

plugins/alignments/src/shared/LinearReadDisplayBaseMixin.ts

@@ -4,13 +4,14 @@ import { NonBlockCanvasDisplayMixin } from '@jbrowse/plugin-linear-genome-view'
 import type { ChainData, ColorBy, FilterBy } from './types.ts'
 
 /**
+ * #stateModel LinearReadDisplayBaseMixin
  * Base mixin for all LinearRead displays (Cloud, Stack, Arcs)
- * Contains common volatile state, views, and actions shared across all three display types.
- * Composes with NonBlockCanvasDisplayMixin for the shared non-block canvas display state.
+ * Contains common volatile state, views, and actions shared across all three
+ * display types. Composes with NonBlockCanvasDisplayMixin for the shared
+ * non-block canvas display state.
  *
- * Note: colorBy, filterBy views and reload action must be defined in the display
- * model since they need access to `configuration` (for getConf) and `error`
- * (from BaseDisplay) which are not available in this mixin's type context.
+ * extends
+ * - [NonBlockCanvasDisplayMixin](../nonblockcanvasdisplaymixin)
  */
 export function LinearReadDisplayBaseMixin() {
   return types.compose(

website/docs/models/LinearReadDisplayBaseMixin.md

@@ -0,0 +1,92 @@
+---
+id: linearreaddisplaybasemixin
+title: LinearReadDisplayBaseMixin
+---
+
+Note: this document is automatically generated from @jbrowse/mobx-state-tree
+objects in our source code. See
+[Core concepts and intro to pluggable elements](/docs/developer_guide/) for more
+info
+
+Also note: this document represents the state model API for the current released
+version of jbrowse. If you are not using the current version, please cross
+reference the markdown files in our repo of the checked out git tag
+
+## Links
+
+[Source code](https://github.com/GMOD/jbrowse-components/blob/main/plugins/alignments/src/shared/LinearReadDisplayBaseMixin.ts)
+
+[GitHub page](https://github.com/GMOD/jbrowse-components/tree/main/website/docs/models/LinearReadDisplayBaseMixin.md)
+
+## Docs
+
+Base mixin for all LinearRead displays (Cloud, Stack, Arcs) Contains common
+volatile state, views, and actions shared across all three display types.
+Composes with NonBlockCanvasDisplayMixin for the shared non-block canvas display
+state.
+
+extends
+
+- [NonBlockCanvasDisplayMixin](../nonblockcanvasdisplaymixin)
+
+### LinearReadDisplayBaseMixin - Properties
+
+#### property: filterBySetting
+
+Filter settings override (if set, overrides configuration)
+
+```js
+// type signature
+IType<FilterBy, FilterBy, FilterBy>
+// code
+filterBySetting: types.frozen<FilterBy | undefined>()
+```
+
+#### property: colorBySetting
+
+Color scheme settings override (if set, overrides configuration)
+
+```js
+// type signature
+IType<ColorBy, ColorBy, ColorBy>
+// code
+colorBySetting: types.frozen<ColorBy | undefined>()
+```
+
+### LinearReadDisplayBaseMixin - Actions
+
+#### action: setLastDrawnBpPerPx
+
+Update the last drawn bp per pixel value
+
+```js
+// type signature
+setLastDrawnBpPerPx: (n: number) => void
+```
+
+#### action: setColorScheme
+
+Set the color scheme override
+
+```js
+// type signature
+setColorScheme: (colorBy: { type: string; }) => void
+```
+
+#### action: setChainData
+
+Set the chain data to render
+
+```js
+// type signature
+setChainData: (args: ChainData) => void
+```
+
+#### action: setFilterBy
+
+Set the filter override
+
+```js
+// type signature
+setFilterBy: (filter: FilterBy) => void
+```