@i-vresse/haddock3-ui 0.2.1 → 0.3.0

package/README.md

@@ -1,6 +1,6 @@
 # React components for/from haddock3 webapp
 
-[![github repo badge](https://img.shields.io/badge/github-repo-000.svg?logo=github&labelColor=gray&color=blue)]([https://github.com/i-VRESSE/haddock3-ui](https://github.com/i-VRESSE/haddock3-ui))
+[![github repo badge](https://img.shields.io/badge/github-repo-000.svg?logo=github&labelColor=gray&color=blue)](https://github.com/i-VRESSE/haddock3-ui)
 [![npmjs.com](https://img.shields.io/npm/v/@i-vresse/haddock3-ui.svg?style=flat)](https://www.npmjs.com/package/@i-vresse/haddock3-ui)
 [![CI lint](https://github.com/i-VRESSE/haddock3-ui/actions/workflows/lint.yml/badge.svg)](https://github.com/i-VRESSE/haddock3-ui/actions/workflows/lint.yml)
 [![CI test](https://github.com/i-VRESSE/haddock3-ui/actions/workflows/test.yml/badge.svg)](https://github.com/i-VRESSE/haddock3-ui/actions/workflows/test.yml)
@@ -15,6 +15,7 @@ The [haddock3 web application](https://github.com/i-VRESSE/haddock3-webapp) had
 - Components to render a 3D molecular structure from [PDB file](https://www.wwpdb.org/) using [NGL](https://nglviewer.org/)
 - Components to select residues in a molecule either passive or active
 - Components to handle files
+- Components to render clusters or structures in a sortable table
 
 ## Installation
 
@@ -42,9 +43,11 @@ you can make use the included css file `import "@i-vresse/haddock3-ui/dist/index
 
 ## Usage
 
-See [sidebar](https://i-VRESSE.github.io/haddock3-ui) for a list of all components.
+Stories of the components can be found at [https://i-VRESSE.github.io/haddock3-ui](https://i-VRESSE.github.io/haddock3-ui).
+
+See the [sidebar](https://i-VRESSE.github.io/haddock3-ui) for a list of all component stories.
 Once component is selected
-- interact with component
+- interact with component story
 - use `</>` button in footer to see the code.
 - use sliders icon button in footer to change props when available
 
@@ -54,5 +57,25 @@ API documentation is available at [https://i-VRESSE.github.io/haddock3-ui/api/](
 
 The components can be used directly in the browser, without your own build system.
 
-[example.html](example.html) is a clustered table example which uses the latest library from npm using https://esm.sh/ for libray hosting.
+[example.html](example.html) is a clustered table example which uses the latest package version from npm via https://esm.sh/.
 [example-molviewer.html](example-molviewer.html) is a simple molecule viewer example.
+
+### Offline bundle
+
+The table components are used by the caprieval module of haddock3 to generate report.html. 
+Haddock3 can be used [offline](https://www.bonvinlab.org/haddock3/modules/general_module_params.html#offline), 
+which means after installation the running of haddock3 will be isolated from the Internet.
+
+To use the table components offline, you can build an offline bundle of the components with
+
+```bash
+# Installs dependencies
+pnpm install
+# Create dist/index.css and dist/report.bundle.js,
+# which contains the table components and all of its dependencies
+pnpm build
+```
+
+See [example-offline.html](example-offline.html) for an example of how to use the offline version.
+
+To prevent CORS issues, the html, css and js files should be served from the same http server like with `python3 -m http.server` and visit http://localhost:8000/example-offline.html.

package/dist/DialogViewer.js

@@ -13,14 +13,14 @@ export function DialogViewer({ url, children, labelTrigger = "Open", labelClose
     return (_jsxs("div", { children: [_jsx("button", { className: cn(
                 // classes from https://ui.shadcn.com/docs/components/button
                 // base
-                "inline-flex items-center justify-center whitespace-nowrap rounded-md text-sm font-medium transition-colors focus-visible:outline-none focus-visible:ring-1 focus-visible:ring-ring disabled:pointer-events-none disabled:opacity-50", 
+                "inline-flex items-center justify-center whitespace-nowrap rounded-md font-medium text-sm transition-colors focus-visible:outline-none focus-visible:ring-1 focus-visible:ring-ring disabled:pointer-events-none disabled:opacity-50", 
                 //size=default
                 "h-9 px-4 py-2", 
                 // variant=secondary
-                "bg-gray-300 text-black shadow-sm hover:bg-gray-300/80", classNameTrigger), onClick: () => setDialogOpen(true), children: labelTrigger }), _jsxs("dialog", { open: dialogOpen, className: cn("w-3/4 h-3/4 fixed top-1/2 left-1/2 transform -translate-x-1/2 -translate-y-1/2 drop-shadow-xl", classNameDialog), children: [_jsxs("div", { className: "w-full flex flex-row justify-between items-center", children: [_jsx("a", { className: cn("hover:underline m-2", classNameTitle), href: url, download: fileName, children: fileName }), _jsx("button", { className: cn(
+                "bg-gray-300 text-black shadow-sm hover:bg-gray-300/80", classNameTrigger), onClick: () => setDialogOpen(true), children: labelTrigger }), _jsxs("dialog", { open: dialogOpen, className: cn("-translate-x-1/2 -translate-y-1/2 fixed top-1/2 left-1/2 z-10 h-3/4 w-3/4 transform drop-shadow-xl", classNameDialog), children: [_jsxs("div", { className: "flex w-full flex-row items-center justify-between", children: [_jsx("a", { className: cn("m-2 hover:underline", classNameTitle), href: url, download: fileName, children: fileName }), _jsx("button", { className: cn(
                                 // classes from https://ui.shadcn.com/docs/components/button
                                 // base
-                                "inline-flex items-center justify-center whitespace-nowrap rounded-md text-sm font-medium transition-colors focus-visible:outline-none focus-visible:ring-1 focus-visible:ring-ring disabled:pointer-events-none disabled:opacity-50", 
+                                "inline-flex items-center justify-center whitespace-nowrap rounded-md font-medium text-sm transition-colors focus-visible:outline-none focus-visible:ring-1 focus-visible:ring-ring disabled:pointer-events-none disabled:opacity-50", 
                                 //size=default
                                 "h-9 px-4 py-2", 
                                 // variant=ghost

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package/dist/index.css

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+/*! tailwindcss v3.4.6 | MIT License | https://tailwindcss.com*/*,:after,:before{box-sizing:border-box;border:0 solid #e5e7eb}:after,:before{--tw-content:""}:host,html{line-height:1.5;-webkit-text-size-adjust:100%;-moz-tab-size:4;-o-tab-size:4;tab-size:4;font-family:ui-sans-serif,system-ui,sans-serif,Apple Color Emoji,Segoe UI Emoji,Segoe UI Symbol,Noto Color Emoji;font-feature-settings:normal;font-variation-settings:normal;-webkit-tap-highlight-color:transparent}body{margin:0;line-height:inherit}hr{height:0;color:inherit;border-top-width:1px}abbr:where([title]){-webkit-text-decoration:underline dotted;text-decoration:underline dotted}h1,h2,h3,h4,h5,h6{font-size:inherit;font-weight:inherit}a{color:inherit;text-decoration:inherit}b,strong{font-weight:bolder}code,kbd,pre,samp{font-family:ui-monospace,SFMono-Regular,Menlo,Monaco,Consolas,Liberation Mono,Courier 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package/dist/index.d.ts

@@ -3,4 +3,7 @@ export { PickIn3D, ResiduesSelect } from "./toggles.js";
 export { CopyToClipBoardIcon } from "./CopyToClipBoardIcon.js";
 export { LinkToFile } from "./LinkToFile.js";
 export { HiddenFileInput } from "./HiddenFileInput.js";
+export { DialogViewer } from "./DialogViewer.js";
+export { ClusterTable } from "./table/ClusterTable.js";
+export { StructureTable } from "./table/StructureTable.js";
 //# sourceMappingURL=index.d.ts.map

package/dist/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.tsx"],"names":[],"mappings":"AAAA,OAAO,EACL,YAAY,EACZ,WAAW,EACX,QAAQ,EACR,YAAY,EACZ,YAAY,EACZ,MAAM,GACP,MAAM,gBAAgB,CAAC;AACxB,OAAO,EAAE,QAAQ,EAAE,cAAc,EAAE,MAAM,cAAc,CAAC;AACxD,OAAO,EAAE,mBAAmB,EAAE,MAAM,0BAA0B,CAAC;AAC/D,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAC;AAC7C,OAAO,EAAE,eAAe,EAAE,MAAM,sBAAsB,CAAC"}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.tsx"],"names":[],"mappings":"AAAA,OAAO,EACL,YAAY,EACZ,WAAW,EACX,QAAQ,EACR,YAAY,EACZ,YAAY,EACZ,MAAM,GACP,MAAM,gBAAgB,CAAC;AACxB,OAAO,EAAE,QAAQ,EAAE,cAAc,EAAE,MAAM,cAAc,CAAC;AACxD,OAAO,EAAE,mBAAmB,EAAE,MAAM,0BAA0B,CAAC;AAC/D,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAC;AAC7C,OAAO,EAAE,eAAe,EAAE,MAAM,sBAAsB,CAAC;AACvD,OAAO,EAAE,YAAY,EAAE,MAAM,mBAAmB,CAAC;AACjD,OAAO,EAAE,YAAY,EAAE,MAAM,yBAAyB,CAAC;AACvD,OAAO,EAAE,cAAc,EAAE,MAAM,2BAA2B,CAAC"}

package/dist/index.js

@@ -3,6 +3,9 @@ export { PickIn3D, ResiduesSelect } from "./toggles.js";
 export { CopyToClipBoardIcon } from "./CopyToClipBoardIcon.js";
 export { LinkToFile } from "./LinkToFile.js";
 export { HiddenFileInput } from "./HiddenFileInput.js";
+export { DialogViewer } from "./DialogViewer.js";
+export { ClusterTable } from "./table/ClusterTable.js";
+export { StructureTable } from "./table/StructureTable.js";
 // Other components and types can be imported using
 // for example
 // import { useChunked } from "@i-vresse/haddock3-ui/useChunked"

package/dist/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.tsx"],"names":[],"mappings":"AAAA,OAAO,EACL,YAAY,EACZ,WAAW,EACX,QAAQ,EACR,YAAY,EACZ,YAAY,EACZ,MAAM,GACP,MAAM,gBAAgB,CAAC;AACxB,OAAO,EAAE,QAAQ,EAAE,cAAc,EAAE,MAAM,cAAc,CAAC;AACxD,OAAO,EAAE,mBAAmB,EAAE,MAAM,0BAA0B,CAAC;AAC/D,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAC;AAC7C,OAAO,EAAE,eAAe,EAAE,MAAM,sBAAsB,CAAC;AACvD,mDAAmD;AACnD,cAAc;AACd,gEAAgE"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.tsx"],"names":[],"mappings":"AAAA,OAAO,EACL,YAAY,EACZ,WAAW,EACX,QAAQ,EACR,YAAY,EACZ,YAAY,EACZ,MAAM,GACP,MAAM,gBAAgB,CAAC;AACxB,OAAO,EAAE,QAAQ,EAAE,cAAc,EAAE,MAAM,cAAc,CAAC;AACxD,OAAO,EAAE,mBAAmB,EAAE,MAAM,0BAA0B,CAAC;AAC/D,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAC;AAC7C,OAAO,EAAE,eAAe,EAAE,MAAM,sBAAsB,CAAC;AACvD,OAAO,EAAE,YAAY,EAAE,MAAM,mBAAmB,CAAC;AACjD,OAAO,EAAE,YAAY,EAAE,MAAM,yBAAyB,CAAC;AACvD,OAAO,EAAE,cAAc,EAAE,MAAM,2BAA2B,CAAC;AAC3D,mDAAmD;AACnD,cAAc;AACd,gEAAgE"}

package/dist/molviewer.js

@@ -285,7 +285,7 @@ export function NGLStage({ onMouseLeave = () => { }, onPick, onHover, children,
             }
         };
     }, [stage, onHoverCallback]);
-    return (_jsxs("div", { className: "relative h-full w-full overflow-hidden", onMouseLeave: onMouseLeave, children: [_jsx("div", { ref: stageElementRef, className: "h-full w-full " }), stage && (_jsxs(_Fragment, { children: [_jsx("div", { className: "absolute right-4 top-2 z-10", children: _jsx("span", { title: "Center all", className: "h-5 w-5 cursor-pointer", onClick: (e) => {
+    return (_jsxs("div", { className: "relative h-full w-full overflow-hidden", onMouseLeave: onMouseLeave, children: [_jsx("div", { ref: stageElementRef, className: "h-full w-full " }), stage && (_jsxs(_Fragment, { children: [_jsx("div", { className: "absolute top-2 right-4 z-10", children: _jsx("span", { title: "Center all", className: "h-5 w-5 cursor-pointer", onClick: (e) => {
                                 e.preventDefault();
                                 stage.autoView();
                             }, children: "\u25CE" }) }), _jsx(StageReactContext.Provider, { value: stage, children: children })] }))] }));
@@ -393,7 +393,7 @@ export function LigandViewer({ structure, selected, onPick, onHover, highlight,
             // @ts-ignore highlight truthy is checked
             , { 
                 // @ts-ignore highlight truthy is checked
-                residues: [parseInt(highlight.split("-")[2])], color: activeColor, chain: highlight.split("-")[1], opacity: 1.0, representation: "spacefill" })), selected && (_jsx(NGLResidues, { residues: [selected.resno], chain: selected.chain, color: activeColor, opacity: 1.0, representation: "ball+stick" }))] }));
+                residues: [Number.parseInt(highlight.split("-")[2])], color: activeColor, chain: highlight.split("-")[1], opacity: 1.0, representation: "spacefill" })), selected && (_jsx(NGLResidues, { residues: [selected.resno], chain: selected.chain, color: activeColor, opacity: 1.0, representation: "ball+stick" }))] }));
     function onLigandPick(chain, residue, _componentName, resname) {
         onPick(`${resname}-${chain}-${residue}`);
     }

package/dist/molviewer.js.map

@@ -1 +1 @@
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