*/}
-
-
-
- 📤️ Or, if you already have registered a key pair with your ORCID in the nanopublication network, you
- can upload these keys directly:
-
-
-
- )}
-
- )}
-
- {state.published_nanopub && (
-
- {state.published_nanopub}
-
- )}
-
- );
-};
-export default PublishNanopubButtons;
diff --git a/astro-frontend/src/components/ReactTaggy.tsx b/astro-frontend/src/components/ReactTaggy.tsx
deleted file mode 100644
index 86fa836..0000000
--- a/astro-frontend/src/components/ReactTaggy.tsx
+++ /dev/null
@@ -1,284 +0,0 @@
-import React from 'react';
-
-interface Span {
- token: string;
- type: string;
- start: number;
- end: number;
-}
-
-// Define functional component. Destructure the props.
-const Taggy = ({
- text = '',
- spans = [],
- ents = [],
- onClick = (event: any, tag: Span, elemIndex: number) => {},
- onMouseOver = (event: any, tag: Span, elemIndex: number) => {},
- onHighlight = (event: Span, text: string, spanIndex: number, start: number, end: number) => {}
-}: any) => {
- // Find the correct color of the given entity type. If the given entity is not found, set the color to grey.
- const findRed = (type: string) => {
- for (let e = 0; e < ents.length; e++) {
- if (ents[e].type === type) {
- return ents[e].color.r;
- }
- }
- return 220;
- };
- const findGreen = (type: string) => {
- for (let e = 0; e < ents.length; e++) {
- if (ents[e].type === type) {
- return ents[e].color.g;
- }
- }
- return 220;
- };
- const findBlue = (type: string) => {
- for (let e = 0; e < ents.length; e++) {
- if (ents[e].type === type) {
- return ents[e].color.b;
- }
- }
- return 220;
- };
-
- const highlightCallback = (e: any, spanText: string, i: number) => {
- // Start and end are relative to the current element, not the whole text
- const start = window.getSelection()!.anchorOffset;
- const end = window.getSelection()!.focusOffset;
- const highlightedText = spanText.substring(start, end);
- onHighlight(e, highlightedText, i, text.indexOf(spanText) + start, text.indexOf(spanText) + end);
- };
-
- // Initialize an empty array that will hold the text and entities
- let jsx: any = [];
-
- // Make sure spans are ordered by they start index
- spans.sort((a: any, b: any) => (a.start > b.start ? 1 : b.start > a.start ? -1 : 0));
-
- // METHOD 1 - STRING
- if (typeof text === 'string') {
- // Initialize an empty array. The contents of 'elements' will eventually get pushed to the 'jsx' array, and will be converted to jsx markup in the process.
- let elements: any = [];
- // Keep track of location in the string of text
- let offset = 0;
- // Loop through the spans, using the span data to construct the 'elements' array
- spans.forEach((span: Span) => {
- // Create a string of text that does not contain any entities
- const fragment = text.slice(offset, span.start);
- // Create an entity
- const entity = text.slice(span.start, span.end);
- // Push the both of them to the elements array
- elements.push(fragment);
- span.token = entity;
- elements.push(span);
- // Update our position within the string of text
- offset = span.end;
- });
- // After pushing all of the entities to the 'elements' array, push the remaining text to the 'elements' array. Elements should now consist of strings and objects/entities.
- elements.push(text.slice(offset, text.length));
- // Filter out unnecessary spaces
- elements = elements.filter((val: any) => val !== ' ');
- // Loop through elements array looking for multi-word entities.
- for (let e = 0; e < elements.length; e++) {
- // Check if we've stopped at an entity
- if (elements[e].token) {
- // Examine the consecutive entities, if any.
- for (let i = e + 1; i < elements.length; i++) {
- // Combine consecutive entities of the same type into one entity. Then, mark the duplicates as 'false'.
- if (typeof elements[i] !== 'string' && elements[i].type === elements[e].type) {
- elements[e].token += ' ' + elements[i].token;
- elements[i] = false;
- }
- // Stop the loop when we've run out of consecutive entities
- if (typeof elements[i] === 'string') {
- break;
- }
- }
- }
- }
- // Filter out the consecutive entities that were marked as duplicates
- elements = elements.filter((val: any) => !!val);
- // Loop through our 'elements' array. Push strings directly to the 'jsx' array. Convert entity objects to jsx markup, then push to the 'jsx' array.
- elements.forEach((t: Span, i: number) => {
- if (typeof t === 'string') {
- jsx.push(
-
{
- highlightCallback(e, t, i);
- }}
- onDoubleClick={e => {
- highlightCallback(e, t, i);
- }}
- >
- {t}
-
- );
- } else {
- jsx.push(
-
onClick(e, t, i)}
- onMouseOver={e => onMouseOver(e, t, i)}
- style={{
- padding: '0.25em 0.35em',
- margin: '0px 0.25em',
- lineHeight: '1',
- display: 'inline-block',
- borderRadius: '0.25em',
- border: '1px solid',
- background: `rgba(
- ${findRed(t.type)},
- ${findGreen(t.type)},
- ${findBlue(t.type)},
- 0.2
- )`,
- borderColor: `rgb(
- ${findRed(t.type)},
- ${findGreen(t.type)},
- ${findBlue(t.type)}
- )`
- }}
- >
- {t.token}
- onMouseOver(e, t, i)}
- style={{
- boxSizing: 'border-box',
- fontSize: '0.6em',
- lineHeight: '1',
- padding: '0.35em',
- borderRadius: '0.35em',
- display: 'inline-block',
- verticalAlign: 'middle',
- margin: '0px 0px 0.1rem 0.5rem',
- background: `rgb(
- ${findRed(t.type)},
- ${findGreen(t.type)},
- ${findBlue(t.type)}
- )`
- }}
- >
- {t.type}
-
-
- );
- }
- });
- }
-
- // METHOD 2 - TOKENS
- if (Array.isArray(text)) {
- // Rename 'text' to 'tokens' for clarity
- let tokens = text;
- // Loop through the 'spans' array. Use the span data to update our 'tokens' array with entities
- for (let s = 0; s < spans.length; s++) {
- tokens[spans[s].index] = spans[s];
- tokens[spans[s].index].token = tokens[spans[s].index];
- tokens[spans[s].index].type = spans[s].type;
- }
-
- // Loop through the tokens array, looking for multi-word entities
- for (let t = 0; t < tokens.length; t++) {
- // Check if we've stopped at an entity
- if (tokens[t].token) {
- // Examine the consecutive entities, if any.
- for (let i = t + 1; i < tokens.length; i++) {
- // Combine consecutive entities of the same type into one entity. Then, mark the duplicates as 'false'.
- if (typeof tokens[i] !== 'string' && tokens[i].type === tokens[t].type) {
- tokens[t].token += ' ' + tokens[i].token;
- tokens[i] = false;
- }
- // Stop the loop when we've run out of consecutive entities
- if (typeof tokens[i] === 'string') {
- break;
- }
- }
- }
- }
- // Filter out the consecutive entities that were marked as duplicates
- tokens = tokens.filter(val => !!val);
- // Add a space to the end of each string/non-entity
- let tokensWithSpaces = tokens.map(t => {
- if (typeof t === 'string') {
- return `${t} `;
- }
- return t;
- });
- // Loop through our 'tokens' array. Push strings directly to the 'jsx' array. Convert entity objects to jsx markup, then push to the 'jsx' array.
- tokensWithSpaces.forEach((t, i) => {
- if (typeof t === 'string') {
- jsx.push(
-
{
- highlightCallback(e, t, i);
- }}
- onDoubleClick={e => {
- highlightCallback(e, t, i);
- }}
- >
- {t}
-
- );
- } else {
- jsx.push(
-
onClick(e, t, i)}
- onMouseOver={e => onMouseOver(e, t, i)}
- style={{
- padding: '0.25em 0.35em',
- margin: '0px 0.25em',
- lineHeight: '1',
- display: 'inline-block',
- borderRadius: '0.25em',
- border: '1px solid',
- background: `rgba(
- ${findRed(t.type)},
- ${findGreen(t.type)},
- ${findBlue(t.type)},
- 0.2
- )`,
- borderColor: `rgb(
- ${findRed(t.type)},
- ${findGreen(t.type)},
- ${findBlue(t.type)}
- )`
- }}
- >
- {t.token}
- onMouseOver(e, t, i)}
- style={{
- boxSizing: 'border-box',
- fontSize: '0.6em',
- lineHeight: '1',
- padding: '0.35em',
- borderRadius: '0.35em',
- display: 'inline-block',
- verticalAlign: 'middle',
- margin: '0px 0px 0.1rem 0.5rem',
- background: `rgb(
- ${findRed(t.type)},
- ${findGreen(t.type)},
- ${findBlue(t.type)}
- )`
- }}
- >
- {t.type}
-
-
- );
- }
- });
- }
-
- // Return the markup
- return (
-
- {jsx.map((j: string, i: number) => (
- {j}
- ))}
-
- );
-};
-
-export default Taggy;
diff --git a/astro-frontend/src/components/StyledComponents.tsx b/astro-frontend/src/components/StyledComponents.tsx
deleted file mode 100644
index 63736be..0000000
--- a/astro-frontend/src/components/StyledComponents.tsx
+++ /dev/null
@@ -1,59 +0,0 @@
-import React from 'react';
-import {styled} from '@mui/material/styles';
-import {Typography, FormControl} from '@mui/material';
-
-// Styled components
-export const Paragraph = styled(Typography)(({theme}) => ({
- ...theme.typography.body1,
- marginBottom: '8px',
- textAlign: 'justify'
-})) as typeof Typography;
-
-export const Title = styled(Typography)(({theme}) => ({
- ...theme.typography.h5,
- marginTop: '40px',
- marginBottom: '16px',
- textAlign: 'center',
- fontWeight: '300'
-})) as typeof Typography;
-
-export const FormSettings = styled(FormControl)(({theme}) => ({
- ...theme.components?.MuiFormControl,
- width: '100%',
- // textAlign: 'center',
- '& .MuiFormControl-root': {
- marginTop: '8px',
- marginBottom: '8px'
- },
- '& .MuiFormHelperText-root': {
- marginTop: '0px',
- marginBottom: '8px'
- }
-})) as typeof FormControl;
-
-// export const LinkOut = ({children, ...props}={}) => {
-//
-// return (
-//
{children}
-// )
-// }
-// export const LinkOut = styled(a)(({ theme }) => ({
-// ...theme.typography.h5,
-// marginTop: '40px',
-// marginBottom: '16px',
-// textAlign: 'center',
-// fontWeight: '300',
-// })) as typeof Typography;
diff --git a/astro-frontend/src/components/UserSettingsPopper.tsx b/astro-frontend/src/components/UserSettingsPopper.tsx
deleted file mode 100644
index 42dd9ea..0000000
--- a/astro-frontend/src/components/UserSettingsPopper.tsx
+++ /dev/null
@@ -1,89 +0,0 @@
-import React from 'react'
-import {useTheme} from '@mui/material/styles'
-import {
- Button,
- Tooltip,
- Typography,
- Popover,
- FormControl,
- InputLabel,
- Select,
- MenuItem,
- Paper
-} from '@mui/material'
-import SettingsIcon from '@mui/icons-material/Settings'
-
-import {useStore} from '@nanostores/react'
-import {userSettings} from '../utils/nanostores'
-
-// TODO: not used yet in astro
-
-export default function UserSettingsPopper() {
- const theme = useTheme()
- const $userSettings = useStore(userSettings)
-
- // Popover settings
- const [anchorEl, setAnchorEl] = React.useState
(null)
- const handleClick = (event: React.MouseEvent) => {
- setAnchorEl(event.currentTarget)
- }
- const handleClose = () => {
- setAnchorEl(null)
- }
- const open = Boolean(anchorEl)
- const id = open ? 'simple-popover' : undefined
-
- return (
-
-
-
-
-
-
-
-
- Settings
-
- {/* Dropdown to choose server */}
-
- Server
- {
- event.preventDefault()
- userSettings.set({...$userSettings, api: event.target.value as string})
- }}
- >
- IDS development server
- ITRB CI server
- ITRB test server
- ITRB production server
- {/* {
- Localhost
- } */}
-
-
-
-
-
-
- Form generated from the target shape {target}
- {/* https://stackoverflow.com/questions/56646500/add-hover-effect-to-react-div-using-inline-styling */}
- {
- updateState({showJsonSchema: !state.showJsonSchema});
- }}
- // style={styles.btn}
- style={{
- color: '#00251a',
- background: '#80cbc4', // Teal
- border: '0.1em solid #4f9a94',
- borderRadius: '0.30em',
- display: 'inline-block',
- padding: '0.35em 1.2em',
- marginLeft: '16px',
- textDecoration: 'none',
- transition: 'all 0.2s',
- ...(state.showJsonBtnHover && {cursor: 'pointer', background: '#4f9a94'})
- }}
- onMouseEnter={() => {
- updateState({showJsonBtnHover: true});
- }}
- onMouseLeave={() => {
- updateState({showJsonBtnHover: false});
- }}
- // style={{ textTransform: 'none', margin: '16px 16px' }}
- >
- {state.showJsonSchema ? '🥷 Hide' : '🔦 Show'} JSON Schema
-
-
-
- {/* Show JSON Schema */}
- {state.showJsonSchema && (
-
-
- {JSON.stringify(state.jsonschema, null, 2)}
-
-
- )}
-
- {/* TODO: Check peer dependencies, etc
- Try React 17: https://github.com/rjsf-team/react-jsonschema-form/issues/2857 */}
-
- {/* More modern, react and mui based JSON schema form: https://github.com/rjsf-team/react-jsonschema-form/tree/master/packages/material-ui */}
- {/* But weird imports v4/v5 for mui not working properly */}
-
-
-
-
- {/* https://github.com/eclipsesource/jsonforms-react-seed/blob/master/src/App.tsx */}
- {/*
{
- // console.log(errors)
- // updateState({
- // jsonld: data,
- // jsonErrors: errors,
- // // showJsonld: true,
- // // jsonValid: true,
- // })
- }}
- /> */}
-
- {/* Show JSON-LD generated */}
- {state.showJsonld && state.jsonValid && (
-
-
- <>
- {JSON.stringify(
- {
- '@graph': [{...state.jsonld}],
- '@context': state.prefixes
- },
- null,
- 2
- )}
-
-
-
- )}
-
- {/* Show error JSON not useful with rjsf */}
- {/* { state.showJsonld && !state.jsonValid &&
-
-
- {JSON.stringify(state.jsonErrors, null, 2)}
-
-
- } */}
-
- {
- updateState({show_info_card: !state.show_info_card});
- }}
- name="show_info_card"
- aria-expanded={state.show_info_card}
- aria-label="show about"
- >
- Import
- {!state.show_info_card &&
-
-
-
-
-
- );
-}
diff --git a/astro-frontend/src/components/shape-publisher/shacl2jsonschema.tsx b/astro-frontend/src/components/shape-publisher/shacl2jsonschema.tsx
deleted file mode 100644
index ea01d8a..0000000
--- a/astro-frontend/src/components/shape-publisher/shacl2jsonschema.tsx
+++ /dev/null
@@ -1,185 +0,0 @@
-import {Store, DataFactory} from 'n3';
-
-const {namedNode} = DataFactory;
-const shaclNs = 'http://www.w3.org/ns/shacl#';
-const sh = (prop: string) => {
- return namedNode(`${shaclNs}${prop}`);
-};
-
-export const shacl2jsonschema = (store: Store, target: string, context: any, title: any = null) => {
- // JSON-LD JSON Schema: https://github.com/json-ld/json-ld.org/blob/main/schemas/jsonld-schema.json
- // JSON form from schema: https://www.webcomponents.org/element/json-form-custom-element
- // Demo: https://json-tools.github.io/json-form/
- console.log('TARGET of shacl2jsonschema:', target);
- const jsonschema: any = {
- type: 'object',
- properties: {}
- };
- if (title) {
- jsonschema['title'] = title;
- jsonschema['ui'] = {expandable: true};
- }
- const jsonld: any = {};
-
- // TODO: improve handling of the targetClass (used for the @type) for recursion
- const typeProp: any = {enum: []};
- store.getQuads(namedNode(target), sh('targetClass'), null, null).map((targetClassQuad: any) => {
- typeProp['title'] = 'Type';
- typeProp['description'] = 'Type of the resource (@type)';
- typeProp['type'] = 'string';
- typeProp['enum'].push(targetClassQuad.object.value.toString());
- typeProp['default'] = targetClassQuad.object.value.toString();
-
- console.log('TargetClass for:', target);
- console.log('Is:', targetClassQuad.object.value.toString());
-
- // typeProp["format"] = "uri"
- // typeProp["pattern"] = "^https?://"
- jsonld['@type'] = targetClassQuad.object.value.toString();
-
- // Disable changes to @type:
- // typeProp["ui"] = {
- // "rule": {
- // "action": "disable",
- // "path": "/enabled",
- // "condition": { "const": false, "default": false }
- // }
- // }
- });
- jsonschema['properties']['@type'] = typeProp;
-
- // for (const targetClassQuad of store.getQuads(namedNode(target), sh("targetClass"), null, null)) {
- // // targetClass = targetClassQuad.object.value.toString()
- // typeProp['title'] = 'Type'
- // typeProp['description'] = 'Type of the resource (@type)'
- // typeProp["type"] = "string"
- // typeProp["enum"].push(targetClassQuad.object.value.toString())
- // typeProp["default"] = targetClassQuad.object.value.toString()
-
- // // typeProp["format"] = "uri"
- // // typeProp["pattern"] = "^https?://"
- // jsonld['@type'] = targetClassQuad.object.value.toString()
- // // typeProp["ui"] = { "disable": true }
- // typeProp["ui"] = {
- // "rule": {
- // "action": "disable",
- // "path": "/enabled",
- // "condition": {
- // "const": false,
- // "default": false
- // }
- // }
- // }
- // // ui:readonly
- // // updateState({targetClass: targetClassQuad.object.value})
- // }
-
- // jsonschema["properties"]['@type'] = typeProp
-
- // Checking every sh:property for the ShapeNode
- const requiredProps: any = ['@type'];
- for (const propQuad of store.getQuads(namedNode(target), sh('property'), null, null)) {
- console.log('Checking property:', propQuad);
- const propSubj = propQuad.object;
- let propPath = null;
- let propSchema: any = {};
-
- // Check sh:path
- for (const pathQuad of store.getQuads(propSubj, sh('path'), null, null)) {
- propPath = pathQuad.object.value;
- // console.log("Path of the property:", propPath)
- // console.log(pathQuad.termType); // Quad
- // console.log(pathQuad.object.language); // en
- }
- if (!propPath) {
- continue;
- }
-
- // Check sh:nodeKind
- for (const subProp of store.getQuads(propSubj, sh('nodeKind'), null, null)) {
- if (subProp.object.value == `${shaclNs}IRI`) {
- propSchema['format'] = 'uri';
- propSchema['pattern'] = '^https?://';
- // if (context) {
- // context[propPath] = {'@type': '@id'}
- // } else {
- // context = {[propPath]: {'@type': '@id'}}
- // }
- } else {
- propSchema['description'] = subProp.object.value;
- }
- }
-
- // Check sh:name
- for (const subProp of store.getQuads(propQuad.object, sh('name'), null, null)) {
- propSchema['title'] = subProp.object.value;
- }
- // Check sh:description
- for (const subProp of store.getQuads(propQuad.object, sh('description'), null, null)) {
- propSchema['description'] = subProp.object.value;
- }
- // Check sh:message (override description if found)
- for (const subProp of store.getQuads(propQuad.object, sh('message'), null, null)) {
- propSchema['description'] = subProp.object.value;
- }
-
- // Check sh:minCount
- let propMinCount = null;
- for (const minCountQuad of store.getQuads(propQuad.object, sh('minCount'), null, null)) {
- propMinCount = parseInt(minCountQuad.object.value);
- if (propMinCount > 0) {
- requiredProps.push(propPath);
- }
- }
- // Also check for sh:minInclusive if sh:minCount not found
- if (propMinCount === null) {
- for (const minCountQuad of store.getQuads(propQuad.object, sh('minInclusive'), null, null)) {
- propMinCount = parseInt(minCountQuad.object.value);
- if (propMinCount > 0) {
- requiredProps.push(propPath);
- }
- }
- }
-
- // Check sh:datatype (if integer)
- for (const subProp of store.getQuads(propQuad.object, sh('datatype'), null, null)) {
- if (subProp.object.value.toString() === 'http://www.w3.org/2001/XMLSchema#integer') {
- propSchema['type'] = 'number';
- }
- }
-
- // Check if sh:pattern, override the URI pattern if present
- for (const subProp of store.getQuads(propQuad.object, sh('pattern'), null, null)) {
- propSchema['pattern'] = subProp.object.value;
- }
-
- // Check if other nodes and process them recursively:
- for (const subProp of store.getQuads(propQuad.object, sh('node'), null, null)) {
- for (const subPropShape of store.getQuads(
- subProp.object,
- namedNode('http://www.w3.org/1999/02/22-rdf-syntax-ns#type'),
- sh('NodeShape'),
- null
- )) {
- console.log(
- `Found a sh:node pointing to another NodeShape: ${subPropShape.subject.value.toString()}, generating nested object in the JSON Schema`
- );
-
- const subSchema = shacl2jsonschema(store, subPropShape.subject.value.toString(), context, propSchema['title']);
- // console.log('subSchema!', subSchema['jsonschema'])
- propSchema = subSchema['jsonschema'];
- jsonld[propPath] = subSchema['jsonld'];
- // propSchema = subSchema['jsonld']
- // json
- }
- }
-
- if (!propSchema['type']) {
- propSchema['type'] = 'string';
- }
- jsonschema['properties'][propPath] = propSchema;
- }
- jsonschema['required'] = requiredProps;
- console.log('One of the JSON Schema generated for the SHACL shape:', jsonschema);
- return {jsonschema, jsonld, context};
-};
diff --git a/astro-frontend/src/env.d.ts b/astro-frontend/src/env.d.ts
deleted file mode 100644
index 989263c..0000000
--- a/astro-frontend/src/env.d.ts
+++ /dev/null
@@ -1,4 +0,0 @@
-/// ;
- rightLinks?: Array;
-}
-
-const {
- leftLinks = [
- {
- text: 'Browse Nanopubs',
- tooltip: '🔍️ Browse Nanopublications',
- href: `${settings.basePath}/`,
- icon: 'search'
- },
- {
- text: 'Annotate text',
- tooltip: '🏷️ Annotate biomedical text, and publish the assertion as Nanopublication',
- href: `${settings.basePath}/annotate`,
- icon: 'local_offer'
- },
- {
- text: 'Shape form',
- tooltip: '📝 Define and publish RDF nanopublications from SHACL shapes',
- href: `${settings.basePath}/shape-publisher`,
- icon: 'dynamic_form'
- }
- ],
-
- rightLinks = [
- {
- text: 'API',
- tooltip: '📖 Access the OpenAPI documentation of the API used by this service',
- href: settings.docsUrl,
- // icon: "search",
- img: 'openapi_logo.svg'
- },
- {
- tooltip: 'ℹ️ About the Knowledge Collaboratory',
- href: `${settings.basePath}/about`,
- icon: 'info'
- },
- {
- tooltip: 'Source code on GitHub',
- href: 'https://github.com/MaastrichtU-IDS/knowledge-collaboratory',
- img: 'github.svg',
- cssClass: 'whiteSvgIcon'
- }
- ]
-} = Astro.props;
----
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
diff --git a/astro-frontend/src/layouts/Layout.astro b/astro-frontend/src/layouts/Layout.astro
deleted file mode 100644
index 94b20e0..0000000
--- a/astro-frontend/src/layouts/Layout.astro
+++ /dev/null
@@ -1,77 +0,0 @@
----
-import './globals.css';
-import '@fontsource/open-sans/400.css';
-
-import Footer from './Footer.astro';
-import Header from './Header.astro';
-
-// const theme = createTheme({
-// palette: {
-// primary: { light: '#6ec6ff', main: '#2196f3', dark: '#0069c0' }, // blue
-// secondary: { light: '#76d275', main: '#43a047', dark: '#00701a' }, // green
-// // default: { light: '#fafafa', main: '#eceff1', dark: grey[600] }
-// // success: { light: '#ffe0b2', main: '#a5d6a7', dark: '#00600f' }, // green
-// // info: { light: '#b3e5fc', main: '#81d4fa', dark: '#00600f' }, // blue
-// // warning: { light: '#c8e6c9', main: '#ffcc80', dark: '#00600f' }, // orange
-// // error: { light: '#ffcdd2', main: '#ef9a9a', dark: '#e57373' }, // red
-// },
-// typography: {
-// "fontFamily": "\"Open Sans\", \"Roboto\", \"Arial\"",
-// "fontWeightLight": 300,
-// "fontWeightRegular": 400,
-// "fontWeightMedium": 500,
-// "fontSize": 11
-// },
-// });
-
-export interface Props {
- title: string;
-}
-
-const {title} = Astro.props;
----
-
-
-
-
- {title}
-
-
-
-
-
-
-
-
-
diff --git a/astro-frontend/src/layouts/MarkdownLayout.astro b/astro-frontend/src/layouts/MarkdownLayout.astro
deleted file mode 100644
index d23d2c2..0000000
--- a/astro-frontend/src/layouts/MarkdownLayout.astro
+++ /dev/null
@@ -1,17 +0,0 @@
----
-import Layout from './Layout.astro';
-
-export interface Props {
- title: string;
-}
-
-const {title} = Astro.props;
----
-
-
-
-
diff --git a/astro-frontend/src/layouts/globals.css b/astro-frontend/src/layouts/globals.css
deleted file mode 100644
index 9ef1120..0000000
--- a/astro-frontend/src/layouts/globals.css
+++ /dev/null
@@ -1,156 +0,0 @@
-@import url('https://fonts.googleapis.com/css2?family=Material+Symbols+Outlined:opsz,wght,FILL,GRAD@48,400,0,0');
-
-/* Check colors at https://docusaurus.io/fr/docs/styling-layout#styling-your-site-with-infima */
-:root {
- --color-primary-light: #6ec6ff;
- --color-primary: #2196f3;
- --color-primary-dark: #0069c0;
- --color-primary-darker: #12427e;
-
- --color-secondary-light: #76d275;
- --color-secondary: #43a047;
- --color-secondary-dark: #00701a;
- --color-accent: #43a047;
- --color-grey: #c0bfbc;
- --color-grey-dark: #5b5b66;
- --color-white: #fff;
-}
-
-body {
- font-family: 'Roboto', sans-serif;
- /* font-family: "Open Sans", "Roboto", sans-serif; */
- margin: 0px;
-}
-a {
- color: var(--color-primary-dark);
- text-decoration: none;
-}
-a:hover {
- color: var(--color-primary);
- text-decoration: none;
-}
-h2 {
- font-weight: 300;
- text-align: center;
- margin-top: 0px;
- margin-bottom: 16px;
-}
-p {
- font-size: small;
-}
-
-mark {
- cursor: pointer;
-}
-pre {
- border: 2px solid grey;
- padding: 1em;
-}
-code {
- font-size: 11px;
- border-radius: 10px;
- padding: 3px;
-}
-pre,
-code {
- font-family: monospace, monospace;
- border-radius: 6px;
- color: #adbac7;
- background: #22272e;
- /* padding: 5px; */
- /* background-color: #78909c; */
-}
-
-.flexGrow {
- flex-grow: 1;
-}
-.mainView {
- min-height: 100vh;
- height: 100%;
- width: 100%;
- background-color: #eceff1;
- display: flex;
- flex-basis: auto;
- flex-direction: column;
- flex-shrink: 0;
-}
-.mainContainer {
- margin-top: 30px;
- margin-bottom: 20px;
- text-align: left;
-}
-.mainText {
- text-align: 'left';
- margin-bottom: 20px;
-}
-.markdownContainer {
- max-width: 1200px;
- text-align: left;
- margin: 32px 16px;
-}
-.markdownContainer h2 {
- text-align: left;
-}
-
-.paper {
- padding: 16px;
-}
-.paperMargin {
- padding: 16px;
- margin: 16px;
-}
-
-/* Get the right filter at https://codepen.io/sosuke/pen/Pjoqqp */
-.whiteSvgIcon {
- filter: invert(100%) sepia(0%) saturate(7500%) hue-rotate(345deg) brightness(104%) contrast(107%);
-}
-/* .whiteSvgIcon:hover {
- filter: invert(91%) sepia(1%) saturate(798%) hue-rotate(7deg) brightness(76%) contrast(82%);
-} */
-
-.button {
- text-transform: none;
- /* margin: 16px; */
-}
-.linkButton {
- text-transform: none;
- text-decoration: none;
- color: #fff;
-}
-.MuiButton-root.MuiButton-contained {
- text-transform: none;
-}
-.loginButton {
- text-transform: none;
- text-decoration: none;
- padding: 0px;
- border: 0;
- color: 'inherit';
- border-radius: 8px;
-}
-
-.MuiFormLabel-root.MuiInputLabel-root {
- z-index: 100;
-}
-
-.input {
- background: #fff;
-}
-
-/* CSS for React JSON schema form (rjsf), it bugs and use the root id for some styling */
-fieldset#root {
- display: inline-block;
-}
-.ms-Grid-col.ms-sm12.field.field-object {
- /* margin-left: 16px; */
- margin-bottom: 32px !important;
- border-bottom: 1px solid grey;
-}
-
-/* @import url("https://maxcdn.bootstrapcdn.com/bootstrap/3.3.7/css/bootstrap.min.css"); */
-/* Bootstrap imported for rjsf default (mui bug) */
-
-/* Not really using TailwindCSS at the moment, creating too many conflicts with existing styles */
-/* @tailwind base;
-@tailwind components;
-@tailwind utilities; */
diff --git a/astro-frontend/src/pages/about.md b/astro-frontend/src/pages/about.md
deleted file mode 100644
index b3c048d..0000000
--- a/astro-frontend/src/pages/about.md
+++ /dev/null
@@ -1,22 +0,0 @@
----
-title: About the Knowledge Collaboratory
-layout: ../layouts/MarkdownLayout.astro
----
-
-## ℹ️ About
-
-The Knowledge Collaboratory is a web service to help annotate biomedical text, query and publish [Nanopublications](https://nanopub.net/) for the [NIH NCATS Biomedical Data Translator project](https://ncats.nih.gov/translator). It provide the following functionalities:
-
-🔎 **Browse Nanopublications** through the web UI, or query them using the [Translator Reasoner API (TRAPI) specifications](https://github.com/NCATSTranslator/ReasonerAPI).
-
-✒️ **Annotate biomedical text** and publish the annotations as nanopublications after login with your [ORCID](https://orcid.org/).
-
-This service is developed by the [Institute of Data Science](https://www.maastrichtuniversity.nl/research/institute-data-science) at Maastricht University in collaboration with the NCATS Translator project.
-
-## ⚙️ How it works
-
-The Knowledge Collaboratory consists in an OpenAPI service and a user-friendly web UI to query the Nanopublications network, store Nanopublication authentication keys, and publish Nanopublications.
-
-🗄️ **Backend API**: an OpenAPI built with Python and FastAPI, to store the keys on the server, and run the process to publish a Nanopublication.
-
-🌐 **Webapp frontend**: a website built with TypeScript, ReactJS and Astro, to provide a user-friendly access to the Nanopublication network.
diff --git a/astro-frontend/src/pages/annotate.astro b/astro-frontend/src/pages/annotate.astro
deleted file mode 100644
index 29b68f9..0000000
--- a/astro-frontend/src/pages/annotate.astro
+++ /dev/null
@@ -1,8 +0,0 @@
----
-import Layout from '../layouts/Layout.astro';
-import PageAnnotate from '../app/PageAnnotate';
----
-
-
-
diff --git a/astro-frontend/src/pages/index.astro b/astro-frontend/src/pages/index.astro
deleted file mode 100644
index 2f1a615..0000000
--- a/astro-frontend/src/pages/index.astro
+++ /dev/null
@@ -1,8 +0,0 @@
----
-import Layout from '../layouts/Layout.astro';
-import PageBrowse from '../app/PageBrowse';
----
-
-
-
diff --git a/astro-frontend/src/pages/shape-publisher.astro b/astro-frontend/src/pages/shape-publisher.astro
deleted file mode 100644
index 02dac30..0000000
--- a/astro-frontend/src/pages/shape-publisher.astro
+++ /dev/null
@@ -1,8 +0,0 @@
----
-import Layout from '../layouts/Layout.astro';
-import ShapePublisher from '../app/PageShapePublisher';
----
-
-
-
diff --git a/astro-frontend/src/utils/biolinkModel.ts b/astro-frontend/src/utils/biolinkModel.ts
deleted file mode 100644
index 935942b..0000000
--- a/astro-frontend/src/utils/biolinkModel.ts
+++ /dev/null
@@ -1,2896 +0,0 @@
-const BIOLINK = 'https://w3id.org/biolink/vocab/';
-// const IDO = 'https://identifiers.org/'
-// const RDFS = 'http://www.w3.org/2000/01/rdf-schema#'
-
-// TODO: complete the list of ents?
-// RGB colors: https://www.rapidtables.com/web/color/RGB_Color.html
-export const ents = [
- {
- type: 'Association',
- label: 'Association',
- id: BIOLINK + 'Association',
- curie: 'biolink:Association',
- color: {r: 67, g: 198, b: 252}
- }, // Light blue
- {
- type: 'ChemicalEntity',
- label: 'Chemical Entity',
- id: BIOLINK + 'ChemicalEntity',
- curie: 'biolink:ChemicalEntity',
- color: {r: 255, g: 178, b: 102}
- }, // Orange
- {type: 'Drug', label: 'Drug', id: BIOLINK + 'Drug', curie: 'biolink:Drug', color: {r: 255, g: 102, b: 102}}, // Red
- {
- type: 'DiseaseOrPhenotypicFeature',
- label: 'Disease or Phenotypic Feature',
- id: BIOLINK + 'DiseaseOrPhenotypicFeature',
- curie: 'biolink:DiseaseOrPhenotypicFeature',
- color: {r: 47, g: 187, b: 171}
- }, // Blue green
- {
- type: 'Disease',
- label: 'Disease',
- id: BIOLINK + 'Disease',
- curie: 'biolink:Disease',
- color: {r: 47, g: 187, b: 171}
- }, // Blue green
- {
- type: 'GeneOrGeneProduct',
- label: 'Gene or Gene Product',
- id: BIOLINK + 'GeneOrGeneProduct',
- curie: 'biolink:GeneOrGeneProduct',
- color: {r: 218, g: 112, b: 214}
- }, // Purple
- {
- type: 'GeneProduct',
- label: 'Gene Product',
- id: BIOLINK + 'GeneProduct',
- curie: 'biolink:GeneProduct',
- color: {r: 218, g: 112, b: 214}
- }, // Purple
- {
- type: 'SequenceVariant',
- label: 'Sequence Variant',
- id: BIOLINK + 'SequenceVariant',
- curie: 'biolink:SequenceVariant',
- color: {r: 166, g: 226, b: 45}
- }, // Light green
- {type: 'Cohort', label: 'Cohort', id: BIOLINK + 'Cohort', curie: 'biolink:Cohort', color: {r: 204, g: 204, b: 0}}, // Yellow
- {
- type: 'StudyPopulation',
- label: 'Study Population',
- id: BIOLINK + 'StudyPopulation',
- curie: 'biolink:StudyPopulation',
- color: {r: 204, g: 204, b: 0}
- }, // Yellow
- {
- type: 'PopulationOfIndividualOrganisms',
- label: 'Population of Individual Organisms ',
- id: BIOLINK + 'PopulationOfIndividualOrganisms ',
- curie: 'biolink:PopulationOfIndividualOrganisms ',
- color: {r: 204, g: 204, b: 0}
- }, // Yellow
- {
- type: 'OrganismTaxon',
- label: 'Organism Taxon',
- id: BIOLINK + 'OrganismTaxon',
- curie: 'biolink:OrganismTaxon',
- color: {r: 204, g: 204, b: 0}
- }, // Yellow
- {
- type: 'NamedEntity',
- label: 'NamedEntity',
- id: BIOLINK + 'NamedEntity',
- curie: 'biolink:NamedEntity',
- color: {r: 255, g: 102, b: 102}
- } // Red
-];
-
-// https://biolink.github.io/biolink-model/docs/predicates.html
-export const predicatesList = [
- {id: 'https://w3id.org/biolink/vocab/treats', curie: 'biolink:treats', label: 'Treats', type: 'BioLink'},
- {id: 'https://w3id.org/biolink/vocab/treated_by', curie: 'biolink:treated_by', label: 'Treated by', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/interacts_with',
- curie: 'biolink:interacts_with',
- label: 'Interacts with',
- type: 'BioLink'
- },
-
- {
- id: 'https://w3id.org/biolink/vocab/abundance_affected_by',
- curie: 'biolink:abundance_affected_by',
- label: 'abundance affected by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/abundance_decreased_by',
- curie: 'biolink:abundance_decreased_by',
- label: 'abundance decreased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/abundance_increased_by',
- curie: 'biolink:abundance_increased_by',
- label: 'abundance increased by',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/active_in', curie: 'biolink:active_in', label: 'active in', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/actively_involved_in',
- curie: 'biolink:actively_involved_in',
- label: 'actively involved in',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/actively_involves',
- curie: 'biolink:actively_involves',
- label: 'actively involves',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/activity_affected_by',
- curie: 'biolink:activity_affected_by',
- label: 'activity affected by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/activity_decreased_by',
- curie: 'biolink:activity_decreased_by',
- label: 'activity decreased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/activity_increased_by',
- curie: 'biolink:activity_increased_by',
- label: 'activity increased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/acts_upstream_of',
- curie: 'biolink:acts_upstream_of',
- label: 'acts upstream of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/acts_upstream_of_negative_effect',
- curie: 'biolink:acts_upstream_of_negative_effect',
- label: 'acts upstream of negative effect',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/acts_upstream_of_or_within',
- curie: 'biolink:acts_upstream_of_or_within',
- label: 'acts upstream of or within',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/acts_upstream_of_or_within_negative_effect',
- curie: 'biolink:acts_upstream_of_or_within_negative_effect',
- label: 'acts upstream of or within negative effect',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/acts_upstream_of_or_within_positive_effect',
- curie: 'biolink:acts_upstream_of_or_within_positive_effect',
- label: 'acts upstream of or within positive effect',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/acts_upstream_of_positive_effect',
- curie: 'biolink:acts_upstream_of_positive_effect',
- label: 'acts upstream of positive effect',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/adverse_event_caused_by',
- curie: 'biolink:adverse_event_caused_by',
- label: 'adverse event caused by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affected_by',
- curie: 'biolink:affected_by',
- label: 'affected by',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/affects', curie: 'biolink:affects', label: 'affects', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/affects_abundance_of',
- curie: 'biolink:affects_abundance_of',
- label: 'affects abundance of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_activity_of',
- curie: 'biolink:affects_activity_of',
- label: 'affects activity of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_degradation_of',
- curie: 'biolink:affects_degradation_of',
- label: 'affects degradation of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_expression_in',
- curie: 'biolink:affects_expression_in',
- label: 'affects expression in',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_expression_of',
- curie: 'biolink:affects_expression_of',
- label: 'affects expression of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_folding_of',
- curie: 'biolink:affects_folding_of',
- label: 'affects folding of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_localization_of',
- curie: 'biolink:affects_localization_of',
- label: 'affects localization of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_metabolic_processing_of',
- curie: 'biolink:affects_metabolic_processing_of',
- label: 'affects metabolic processing of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_molecular_modification_of',
- curie: 'biolink:affects_molecular_modification_of',
- label: 'affects molecular modification of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_mutation_rate_of',
- curie: 'biolink:affects_mutation_rate_of',
- label: 'affects mutation rate of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_response_to',
- curie: 'biolink:affects_response_to',
- label: 'affects response to',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_risk_for',
- curie: 'biolink:affects_risk_for',
- label: 'affects risk for',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_secretion_of',
- curie: 'biolink:affects_secretion_of',
- label: 'affects secretion of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_splicing_of',
- curie: 'biolink:affects_splicing_of',
- label: 'affects splicing of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_stability_of',
- curie: 'biolink:affects_stability_of',
- label: 'affects stability of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_synthesis_of',
- curie: 'biolink:affects_synthesis_of',
- label: 'affects synthesis of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_transport_of',
- curie: 'biolink:affects_transport_of',
- label: 'affects transport of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/affects_uptake_of',
- curie: 'biolink:affects_uptake_of',
- label: 'affects uptake of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/ameliorates',
- curie: 'biolink:ameliorates',
- label: 'ameliorates',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/approved_for_treatment_by',
- curie: 'biolink:approved_for_treatment_by',
- label: 'approved for treatment by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/approved_to_treat',
- curie: 'biolink:approved_to_treat',
- label: 'approved to treat',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/associated_with',
- curie: 'biolink:associated_with',
- label: 'associated with',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/associated_with_resistance_to',
- curie: 'biolink:associated_with_resistance_to',
- label: 'associated with resistance to',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/associated_with_sensitivity_to',
- curie: 'biolink:associated_with_sensitivity_to',
- label: 'associated with sensitivity to',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/author', curie: 'biolink:author', label: 'author', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/biomarker_for',
- curie: 'biolink:biomarker_for',
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- {
- id: 'https://w3id.org/biolink/vocab/secretion_increased_by',
- curie: 'biolink:secretion_increased_by',
- label: 'secretion increased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/sensitivity_associated_with',
- curie: 'biolink:sensitivity_associated_with',
- label: 'sensitivity associated with',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/sequence_location_of',
- curie: 'biolink:sequence_location_of',
- label: 'sequence location of',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/similar_to', curie: 'biolink:similar_to', label: 'similar to', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/splicing_affected_by',
- curie: 'biolink:splicing_affected_by',
- label: 'splicing affected by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/splicing_decreased_by',
- curie: 'biolink:splicing_decreased_by',
- label: 'splicing decreased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/splicing_increased_by',
- curie: 'biolink:splicing_increased_by',
- label: 'splicing increased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/stability_affected_by',
- curie: 'biolink:stability_affected_by',
- label: 'stability affected by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/stability_decreased_by',
- curie: 'biolink:stability_decreased_by',
- label: 'stability decreased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/stability_increased_by',
- curie: 'biolink:stability_increased_by',
- label: 'stability increased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/subclass_of',
- curie: 'biolink:subclass_of',
- label: 'subclass of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/superclass_of',
- curie: 'biolink:superclass_of',
- label: 'superclass of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/synthesis_affected_by',
- curie: 'biolink:synthesis_affected_by',
- label: 'synthesis affected by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/synthesis_decreased_by',
- curie: 'biolink:synthesis_decreased_by',
- label: 'synthesis decreased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/synthesis_increased_by',
- curie: 'biolink:synthesis_increased_by',
- label: 'synthesis increased by',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/taxon_of', curie: 'biolink:taxon_of', label: 'taxon of', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/temporally_related_to',
- curie: 'biolink:temporally_related_to',
- label: 'temporally related to',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/transcribed_from',
- curie: 'biolink:transcribed_from',
- label: 'transcribed from',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/transcribed_to',
- curie: 'biolink:transcribed_to',
- label: 'transcribed to',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/translates_to',
- curie: 'biolink:translates_to',
- label: 'translates to',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/translation_of',
- curie: 'biolink:translation_of',
- label: 'translation of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/transport_affected_by',
- curie: 'biolink:transport_affected_by',
- label: 'transport affected by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/transport_decreased_by',
- curie: 'biolink:transport_decreased_by',
- label: 'transport decreased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/transport_increased_by',
- curie: 'biolink:transport_increased_by',
- label: 'transport increased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/uptake_affected_by',
- curie: 'biolink:uptake_affected_by',
- label: 'uptake affected by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/uptake_decreased_by',
- curie: 'biolink:uptake_decreased_by',
- label: 'uptake decreased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/uptake_increased_by',
- curie: 'biolink:uptake_increased_by',
- label: 'uptake increased by',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/variant_part_of',
- curie: 'biolink:variant_part_of',
- label: 'variant part of',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/xenologous_to',
- curie: 'biolink:xenologous_to',
- label: 'xenologous to',
- type: 'BioLink'
- }
-];
-
-// https://biolink.github.io/biolink-model/docs/edge_properties.html
-export const propertiesList = [
- {id: 'http://www.w3.org/1999/02/22-rdf-syntax-ns#subject', curie: 'rdf:subject', label: 'Subject', type: 'RDF'},
- {id: 'http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate', curie: 'rdf:predicate', label: 'Predicate', type: 'RDF'},
- {id: 'http://www.w3.org/1999/02/22-rdf-syntax-ns#subject', curie: 'rdf:object', label: 'Object', type: 'RDF'},
- {
- id: 'https://w3id.org/biolink/vocab/population_context_qualifier',
- curie: 'biolink:population_context_qualifier',
- label: 'population context qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/temporal_context_qualifier',
- curie: 'biolink:temporal_context_qualifier',
- label: 'temporal context qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/publications',
- curie: 'biolink:publications',
- label: 'publications',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/has_confidence_level',
- curie: 'biolink:has_confidence_level',
- label: 'has confidence level',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/has_evidence',
- curie: 'biolink:has_evidence',
- label: 'has evidence',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/has_supporting_study_result',
- curie: 'biolink:has_supporting_study_result',
- label: 'has supporting study result',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/supporting_data_source',
- curie: 'biolink:supporting_data_source',
- label: 'supporting data source',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/stoichiometry',
- curie: 'biolink:stoichiometry',
- label: 'stoichiometry',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/FDA_approval_status',
- curie: 'biolink:FDA_approval_status',
- label: 'FDA approval status',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/aggregator_knowledge_source',
- curie: 'biolink:aggregator_knowledge_source',
- label: 'aggregator knowledge source',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/associated_environmental_context',
- curie: 'biolink:associated_environmental_context',
- label: 'associated environmental context',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/association_slot',
- curie: 'biolink:association_slot',
- label: 'association slot',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/association_type',
- curie: 'biolink:association_type',
- label: 'association type',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/base_coordinate',
- curie: 'biolink:base_coordinate',
- label: 'base coordinate',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/catalyst_qualifier',
- curie: 'biolink:catalyst_qualifier',
- label: 'catalyst qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/chi_squared_statistic',
- curie: 'biolink:chi_squared_statistic',
- label: 'chi squared statistic',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/clinical_modifier_qualifier',
- curie: 'biolink:clinical_modifier_qualifier',
- label: 'clinical modifier qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/end_coordinate',
- curie: 'biolink:end_coordinate',
- label: 'end coordinate',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/end_interbase_coordinate',
- curie: 'biolink:end_interbase_coordinate',
- label: 'end interbase coordinate',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/expression_site',
- curie: 'biolink:expression_site',
- label: 'expression site',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/frequency_qualifier',
- curie: 'biolink:frequency_qualifier',
- label: 'frequency qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/interacting_molecules_category',
- curie: 'biolink:interacting_molecules_category',
- label: 'interacting molecules category',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/interbase_coordinate',
- curie: 'biolink:interbase_coordinate',
- label: 'interbase coordinate',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/knowledge_source',
- curie: 'biolink:knowledge_source',
- label: 'knowledge source',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/logical_interpretation',
- curie: 'biolink:logical_interpretation',
- label: 'logical interpretation',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/mechanism_of_action',
- curie: 'biolink:mechanism_of_action',
- label: 'mechanism of action',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/negated', curie: 'biolink:negated', label: 'negated', type: 'BioLink'},
- {id: 'https://w3id.org/biolink/vocab/object', curie: 'biolink:object', label: 'object', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/onset_qualifier',
- curie: 'biolink:onset_qualifier',
- label: 'onset qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/original_knowledge_source',
- curie: 'biolink:original_knowledge_source',
- label: 'original knowledge source',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/original_object',
- curie: 'biolink:original_object',
- label: 'original object',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/original_predicate',
- curie: 'biolink:original_predicate',
- label: 'original predicate',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/original_subject',
- curie: 'biolink:original_subject',
- label: 'original subject',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/p_value', curie: 'biolink:p_value', label: 'p value', type: 'BioLink'},
- {id: 'https://w3id.org/biolink/vocab/phase', curie: 'biolink:phase', label: 'phase', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/phenotypic_state',
- curie: 'biolink:phenotypic_state',
- label: 'phenotypic state',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/predicate', curie: 'biolink:predicate', label: 'predicate', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/primary_knowledge_source',
- curie: 'biolink:primary_knowledge_source',
- label: 'primary knowledge source',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/provided_by',
- curie: 'biolink:provided_by',
- label: 'provided by',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/qualifiers', curie: 'biolink:qualifiers', label: 'qualifiers', type: 'BioLink'},
- {
- id: 'https://w3id.org/biolink/vocab/quantifier_qualifier',
- curie: 'biolink:quantifier_qualifier',
- label: 'quantifier qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/reaction_balanced',
- curie: 'biolink:reaction_balanced',
- label: 'reaction balanced',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/reaction_direction',
- curie: 'biolink:reaction_direction',
- label: 'reaction direction',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/reaction_side',
- curie: 'biolink:reaction_side',
- label: 'reaction side',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/sequence_localization_attribute',
- curie: 'biolink:sequence_localization_attribute',
- label: 'sequence localization attribute',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/sequence_variant_qualifier',
- curie: 'biolink:sequence_variant_qualifier',
- label: 'sequence variant qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/severity_qualifier',
- curie: 'biolink:severity_qualifier',
- label: 'severity qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/sex_qualifier',
- curie: 'biolink:sex_qualifier',
- label: 'sex qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/stage_qualifier',
- curie: 'biolink:stage_qualifier',
- label: 'stage qualifier',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/start_coordinate',
- curie: 'biolink:start_coordinate',
- label: 'start coordinate',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/start_interbase_coordinate',
- curie: 'biolink:start_interbase_coordinate',
- label: 'start interbase coordinate',
- type: 'BioLink'
- },
- {
- id: 'https://w3id.org/biolink/vocab/genome_build',
- curie: 'biolink:genome_build',
- label: 'genome build',
- type: 'BioLink'
- },
- {id: 'https://w3id.org/biolink/vocab/strand', curie: 'biolink:strand', label: 'strand', type: 'BioLink'},
- {id: 'https://w3id.org/biolink/vocab/subject', curie: 'biolink:subject', label: 'subject', type: 'BioLink'}
-];
-
-export const context: any = {
- APO: 'http://purl.obolibrary.org/obo/APO_',
- AspGD: 'http://www.aspergillusgenome.org/cgi-bin/locus.pl?dbid=',
- BFO: 'http://purl.obolibrary.org/obo/BFO_',
- 'BIGG.METABOLITE': 'http://identifiers.org/bigg.metabolite/',
- 'BIGG.REACTION': 'http://identifiers.org/bigg.reaction/',
- BIOGRID: 'http://identifiers.org/biogrid/',
- BIOSAMPLE: 'http://identifiers.org/biosample/',
- BSPO: 'http://purl.obolibrary.org/obo/BSPO_',
- BTO: 'http://purl.obolibrary.org/obo/BTO_',
- CAID: 'http://reg.clinicalgenome.org/redmine/projects/registry/genboree_registry/by_caid?caid=',
- CAS: 'http://identifiers.org/cas/',
- CATH: 'http://identifiers.org/cath/',
- 'CATH.SUPERFAMILY': 'http://identifiers.org/cath.superfamily/',
- CDD: 'http://identifiers.org/cdd/',
- CHADO: 'http://gmod.org/wiki/Chado/',
- CHEBI: 'http://purl.obolibrary.org/obo/CHEBI_',
- 'CHEMBL.COMPOUND': 'http://identifiers.org/chembl.compound/',
- 'CHEMBL.MECHANISM': 'https://www.ebi.ac.uk/chembl/mechanism/inspect/',
- 'CHEMBL.TARGET': 'http://identifiers.org/chembl.target/',
- CID: 'http://pubchem.ncbi.nlm.nih.gov/compound/',
- CIO: 'http://purl.obolibrary.org/obo/CIO_',
- CL: 'http://purl.obolibrary.org/obo/CL_',
- CLINVAR: 'http://identifiers.org/clinvar',
- CLO: 'http://purl.obolibrary.org/obo/CLO_',
- COAR_RESOURCE: 'http://purl.org/coar/resource_type/',
- COG: 'https://www.ncbi.nlm.nih.gov/research/cog-project/',
- CPT: 'https://www.ama-assn.org/practice-management/cpt/',
- CTD: 'http://ctdbase.org/',
- 'CTD.CHEMICAL': 'http://ctdbase.org/detail.go?type=chem&acc=',
- 'CTD.DISEASE': 'http://ctdbase.org/detail.go?type=disease&db=MESH&acc=',
- 'CTD.GENE': 'http://ctdbase.org/detail.go?type=gene&acc=',
- ChemBank: 'http://chembank.broadinstitute.org/chemistry/viewMolecule.htm?cbid=',
- ClinVarVariant: 'http://www.ncbi.nlm.nih.gov/clinvar/variation/',
- DBSNP: 'http://identifiers.org/dbsnp/',
- DDANAT: 'http://purl.obolibrary.org/obo/DDANAT_',
- DGIdb: 'https://www.dgidb.org/interaction_types',
- DOID: 'http://purl.obolibrary.org/obo/DOID_',
- 'DOID-PROPERTY': 'http://purl.obolibrary.org/obo/doid#',
- DRUGBANK: 'http://identifiers.org/drugbank/',
- DrugCentral: 'http://drugcentral.org/drugcard/',
- EC: 'http://www.enzyme-database.org/query.php?ec=',
- ECO: 'http://purl.obolibrary.org/obo/ECO_',
- ECTO: 'http://purl.obolibrary.org/obo/ECTO_',
- 'EDAM-DATA': 'http://edamontology.org/data_',
- 'EDAM-FORMAT': 'http://edamontology.org/format_',
- 'EDAM-OPERATION': 'http://edamontology.org/operation_',
- 'EDAM-TOPIC': 'http://edamontology.org/topic_',
- EFO: 'http://www.ebi.ac.uk/efo/EFO_',
- EGGNOG: 'http://identifiers.org/eggnog/',
- ENSEMBL: 'http://identifiers.org/ensembl/',
- ENVO: 'http://purl.obolibrary.org/obo/ENVO_',
- ExO: 'http://purl.obolibrary.org/obo/ExO_',
- FAO: 'http://purl.obolibrary.org/obo/FAO_',
- FB: 'http://identifiers.org/fb/',
- FBcv: 'http://purl.obolibrary.org/obo/FBcv_',
- FMA: 'http://purl.obolibrary.org/obo/FMA_',
- FOODON: 'http://purl.obolibrary.org/obo/FOODON_',
- FYPO: 'http://purl.obolibrary.org/obo/FYPO_',
- GAMMA: 'http://translator.renci.org/GAMMA_',
- GENEPIO: 'http://purl.obolibrary.org/obo/GENEPIO_',
- GENO: 'http://purl.obolibrary.org/obo/GENO_',
- GO: 'http://purl.obolibrary.org/obo/GO_',
- 'GOLD.META': 'http://identifiers.org/gold.meta/',
- GOP: 'http://purl.obolibrary.org/obo/go#',
- GOREL: 'http://purl.obolibrary.org/obo/GOREL_',
- GSID: 'https://scholar.google.com/citations?user=',
- GTEx: 'https://www.gtexportal.org/home/gene/',
- GTOPDB: 'https://www.guidetopharmacology.org/GRAC/LigandDisplayForward?ligandId=',
- HAMAP: 'http://identifiers.org/hamap/',
- HANCESTRO: 'http://www.ebi.ac.uk/ancestro/ancestro_',
- HCPCS: 'http://purl.bioontology.org/ontology/HCPCS/',
- HGNC: 'http://identifiers.org/hgnc/',
- 'HGNC.FAMILY': 'http://identifiers.org/hgnc.family/',
- HMDB: 'http://identifiers.org/hmdb/',
- HP: 'http://purl.obolibrary.org/obo/HP_',
- HsapDv: 'http://purl.obolibrary.org/obo/HsapDv_',
- IAO: 'http://purl.obolibrary.org/obo/IAO_',
- ICD10: 'https://icd.codes/icd9cm/',
- ICD9: 'http://translator.ncats.nih.gov/ICD9_',
- IDO: 'http://purl.obolibrary.org/obo/IDO_',
- INCHI: 'http://identifiers.org/inchi/',
- INCHIKEY: 'http://identifiers.org/inchikey/',
- INO: 'http://purl.obolibrary.org/obo/INO_',
- INTACT: 'http://identifiers.org/intact/',
- 'IUPHAR.FAMILY': 'http://identifiers.org/iuphar.family/',
- KEGG: 'http://identifiers.org/kegg/',
- 'KEGG.BRITE': 'http://www.kegg.jp/entry/',
- 'KEGG.COMPOUND': 'http://identifiers.org/kegg.compound/',
- 'KEGG.DGROUP': 'http://www.kegg.jp/entry/',
- 'KEGG.DISEASE': 'http://identifiers.org/kegg.disease/',
- 'KEGG.DRUG': 'http://identifiers.org/kegg.drug/',
- 'KEGG.ENVIRON': 'http://identifiers.org/kegg.environ/',
- 'KEGG.ENZYME': 'http://www.kegg.jp/entry/',
- 'KEGG.GENE': 'http://www.kegg.jp/entry/',
- 'KEGG.GLYCAN': 'http://identifiers.org/kegg.glycan/',
- 'KEGG.MODULE': 'http://identifiers.org/kegg.module/',
- 'KEGG.ORTHOLOGY': 'http://identifiers.org/kegg.orthology/',
- 'KEGG.PATHWAY': 'https://www.kegg.jp/entry/',
- 'KEGG.RCLASS': 'http://www.kegg.jp/entry/',
- 'KEGG.REACTION': 'http://identifiers.org/kegg.reaction/',
- LOINC: 'http://loinc.org/rdf/',
- MAXO: 'http://purl.obolibrary.org/obo/MAXO_',
- MEDDRA: 'http://identifiers.org/meddra/',
- MESH: 'http://id.nlm.nih.gov/mesh/',
- 'METANETX.REACTION': 'https://www.metanetx.org/equa_info/',
- MGI: 'http://identifiers.org/mgi/',
- MI: 'http://purl.obolibrary.org/obo/MI_',
- MIR: 'http://identifiers.org/mir/',
- MONDO: 'http://purl.obolibrary.org/obo/MONDO_',
- MP: 'http://purl.obolibrary.org/obo/MP_',
- MPATH: 'http://purl.obolibrary.org/obo/MPATH_',
- MSigDB: 'https://www.gsea-msigdb.org/gsea/msigdb/',
- NBO: 'http://purl.obolibrary.org/obo/NBO_',
- 'NBO-PROPERTY': 'http://purl.obolibrary.org/obo/nbo#',
- NCBIGene: 'http://identifiers.org/ncbigene/',
- NCBITaxon: 'http://purl.obolibrary.org/obo/NCBITaxon_',
- NCIT: 'http://purl.obolibrary.org/obo/NCIT_',
- 'NCIT-OBO': 'http://purl.obolibrary.org/obo/ncit#',
- NDC: 'http://identifiers.org/ndc/',
- NDDF: 'http://purl.bioontology.org/ontology/NDDF/',
- NLMID: 'https://www.ncbi.nlm.nih.gov/nlmcatalog/?term=',
- OBAN: 'http://purl.org/oban/',
- OBI: 'http://purl.obolibrary.org/obo/OBI_',
- OBOREL: 'http://purl.obolibrary.org/obo/RO_',
- OGMS: 'http://purl.obolibrary.org/obo/OGMS_',
- OIO: 'http://www.geneontology.org/formats/oboInOwl#',
- OMIM: 'http://purl.obolibrary.org/obo/OMIM_',
- 'OMIM.PS': 'https://www.omim.org/phenotypicSeries/',
- ORCID: 'https://orcid.org/',
- ORPHA: 'http://www.orpha.net/ORDO/Orphanet_',
- ORPHANET: 'http://identifiers.org/orphanet/',
- 'PANTHER.FAMILY': 'http://www.pantherdb.org/panther/family.do?clsAccession=',
- 'PANTHER.PATHWAY': 'http://identifiers.org/panther.pathway/',
- PATO: 'http://purl.obolibrary.org/obo/PATO_',
- PCO: 'http://purl.obolibrary.org/obo/PCO_',
- PFAM: 'http://identifiers.org/pfam/',
- 'PHARMGKB.PATHWAYS': 'http://identifiers.org/pharmgkb.pathways/',
- PHAROS: 'http://pharos.nih.gov',
- PIRSF: 'http://identifiers.org/pirsf/',
- PMID: 'http://www.ncbi.nlm.nih.gov/pubmed/',
- PO: 'http://purl.obolibrary.org/obo/PO_',
- PR: 'http://purl.obolibrary.org/obo/PR_',
- PRINTS: 'http://identifiers.org/prints/',
- PRODOM: 'http://identifiers.org/prodom/',
- PROSITE: 'http://identifiers.org/prosite/',
- 'PUBCHEM.COMPOUND': 'http://identifiers.org/pubchem.compound/',
- 'PUBCHEM.SUBSTANCE': 'http://identifiers.org/pubchem.substance/',
- PW: 'http://purl.obolibrary.org/obo/PW_',
- PathWhiz: 'http://smpdb.ca/pathways/#',
- PomBase: 'https://www.pombase.org/gene/',
- REACT: 'http://www.reactome.org/PathwayBrowser/#/',
- REPODB: 'http://apps.chiragjpgroup.org/repoDB/',
- RFAM: 'http://identifiers.org/rfam/',
- RGD: 'http://identifiers.org/rgd/',
- RHEA: 'http://identifiers.org/rhea/',
- RNACENTRAL: 'http://identifiers.org/rnacentral/',
- RO: 'http://purl.obolibrary.org/obo/RO_',
- RXCUI: 'https://mor.nlm.nih.gov/RxNav/search?searchBy=RXCUI&searchTerm=',
- RXNORM: 'http://purl.bioontology.org/ontology/RXNORM/',
- ResearchID: 'https://publons.com/researcher/',
- 'SEED.REACTION': 'https://modelseed.org/biochem/reactions/',
- SEMMEDDB: 'https://skr3.nlm.nih.gov/SemMedDB',
- SEPIO: 'http://purl.obolibrary.org/obo/SEPIO_',
- SGD: 'http://identifiers.org/sgd/',
- 'SIDER.DRUG': 'http://identifiers.org/sider.drug/',
- SIO: 'http://semanticscience.org/resource/SIO_',
- SMART: 'http://identifiers.org/smart/',
- SMPDB: 'http://identifiers.org/smpdb/',
- SNOMED: 'http://www.snomedbrowser.com/Codes/Details/',
- SNOMEDCT: 'http://www.snomedbrowser.com/Codes/Details/',
- SO: 'http://purl.obolibrary.org/obo/SO_',
- STATO: 'http://purl.obolibrary.org/obo/STATO_',
- STY: 'http://purl.bioontology.org/ontology/STY/',
- SUPFAM: 'http://identifiers.org/supfam/',
- ScopusID: 'https://www.scopus.com/authid/detail.uri?authorId=',
- TAXRANK: 'http://purl.obolibrary.org/obo/TAXRANK_',
- TCDB: 'http://identifiers.org/tcdb/',
- TIGRFAM: 'http://identifiers.org/tigrfam/',
- TO: 'http://purl.obolibrary.org/obo/TO_',
- UBERGRAPH: 'http://translator.renci.org/ubergraph-axioms.ofn#',
- UBERON: 'http://purl.obolibrary.org/obo/UBERON_',
- UBERON_CORE: 'http://purl.obolibrary.org/obo/uberon/core#',
- UBERON_NONAMESPACE: 'http://purl.obolibrary.org/obo/core#',
- UMLS: 'http://identifiers.org/umls/',
- UMLSSG: 'https://lhncbc.nlm.nih.gov/semanticnetwork/download/sg_archive/SemGroups-v04.txt',
- UNII: 'http://identifiers.org/unii/',
- 'UNIPROT.ISOFORM': 'http://identifiers.org/uniprot.isoform/',
- 'UO-PROPERTY': 'http://purl.obolibrary.org/obo/uo#',
- UPHENO: 'http://purl.obolibrary.org/obo/UPHENO_',
- UniProtKB: 'http://identifiers.org/uniprot/',
- VANDF: 'https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/VANDF/',
- VMC: 'https://github.com/ga4gh/vr-spec/',
- WB: 'http://identifiers.org/wb/',
- WBPhenotype: 'http://purl.obolibrary.org/obo/WBPhenotype_',
- WBVocab: 'http://bio2rdf.org/wormbase_vocabulary',
- WIKIDATA: 'https://www.wikidata.org/wiki/',
- WIKIDATA_PROPERTY: 'https://www.wikidata.org/wiki/Property:',
- WIKIPATHWAYS: 'http://identifiers.org/wikipathways/',
- WormBase: 'https://www.wormbase.org/get?name=',
- XCO: 'http://purl.obolibrary.org/obo/XCO_',
- XPO: 'http://purl.obolibrary.org/obo/XPO_',
- Xenbase: 'http://www.xenbase.org/gene/showgene.do?method=display&geneId=',
- ZFIN: 'http://identifiers.org/zfin/',
- ZP: 'http://purl.obolibrary.org/obo/ZP_',
- alliancegenome: 'https://www.alliancegenome.org/',
- apollo: 'https://github.com/GMOD/Apollo',
- biolink: 'https://w3id.org/biolink/vocab/',
- bioschemas: 'https://bioschemas.org/',
- dcat: 'http://www.w3.org/ns/dcat#',
- dcid: 'https://datacommons.org/browser/',
- dct: 'http://purl.org/dc/terms/',
- dctypes: 'http://purl.org/dc/dcmitype/',
- dictyBase: 'http://dictybase.org/gene/',
- doi: 'https://doi.org/',
- fabio: 'http://purl.org/spar/fabio/',
- faldo: 'http://biohackathon.org/resource/faldo#',
- foaf: 'http://xmlns.com/foaf/0.1/',
- 'foodb.compound': 'http://foodb.ca/compounds/',
- gff3: 'https://github.com/The-Sequence-Ontology/Specifications/blob/master/gff3.md#',
- gpi: 'https://github.com/geneontology/go-annotation/blob/master/specs/gpad-gpi-2-0.md#',
- gtpo: 'https://rdf.guidetopharmacology.org/ns/gtpo#',
- interpro: 'https://www.ebi.ac.uk/interpro/entry/',
- isbn: 'https://www.isbn-international.org/identifier/',
- isni: 'https://isni.org/isni/',
- issn: 'https://portal.issn.org/resource/ISSN/',
- linkml: 'https://w3id.org/linkml/',
- medgen: 'https://www.ncbi.nlm.nih.gov/medgen/',
- 'metacyc.reaction': 'https://identifiers.org/metacyc.reaction:',
- mirbase: 'http://identifiers.org/mirbase',
- oboInOwl: 'http://www.geneontology.org/formats/oboInOwl#',
- oboformat: 'http://www.geneontology.org/formats/oboInOwl#',
- os: 'https://github.com/cmungall/owlstar/blob/master/owlstar.ttl',
- owl: 'http://www.w3.org/2002/07/owl#',
- pav: 'http://purl.org/pav/',
- prov: 'http://www.w3.org/ns/prov#',
- qud: 'http://qudt.org/1.1/schema/qudt#',
- rdf: 'http://www.w3.org/1999/02/22-rdf-syntax-ns#',
- rdfs: 'http://www.w3.org/2000/01/rdf-schema#',
- schema: 'http://schema.org/',
- skos: 'http://www.w3.org/2004/02/skos/core#',
- wgs: 'http://www.w3.org/2003/01/geo/wgs84_pos',
- xsd: 'http://www.w3.org/2001/XMLSchema#'
-};
-
-export const sentenceToAnnotate = [
- {
- text: 'Iloperidone tablets are indicated for the treatment of schizophrenia in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=eeb0fcfd-e4e8-4fb1-9635-901dc9446235'
- },
- {
- text: 'Clozapine is indicated for the treatment of severely ill patients with schizophrenia who fail to respond adequately to standard antipsychotic treatment',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=25c0c6d5-f7b0-48e4-e054-00144ff8d46c'
- },
- {
- text: 'Clonidine hydrochloride injection is indicated in combination with opiates for the treatment of severe pain in cancer patients that is not adequately relieved by opioid analgesics alone',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=d2b11e61-b2ef-4d20-8973-a4afc6b951ae'
- },
- {
- text: 'For the management of acute pain in adults',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=27d813ea-7798-09cb-734b-b970d7248f1f'
- },
- {
- text: "ARICEPT is indicated for the treatment of dementia of the Alzheimer's type.",
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=2b1b7b5f-2f20-418c-b1ac-794c2ef1ce5e'
- },
- {
- text: 'Buspirone hydrochloride tablets are indicated for the management of anxiety disorders or the short-term relief of the symptoms of anxiety. Anxiety or tension associated with the stress of everyday life usually does not require treatment with an anxiolytic.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=33999f17-f689-40a1-955a-fb19c0590e0e'
- },
- {
- text: 'Lithium Carbonate Extended-Release Tablets USP are indicated in the treatment of manic episodes of Bipolar Disorder.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ebda1da0-38a2-49a0-8478-5d1d991a63bd'
- },
- {
- text: "Memantine hydrochloride oral solution is indicated for the treatment of moderate to severe dementia of the Alzheimer's type.",
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=4076d3ef-d0a9-96c5-1a15-812c1e42929c'
- },
- {
- text: 'Clonazepam is useful alone or as an adjunct in the treatment of the Lennox-Gastaut syndrome (petit mal variant), akinetic and myoclonic seizures.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=acbce0e8-5098-4785-943b-8bdb5ff17fab'
- },
- {
- text: 'Clonazepam is indicated for the treatment of panic disorder, with or without agoraphobia, as defined in DSM-IV',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=acbce0e8-5098-4785-943b-8bdb5ff17fab'
- },
- {
- text: 'Venlafaxine tablets, USP are indicated for the treatment of major depressive disorder.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=b23637e5-d37f-41b5-ba76-fc053e903bc2'
- },
- {
- text: 'AIMOVIG is indicated for the preventive treatment of migraine in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=b998ed05-94b0-47fd-b28f-cddd1e128fd8'
- },
- {
- text: 'AMRIX (cyclobenzaprine hydrochloride extended-release capsules) is indicated as an adjunct to rest and physical therapy for relief of muscle spasm associated with acute, painful musculoskeletal conditions.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=3902123b-1365-ac3c-0934-afff9eeeb1bd'
- },
- {
- text: 'Amphetamine sulfate tablets, USP 5 mg and 10 mg are indicated for: Narcolepsy',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=53d40847-e0d3-48ec-81a7-ec5478553565'
- },
- {
- text: 'Amphetamine sulfate tablets, USP 5 mg and 10 mg are indicated for: Attention Deficit Disorder with Hyperactivity as an integral part of a total treatment program which typically includes other remedial measures (psychological, educational, social) for a stabilizing effect in children with behavioral syndrome characterized by the following group of developmentally inappropriate symptoms: moderate to severe distractibility, short attention span, hyperactivity, emotional lability, and impulsivity. The diagnosis of the syndrome should not be made with finality when these symptoms are only of comparatively recent origin. Nonlocalizing (soft) neurological signs, learning disability, and abnormal EEG may or may not be present, and a diagnosis of central nervous system dysfunction may or not be warranted.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=53d40847-e0d3-48ec-81a7-ec5478553565'
- },
- {
- text: 'Clonazepam is useful alone or as an adjunct in the treatment of the Lennox-Gastaut syndrome (petit mal variant), akinetic and myoclonic seizures.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=acbce0e8-5098-4785-943b-8bdb5ff17fab'
- },
- {
- text: 'Methylphenidate Hydrochloride is indicated as an integral part of a total treatment program which typically includes other remedial measures (psychological, educational, social) for a stabilizing effect in children with a behavioral syndrome characterized by the following group of developmentally inappropriate symptoms: moderate-to-severe distractibility, short attention span, hyperactivity, emotional lability, and impulsivity',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=2cf1b26b-199d-4c7f-ab64-4805a9def2cc'
- },
- {
- text: 'Indications and Usage: Attention Deficit Disorders, Narcolepsy',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=2cf1b26b-199d-4c7f-ab64-4805a9def2cc'
- },
- {
- text: 'Lamotrigine tablets are indicated as adjunctive therapy for the following seizure types in patients aged 2 years and older',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0b0f0209-edbd-46f3-9bed-762cbea0d737'
- },
- {
- text: 'Lamotrigine tablets are indicated for conversion to monotherapy in adults (aged 16 years and older) with partial-onset seizures who are receiving treatment with carbamazepine, phenytoin, phenobarbital, primidone, or valproate as the single antiepileptic drug (AED).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0b0f0209-edbd-46f3-9bed-762cbea0d737'
- },
- {
- text: 'Lamotrigine tablets are indicated for the maintenance treatment of bipolar I disorder to delay the time to occurrence of mood episodes (depression, mania, hypomania, mixed episodes) in patients treated for acute mood episodes with standard therapy',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0b0f0209-edbd-46f3-9bed-762cbea0d737'
- },
- {
- text: 'Topiramate tablets and topiramate capsules are indicated as initial monotherapy for the treatment of partial-onset or primary generalized tonic-clonic seizures in patients 2 years of age and older',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=6f9d59e3-d10d-48f3-af01-83ba3e1e3a2b'
- },
- {
- text: 'Gabapentin capsules, USP are indicated as adjunctive therapy in the treatment of partial seizures with and without secondary generalization in patients over 12 years of age with epilepsy. Gabapentin capsules, USP are also indicated as adjunctive therapy in the treatment of partial seizures in pediatric patients age 3 to 12 years.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0936a88f-b569-49c4-951b-14e8f6273b53'
- },
- {
- text: 'Topiramate tablets and topiramate capsules are indicated as adjunctive therapy for for the treatment of partial-onset seizures, primary generalized tonic-clonic seizures, and seizures associated with Lennox-Gastaut syndrome in patients 2 years of age and older',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=6f9d59e3-d10d-48f3-af01-83ba3e1e3a2b'
- },
- {
- text: 'Topiramate tablets and topiramate capsules are indicated for the preventive treatment of migraine in patients 12 years of age and older',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=6f9d59e3-d10d-48f3-af01-83ba3e1e3a2b'
- },
- {
- text: 'Quetiapine tablets are indicated for the treatment of schizophrenia',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=904f80af-44b6-d964-1680-ac9e6b61327b'
- },
- {
- text: 'Quetiapine tablets are indicated for the acute treatment of manic episodes associated with bipolar I disorder, both as monotherapy and as an adjunct to lithium or divalproex',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=904f80af-44b6-d964-1680-ac9e6b61327b'
- },
- {
- text: 'Quetiapine tablets are indicated as monotherapy for the acute treatment of depressive episodes associated with bipolar disorder.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=904f80af-44b6-d964-1680-ac9e6b61327b'
- },
- {
- text: 'Alprazolam extended-release tablets are indicated for the treatment of panic disorder, with or without agoraphobia.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=79619e0f-1600-40ea-e053-2a91aa0a2700'
- },
- {
- text: 'Tizanidine hydrochloride capsules are central alpha-2-adrenergic agonist indicated for the management of spasticity',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=e19636a4-3c5e-4b75-b394-003098f74d48'
- },
- {
- text: 'Uses: temporarily reduces pains and aches due to headache, toothache, backache, menstrual cramps, the common cold, muscular aches, minor pains of arthritis, temporarily reduces fever',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=5c65b691-b795-44a5-abb7-931cd772f1a1'
- },
- {
- text: 'Levetiracetam in Sodium Chloride Injection is indicated as adjunctive therapy in the treatment of partial onset seizures in adults with epilepsy.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0a9234b7-46b1-8e6c-a992-90f86cfb6e00'
- },
- {
- text: "Tolcapone tablets, USP is indicated as an adjunct to levodopa and carbidopa for the treatment of the signs and symptoms of idiopathic Parkinson's disease",
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=d94891be-2fef-4e39-8e35-ab7afe93e78e'
- },
- {
- text: 'Levetiracetam in Sodium Chloride Injection is indicated as adjunctive therapy in the treatment of myoclonic seizures in adults with juvenile myoclonic epilepsy.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0a9234b7-46b1-8e6c-a992-90f86cfb6e00'
- },
- {
- text: 'Levetiracetam in Sodium Chloride Injection is indicated as adjunctive therapy in the treatment of primary generalized tonic-clonic seizures in adults with idiopathic generalized epilepsy.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0a9234b7-46b1-8e6c-a992-90f86cfb6e00'
- },
- {
- text: 'Divalproex sodium delayed-release capsules are indicated as monotherapy and adjunctive therapy in the treatment of adult patients and pediatric patients down to the age of 10 years with complex partial seizures that occur either in isolation or in association with other types of seizures.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f911748c-fb3a-fe1a-ab2a-4b40455e05ef'
- },
- {
- text: 'Uses - temporarily relieves minor aches and pains due to: minor pain of arthritis, backache, headache, muscular aches, menstrual cramps, toothache, common cold, temporarily reduces fever',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=bc5ddcf2-640c-4683-a60f-ca1c8b418873'
- },
- {
- text: 'Baclofen is useful for the alleviation of signs and symptoms of spasticity resulting from multiple sclerosis, particularly for the relief of flexor spasms and concomitant pain, clonus, and muscular rigidity.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=346af8fe-3816-49de-bfd3-5a7425e728f9'
- },
- {
- text: 'Diclofenac potassium tablets are indicated:For relief of mild to moderate pain',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=77b60a0c-e49a-4ad4-abb1-b662c24ab782'
- },
- {
- text: 'Baclofen may also be of some value in patients with spinal cord injuries and other spinal cord diseases.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=346af8fe-3816-49de-bfd3-5a7425e728f9'
- },
- {
- text: 'Mirtazapine tablets, USP are indicated for the treatment of major depressive disorder.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0039f505-7cd0-4d79-b5dd-bf2d172571a0'
- },
- {
- text: 'Hydrocodone Bitartrate Extended-Release Capsules are indicated for the management of pain severe enough to require daily, around-the-clock, long-term opioid treatment and for which alternative treatment options are inadequate.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=a7b8ea07-e926-f0a5-c20d-92f23ed350d0'
- },
- {
- text: 'Almotriptan tablets (almotriptan malate) are indicated for the acute treatment of migraine attacks in patients with a history of migraine with or without aura',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=35617039-9f33-401b-bac3-8f85c65fa2c7'
- },
- {
- text: 'Carisoprodol Tablets are indicated for the relief of discomfort associated with acute, painful musculoskeletal conditions in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ab22f1be-16c8-45b6-adaf-09e08bf7a545'
- },
- {
- text: 'Ropinirole tablets are indicated for the treatment of Parkinson’s disease',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f5ce07b9-ad0d-4b72-9daf-8662775af093'
- },
- {
- text: 'Ropinirole tablets are indicated for the treatment of moderate-to-severe primary Restless Legs Syndrome (RLS).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f5ce07b9-ad0d-4b72-9daf-8662775af093'
- },
- {
- text: 'Methocarbamol tablets, USP are indicated as an adjunct to rest, physical therapy, and other measures for the relief of discomfort associated with acute, painful musculoskeletal conditions.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=42c0a177-7d62-4bcf-9fce-7dd484cda4d5'
- },
- {
- text: 'Oxcarbazepine oral suspension is indicated for use as monotherapy or adjunctive therapy in the treatment of partial-onset seizures in adults and as monotherapy in the treatment of partial-onset seizures in pediatric patients aged 4 years and above, and as adjunctive therapy in pediatric patients aged 2 years and above with partial-onset seizures.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=2515391e-3a88-4226-92e5-f641c8409fe5'
- },
- {
- text: 'Pramipexole dihydrochloride tablets are indicated for the treatment of Parkinson’s disease.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=4fe7106d-4bf6-4794-87cb-8df616994c41'
- },
- {
- text: 'Pramipexole dihydrochloride tablets are indicated for the treatment of moderate-to-severe primary Restless Legs Syndrome (RLS).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=4fe7106d-4bf6-4794-87cb-8df616994c41'
- },
- {
- text: 'Atomoxetine capsules are indicated for the treatment of Attention-Deficit/Hyperactivity Disorder (ADHD).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=6f6bea0c-297b-43ff-8960-ecc11243e06e'
- },
- {
- text: 'Topiramate tablets and topiramate capsules are indicated as adjunctive therapy for for the treatment of partial-onset seizures, primary generalized tonic-clonic seizures, and seizures associated with Lennox-Gastaut syndrome in patients 2 years of age and older',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=6f9d59e3-d10d-48f3-af01-83ba3e1e3a2b'
- },
- {
- text: 'PRIALT (ziconotide) solution, intrathecal infusion is indicated for the management of severe chronic pain in adult patients for whom intrathecal therapy is warranted, and who are intolerant of or refractory to other treatment, such as systemic analgesics, adjunctive therapies, or intrathecal morphine',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=b025d8ed-937d-4597-9ad1-0b2f6e0ee5b1'
- },
- {
- text: 'Vyvanse is indicated for the treatment of Attention Deficit Hyperactivity Disorder (ADHD).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=a310fc51-2743-4755-8398-fed5402283f6'
- },
- {
- text: 'As an antiaggregant in antiplatelet therapy or for temporary relief of minor aches and pains.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=80ce8064-0e27-4587-b70b-2ea3c9aa2786'
- },
- {
- text: 'Trihexyphenidyl is indicated as an adjunct in the treatment of all forms of parkinsonism (postencephalitic, arteriosclerotic, and idiopathic). It is often useful as adjuvant therapy when treating these forms of parkinsonism with levodopa.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=d6f08000-e973-4bab-810c-b69f6c8ee4f3'
- },
- {
- text: 'Additionally, it is indicated for the control of extrapyramidal disorders caused by central nervous system drugs such as the dibenzoxazepines, phenothiazines, thioxanthenes, and butyrophenones.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=d6f08000-e973-4bab-810c-b69f6c8ee4f3'
- },
- {
- text: 'Dextroamphetamine sulfate tablets are indicated in: Narcolepsy and Attention Deficit Disorder with Hyperactivity: As an integral part of a total treatment program that typically includes other remedial measures (psychological, educational, social) for a stabilizing effect in pediatric patients (ages 3 years to 16 years)',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=bed3c03f4-2829-423f-a595-dc09c9cc0e40'
- },
- {
- text: 'Dextroamphetamine sulfate tablets are indicated in: Narcolepsy and Attention Deficit Disorder with Hyperactivity: As an integral part of a total treatment program that typically includes other remedial measures (psychological, educational, social) for a stabilizing effect in pediatric patients (ages 3 years to 16 years)',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=bed3c03f4-2829-423f-a595-dc09c9cc0e40'
- },
- {
- text: 'Morphine sulfate is indicated for the relief of severe pain',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=e360d6b6-d9ef-487d-bf14-fcbbee8beb29'
- },
- {
- text: 'Pyridostigmine Bromide Oral Solution, USP is useful in the treatment of myasthenia gravis.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ef78ff05-8e0f-463a-88cd-ca9a01aed76a'
- },
- {
- text: 'Buprenorphine Sublingual Tablets are indicated for the treatment of opioid dependence and are preferred for induction',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=1bf8b35a-b769-465c-a2f8-099868dfcd2f'
- },
- {
- text: 'Naltrexone hydrochloride tablets USP 50 mg is indicated in the treatment of alcohol dependence',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=49aa3d6d-2270-4615-aafa-b440859ab870'
- },
- {
- text: "Bromocriptine mesylate tablets are indicated in the treatment of the signs and symptoms of idiopathic or postencephalitic Parkinson's disease. As adjunctive treatment to levodopa (alone or with a peripheral decarboxylase inhibitor), bromocriptine mesylate therapy may provide additional therapeutic benefits in those patients who are currently maintained on optimal dosages of levodopa, those who are beginning to deteriorate (develop tolerance) to levodopa therapy, and those who are experiencing end of dose failure on levodopa therapy. ",
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=93a0696b-b261-4262-9e06-f3180b419f8f'
- },
- {
- text: 'RADICAVA is indicated for the treatment of amyotrophic lateral sclerosis (ALS).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=0ce2c1c4-2a40-485c-b7cb-96a9b85d9d11'
- },
- {
- text: "Tetrabenazine tablets are indicated for the treatment of chorea associated with Huntington's disease.",
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=471ac1d8-e3ad-7729-87c5-c26ae92c32eb'
- },
- {
- text: 'Riluzole is indicated for the treatment of amyotrophic lateral sclerosis(ALS).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=dd432c13-389e-46b3-8891-0cf1a58800ff'
- },
- {
- text: 'RUZURGI is indicated for the treatment of Lambert-Eaton myasthenic syndrome (LEMS) in patients 6 to less than 17 years of age.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=2731310a-c060-4d3e-ba41-763d791f63a9'
- },
- {
- text: 'USES: For the temporary relief of discomfort and pain associated with - minor burns and skin irritations, minor cuts and scrapes, itching',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=60cafbaf-8ec6-46a5-e053-2a91aa0af11f'
- },
- {
- text: 'Cevimeline hydrochloride capsules are indicated for the treatment of symptoms of dry mouth in patients with Sjögren’s Syndrome.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=773a19e8-4c3e-4414-99a6-aea98c9790ee'
- },
- {
- text: 'temporarily relieves minor aches and pains due to: the common cold headache backache minor pain of arthritis toothache muscular aches premenstrual and menstrual cramps temporarily reduces fever',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=9f7cca9d-4230-49d7-b805-a1fbc73e31c9'
- },
- {
- text: 'temporarily relieves minor aches and pains due to: the common cold headache backache minor pain of arthritis toothache muscular aches premenstrual and menstrual cramps temporarily reduces fever',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=9f7cca9d-4230-49d7-b805-a1fbc73e31c9'
- },
- {
- text: 'Clonazepam is useful alone or as an adjunct in the treatment of the Lennox-Gastaut syndrome (petit mal variant), akinetic and myoclonic seizures.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=acbce0e8-5098-4785-943b-8bdb5ff17fab'
- },
- {
- text: 'Clonazepam is useful alone or as an adjunct in the treatment of the Lennox-Gastaut syndrome (petit mal variant), akinetic and myoclonic seizures.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=acbce0e8-5098-4785-943b-8bdb5ff17fab'
- },
- {
- text: 'Temazepam is indicated for the short-term treatment of insomnia (generally 7 to 10 days).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=a4370eb4-b00d-4247-af8d-980e59fbbec6'
- },
- {
- text: 'Diazepam is a useful adjunct for the relief of skeletal muscle spasm due to reflex spasm to local pathology (such as inflammation of the muscles or joints, or secondary to trauma), spasticity caused by upper motor neuron disorders (such as cerebral palsy and paraplegia); athetosis; stiff man syndrome; and tetanus.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Diazepam is a useful adjunct for the relief of skeletal muscle spasm due to reflex spasm to local pathology (such as inflammation of the muscles or joints, or secondary to trauma), spasticity caused by upper motor neuron disorders (such as cerebral palsy and paraplegia); athetosis; stiff man syndrome; and tetanus.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Diazepam is a useful adjunct for the relief of skeletal muscle spasm due to reflex spasm to local pathology (such as inflammation of the muscles or joints, or secondary to trauma), spasticity caused by upper motor neuron disorders (such as cerebral palsy and paraplegia); athetosis; stiff man syndrome; and tetanus.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Diazepam is a useful adjunct for the relief of skeletal muscle spasm due to reflex spasm to local pathology (such as inflammation of the muscles or joints, or secondary to trauma), spasticity caused by upper motor neuron disorders (such as cerebral palsy and paraplegia); athetosis; stiff man syndrome; and tetanus.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Diazepam is a useful adjunct for the relief of skeletal muscle spasm due to reflex spasm to local pathology (such as inflammation of the muscles or joints, or secondary to trauma), spasticity caused by upper motor neuron disorders (such as cerebral palsy and paraplegia); athetosis; stiff man syndrome; and tetanus.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Diazepam is a useful adjunct for the relief of skeletal muscle spasm due to reflex spasm to local pathology (such as inflammation of the muscles or joints, or secondary to trauma), spasticity caused by upper motor neuron disorders (such as cerebral palsy and paraplegia); athetosis; stiff man syndrome; and tetanus.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Lorazepam injection is indicated for the treatment of status epilepticus.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ae274b1f-27c3-483b-99f1-9a9249dc2459'
- },
- {
- text: 'Lorazepam injection is indicated in adult patients for preanesthetic medication, producing sedation (sleepiness or drowsiness), relief of anxiety, and a decreased ability to recall events related to the day of surgery. It is most useful in those patients who are anxious about their surgical procedure and who would prefer to have diminished recall of the events of the day of surgery',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ae274b1f-27c3-483b-99f1-9a9249dc2459'
- },
- {
- text: 'Amantadine hydrochloride capsules are also indicated in the treatment of parkinsonism and drug-induced extrapyramidal reactions.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=491aea85-5a55-4a7c-b1cf-a123fea4377d'
- },
- {
- text: 'ABSTRAL is indicated for the management of breakthrough pain in cancer patients 18 years of age and older who are already receiving, and who are tolerant to, around-the-clock opioid therapy for their underlying persistent cancer pain.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=e60f00e9-2cf4-4c20-b570-1c2ea426c8c7'
- },
- {
- text: 'Diazepam is indicated for the management of anxiety disorders for the short-term relief of the symptoms of anxiety. Anxiety or tension associated with the stress of everyday life usually does not require treatment with an anxiolytic.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Diazepam injection is a useful adjunct in status epilepticus and severe recurrent convulsive seizures.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Iloperidone tablets are indicated for the treatment of schizophrenia in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=eeb0fcfd-e4e8-4fb1-9635-901dc9446235'
- },
- {
- text: 'Aripiprazole oral solution is indicated for the treatment of: Schizophrenia',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=7f272100-e02f-4a16-bb39-a2bf844db4f9'
- },
- {
- text: 'Aripiprazole oral solution is indicated for the treatment of: acute Treatment of Manic and Mixed Episodes associated with Bipolar I Disorder ',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=7f272100-e02f-4a16-bb39-a2bf844db4f9'
- },
- {
- text: 'Aripiprazole oral solution is indicated for the treatment of: Adjunctive Treatment of Major Depressive Disorder',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=7f272100-e02f-4a16-bb39-a2bf844db4f9'
- },
- {
- text: 'Aripiprazole oral solution is indicated for the treatment of: Irritability Associated with Autistic Disorder',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=7f272100-e02f-4a16-bb39-a2bf844db4f9'
- },
- {
- text: 'Felbamate oral suspension is recommended for use only in those patients who respond inadequately to alternative treatments and whose epilepsy is so severe that a substantial risk of aplastic anemia and/or liver failure is deemed acceptable in light of the benefits conferred by its use',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=2e325d79-d0a4-4af7-b09b-96ee5a5b2a37'
- },
- {
- text: 'Vigabatrin for oral solution is indicated as adjunctive therapy for adults and pediatric patients 2 years of age and older with refractory complex partial seizures who have inadequately responded to several alternative treatments and for whom the potential benefits outweigh the risk of vision loss',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=5b8fb137-848b-45fd-9107-a6db5a675360'
- },
- {
- text: 'Selegiline capsules, USP are indicated as an adjunct in the management of Parkinsonian patients being treated with levodopa/carbidopa who exhibit deterioration in the quality of their response to this therapy.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=1924db3d-6a16-4496-cfd0-6903be146925'
- },
- {
- text: 'Vigabatrin for oral solution is indicated as monotherapy for pediatric patients with infantile spasms 1 month to 2 years of age for whom the potential benefits outweigh the potential risk of vision loss',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=5b8fb137-848b-45fd-9107-a6db5a675360'
- },
- {
- text: 'Extended phenytoin sodium capsules are indicated for the treatment of tonic-clonic (grand mal) and psychomotor (temporal lobe) seizures and prevention and treatment of seizures occurring during or following neurosurgery',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=7e467c02-49a0-4b62-b537-430fdfa4f10e'
- },
- {
- text: 'Fosphenytoin sodium injection is indicated for the treatment of generalized tonic-clonic status epilepticus and prevention and treatment of seizures occurring during neurosurgery.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=b60c9c82-e5c7-4e05-98c7-5bbba4af04b2'
- },
- {
- text: 'Risperidone tablets are indicated for the acute and maintenance treatment of schizophrenia',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=c0c3eeb6-8a75-0b20-2008-396e63cddcdb'
- },
- {
- text: 'Due to Janssen Pharmaceuticals Corporation’s marketing exclusivity rights, this drug product is not labeled for use in pediatric patients with bipolar mania. Pediatric use information for the treatment of pediatric patients with bipolar mania, 10 to 17 years of age, is approved for Janssen Pharmaceuticals Corporation’s risperidone drug products.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=c0c3eeb6-8a75-0b20-2008-396e63cddcdb'
- },
- {
- text: 'Risperidone tablets are indicated for the short-term treatment of acute manic or mixed episodes associated with Bipolar I Disorder in Adults',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=c0c3eeb6-8a75-0b20-2008-396e63cddcdb'
- },
- {
- text: 'Combination Therapy - Adults: The combination of risperidone with lithium or valproate is indicated for the short-term treatment of acute manic or mixed episodes associated with Bipolar I Disorder',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=c0c3eeb6-8a75-0b20-2008-396e63cddcdb'
- },
- {
- text: 'Risperidone tablets are indicated for the treatment of irritability associated with autistic disorder in children and adolescents aged 5-16 years, including symptoms of aggression towards others, deliberate self-injuriousness, temper tantrums, and quickly changing moods',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=c0c3eeb6-8a75-0b20-2008-396e63cddcdb'
- },
- {
- text: 'ONGENTYS is indicated as adjunctive treatment to levodopa/carbidopa in patients with Parkinson’s disease (PD) experiencing “off” episodes',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=278a60c4-2353-4657-b486-f392b93181b7'
- },
- {
- text: 'Entacapone tablets are indicated as an adjunct to levodopa and carbidopa to treat end-of-dose “wearing-off” in patients with Parkinson’s disease',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=e9e94e9f-cd7a-45f5-9aeb-9c28ed804d8c'
- },
- {
- text: 'For the relief of symptoms of depression. Endogenous depression is more likely to be alleviated than other depressive states',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=92ca69d4-cdba-4789-91a9-922664d52498'
- },
- {
- text: 'Sertraline Tablets, USP are indicated for the treatment of major depressive disorder in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f9641190-9151-4f7e-89ff-1e7a818c30ee'
- },
- {
- text: 'Sertraline tablets are indicated for the treatment of obsessions and compulsions in patients with obsessive-compulsive disorder (OCD), as defined in the DSM-III-R; i.e., the obsessions or compulsions cause marked distress, are time-consuming, or significantly interfere with social or occupational functioning.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f9641190-9151-4f7e-89ff-1e7a818c30ee'
- },
- {
- text: 'Sertraline tablets are indicated for the treatment of panic disorder in adults, with or without agoraphobia, as defined in DSM-IV.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f9641190-9151-4f7e-89ff-1e7a818c30ee'
- },
- {
- text: 'Sertraline is indicated for the treatment of posttraumatic stress disorder in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f9641190-9151-4f7e-89ff-1e7a818c30ee'
- },
- {
- text: 'Sertraline tablets are indicated for the treatment of social anxiety disorder, also known as social phobia in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f9641190-9151-4f7e-89ff-1e7a818c30ee'
- },
- {
- text: 'Fluoxetine is indicated for the acute and maintenance treatment of Major Depressive Disorder in adult patients and in pediatric patients aged 8 to18 years',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=59de2889-c3d3-4ebf-8826-13f30a3fa439'
- },
- {
- text: 'Fluoxetine is indicated for the acute and maintenance treatment of obsessions and compulsions in adult patients and in pediatric patients aged 7 to 17 years with Obsessive Compulsive Disorder (OCD)',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=59de2889-c3d3-4ebf-8826-13f30a3fa439'
- },
- {
- text: 'Fluoxetine is indicated for the acute and maintenance treatment of binge-eating and vomiting behaviors in adult patients with moderate to severe Bulimia Nervosa',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=59de2889-c3d3-4ebf-8826-13f30a3fa439'
- },
- {
- text: 'Fluoxetine is indicated for the acute and maintenance treatment of binge-eating and vomiting behaviors in adult patients with moderate to severe Bulimia Nervosa ',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=59de2889-c3d3-4ebf-8826-13f30a3fa439'
- },
- {
- text: 'Fluoxetine is indicated for the acute treatment of Panic Disorder, with or without agoraphobia, in adult patients',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=59de2889-c3d3-4ebf-8826-13f30a3fa439'
- },
- {
- text: 'Xyrem is indicated for the treatment of cataplexy or excessive daytime sleepiness (EDS) in patients 7 years of age and older with narcolepsy.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=926eb076-a4a8-45e4-91ef-411f0aa4f3ca'
- },
- {
- text: 'Fluoxetine and olanzapine in combination is indicated for the acute treatment of depressive episodes associated with Bipolar I Disorder in adult patients.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=59de2889-c3d3-4ebf-8826-13f30a3fa439'
- },
- {
- text: 'Orphenadrine citrate is indicated as an adjunct to rest, physical therapy, and other measures for the relief of discomfort associated with acute, painful musculo-skeletal conditions.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=aec8ad3a-f717-4e74-b7b9-19debdaad79a'
- },
- {
- text: 'Ramelteon tablets are indicated for the treatment of insomnia characterized by difficulty with sleep onset.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=a89dae05-6c39-4072-b8ee-c4c35b46f7d4'
- },
- {
- text: 'Frovatriptan succinate tablets are indicated for the acute treatment of migraine with or without aura in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=94b996dc-ddc4-41ce-9a9f-3d91cb187473'
- },
- {
- text: 'Sumatriptan tablets are indicated for the acute treatment of migraine with or without aura in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=b2503fff-c978-4efa-b1b4-d7740b6b26f2'
- },
- {
- text: 'Marplan is indicated for the treatment of depression. Because of its potentially serious side effects, Marplan is not an antidepressant of first choice in the treatment of newly diagnosed depressed patient',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ac387aa0-3f04-4865-a913-db6ed6f4fdc5'
- },
- {
- text: 'Pimozide Tablets, USP is indicated for the suppression of motor and phonic tics in patients with Tourette’s Disorder who have failed to respond satisfactorily to standard treatment.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=70b079e2-a1f7-4a93-8685-d60a4d7c1280'
- },
- {
- text: 'Thiothixene capsules are effective in the management of schizophrenia.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=13d90931-e9d8-25f3-a045-608d0404cd7a'
- },
- {
- text: 'Treatment of adult and adolescent patients (13 to 17 years) with schizophrenia',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=afad3051-9df2-4c54-9684-e8262a133af8'
- },
- {
- text: 'Monotherapy treatment of adult and pediatric patients (10 to 17 years) with major depressive episode associated with bipolar I disorder (bipolar depression)',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=afad3051-9df2-4c54-9684-e8262a133af8'
- },
- {
- text: 'Clozapine is indicated for reducing the risk of recurrent suicidal behavior in patients with schizophrenia or schizoaffective disorder who are judged to be at chronic risk for re-experiencing suicidal behavior, based on history and recent clinical state',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=25c0c6d5-f7b0-48e4-e054-00144ff8d46c'
- },
- {
- text: 'Adjunctive treatment with lithium or valproate in adult patients with major depressive episode associated with bipolar I disorder (bipolar depression)',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=afad3051-9df2-4c54-9684-e8262a133af8'
- },
- {
- text: 'Duloxetine delayed-release capsules are indicated for the treatment of: Major Depressive Disorder, Generalized Anxiety Disorder, Diabetic Peripheral Neuropathy, Fibromyalgia, Chronic Muscoskeletal Pain',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ea2dc1a6-22d5-4295-9d39-9bf015dc5a89'
- },
- {
- text: 'Duloxetine delayed-release capsules are indicated for the treatment of: Major Depressive Disorder, Generalized Anxiety Disorder, Diabetic Peripheral Neuropathy, Fibromyalgia, Chronic Muscoskeletal Pain',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ea2dc1a6-22d5-4295-9d39-9bf015dc5a89'
- },
- {
- text: 'Duloxetine delayed-release capsules are indicated for the treatment of: Major Depressive Disorder, Generalized Anxiety Disorder, Diabetic Peripheral Neuropathy, Fibromyalgia, Chronic Muscoskeletal Pain',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ea2dc1a6-22d5-4295-9d39-9bf015dc5a89'
- },
- {
- text: 'Duloxetine delayed-release capsules are indicated for the treatment of: Major Depressive Disorder, Generalized Anxiety Disorder, Diabetic Peripheral Neuropathy, Fibromyalgia, Chronic Muscoskeletal Pain',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ea2dc1a6-22d5-4295-9d39-9bf015dc5a89'
- },
- {
- text: 'Protriptyline hydrochloride is indicated for the treatment of symptoms of mental depression in patients who are under close medical supervision.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=700abc58-9362-4ef5-9d7a-dd3c4d364d0a'
- },
- {
- text: 'Bupropion hydrochloride extended-release tablets (XL) are indicated for the treatment of major depressive disorder (MDD), as defined by the Diagnostic and Statistical Manual (DSM).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f32a4532-7dfd-4aa5-bb48-afbbd2eefb7c'
- },
- {
- text: 'Bupropion hydrochloride extended-release tablets (XL) are indicated for the prevention of seasonal major depressive episodes in patients with a diagnosis of seasonal affective disorder (SAD).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f32a4532-7dfd-4aa5-bb48-afbbd2eefb7c'
- },
- {
- text: 'Endogenous depression is more likely to be alleviated than are other depressive states.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=94e984da-3b08-406f-8c10-e78844fca1ff'
- },
- {
- text: 'For the relief of symptoms of depression.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=94e984da-3b08-406f-8c10-e78844fca1ff'
- },
- {
- text: 'Endogenous depression is more likely to be alleviated than other depressive states.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=4f31df66-7dc2-1f04-e054-00144ff88e88'
- },
- {
- text: 'Trimipramine maleate capsules are indicated for the relief of symptoms of depression.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=4f31df66-7dc2-1f04-e054-00144ff88e88'
- },
- {
- text: 'OXYCODONE HCl EXTENDED-RELEASE TABLETS are indicated for the management of pain severe enough to require daily, around-the-clock, long-term opioid treatment and for which alternative treatment options are inadequate in: adults and Opioid-tolerant pediatric patients 11 years of age and older who are already receiving and tolerate a minimum daily opioid dose of at least 20 mg oxycodone orally or its equivalent',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=c5b52ff1-21a6-4d28-9982-55b4ac195fac'
- },
- {
- text: 'Clobazam tablet is indicated for the adjunctive treatment of seizures associated with Lennox-Gastaut syndrome (LGS) in patients 2 years of age or older.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=721dde68-db83-4dad-8649-8046cb455372'
- },
- {
- text: 'Perphenazine is indicated for use in the treatment of schizophrenia and for the control of severe nausea and vomiting in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=bb1a3d20-1f93-48a1-9e27-4712a8561757'
- },
- {
- text: 'In acute alcohol withdrawal, diazepam may be useful in the symptomatic relief of acute agitation, tremor, impending or acute delirium tremens and hallucinosis.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fa352464-14c8-49e9-b8b7-5a968b1cfa93'
- },
- {
- text: 'Fluphenazine Decanoate Injection, USP is a long-acting parenteral antipsychotic drug intended for use in the management of patients requiring prolonged parenteral neuroleptic therapy (e.g., chronic schizophrenics).',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=1967dc24-f2a5-4095-baa9-a9d1c5410311'
- },
- {
- text: 'Phenelzine Sulfate Tablets, USP has been found to be effective in depressed patients clinically characterized as atypical, nonendogenous, or neurotic.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=40483372-448f-4284-976c-8462ef256661'
- },
- {
- text: 'Milnacipran HCl tablets are indicated for the management of fibromyalgia.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=eaa14195-1b9c-423c-9412-d2fe0857e39d'
- },
- {
- text: 'Meprobamate tablets are indicated for the management of anxiety disorders or for the short-term relief of the symptoms of anxiety. Anxiety or tension associated with the stress of everyday life usually do not require treatment with an anxiolytic.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=3b255bcd-0218-44f8-830b-971f5ec45276'
- },
- {
- text: 'If these criteria are met and the patient has been fully advised of the risk, and has provided written acknowledgment, felbamate oral suspension can be considered for either monotherapy or adjunctive therapy in the treatment of partial seizures, with and without generalization, in adults with epilepsy and as adjunctive therapy in the treatment of partial and generalized seizures associated with Lennox-Gastaut syndrome in children',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=2e325d79-d0a4-4af7-b09b-96ee5a5b2a37'
- },
- {
- text: 'For temporary relief of symptoms related to sleep disorders, Seasonal Affective Disorder, jet lag, and depression.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fdaf86c2-137d-4926-a63b-9faf7ec7e04c'
- },
- {
- text: 'For temporary relief of symptoms related to sleep disorders, Seasonal Affective Disorder, jet lag, and depression.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fdaf86c2-137d-4926-a63b-9faf7ec7e04c'
- },
- {
- text: 'EMGALITY is indicated for the treatment of episodic cluster headache in adults.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=33a147be-233a-40e8-a55e-e40936e28db0'
- },
- {
- text: 'For temporary relief of symptoms related to sleep disorders, Seasonal Affective Disorder, jet lag, and depression.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=fdaf86c2-137d-4926-a63b-9faf7ec7e04c'
- },
- {
- text: 'Eszopiclone Tablets are indicated for the treatment of insomnia.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=49f71eb4-15ca-42e2-b62b-7963cc8ef115'
- },
- {
- text: 'Zolpidem Tartrate Tablets is indicated for the short-term treatment of insomnia characterized by difficulties with sleep initiation',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=021153ce-fe27-4ed1-8d88-b4157b0ed734'
- },
- {
- text: 'Quazepam is indicated for the treatment of insomnia characterized by difficulty in falling asleep, frequent nocturnal awakenings, and/or early morning awakenings.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=f7d63f3f-5303-48ab-bce2-35fd62c45799'
- },
- {
- text: 'Hydrocodone bitartrate and acetaminophen tablets are indicated for the management of moderate to moderately severe pain severe enough to require an opioid analgesic and for which alternative treatments are inadequate.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=4f505b2a-45a2-4d34-96f6-dedb574cb508'
- },
- {
- text: 'Tramadol hydrochloride tablets are indicated for the management of moderate to moderately severe pain in adults',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ae7c54b1-b440-4cca-97e8-e5b825413d32'
- },
- {
- text: 'Trazodone hydrochloride tablets are indicated for the treatment of major depressive disorder (MDD) in adults',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=ed3039d8-3d27-4b71-a4b0-812943c9457f'
- },
- {
- text: 'Citalopram tablets are indicated for the treatment of depression',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=2632b547-2e13-447f-ac85-c774e437d6a8'
- },
- {
- text: 'Paroxetine tablets are indicated for the treatment of major depressive disorder.',
- url: 'https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid=89dd7e24-85fc-4152-89ea-47ec2b48a1ed'
- }
-];
diff --git a/astro-frontend/src/utils/highlightjs-turtle.ts b/astro-frontend/src/utils/highlightjs-turtle.ts
deleted file mode 100644
index ce47702..0000000
--- a/astro-frontend/src/utils/highlightjs-turtle.ts
+++ /dev/null
@@ -1,128 +0,0 @@
-'use client';
-/*
-Language: Turtle
-Author: Redmer KRONEMEIJER
-Contributors: Mark ELLIS , Vladimir ALEXIEV
-*/
-
-// var module = module ? module : {}; // shim for browser use
-
-// function hljsDefineTurtle(hljs) {
-export default function (hljs: any) {
- var KEYWORDS = {
- keyword: 'BASE|10 PREFIX|10 @base|10 @prefix|10',
- literal: 'true|0 false|0',
- built_in: 'a|0'
- };
-
- var IRI_LITERAL = {
- // https://www.w3.org/TR/turtle/#grammar-production-IRIREF
- className: 'literal',
- relevance: 1, // XML tags look also like relative IRIs
- begin: //,
- illegal: /[^\x00-\x20<>"{}|^`]/ // TODO: https://www.w3.org/TR/turtle/#grammar-production-UCHAR
- };
-
- // https://www.w3.org/TR/turtle/#terminals
- var PN_CHARS_BASE =
- 'A-Za-z\u00C0-\u00D6\u00D8-\u00F6\u00F8-\u02FF\u0370-\u037D\u037F-\u1FFF\u200C-\u200D\u2070-\u218F\u2C00-\u2FEF\u3001-\uD7FF\uF900-\uFDCF\uFDF0-\uFFFD\u10000-\uEFFFF';
- var PN_CHARS_U = PN_CHARS_BASE + '_';
- var PN_CHARS = '-' + PN_CHARS_U + '0-9\u00B7\u0300-\u036F\u203F-\u2040';
- var BLANK_NODE_LABEL = '_:[' + PN_CHARS_U + '0-9]([' + PN_CHARS + '.]*[' + PN_CHARS + '])?';
- var PN_PREFIX = '[' + PN_CHARS_BASE + ']([' + PN_CHARS + '.]*[' + PN_CHARS + '])?';
- var PERCENT = '%[0-9A-Fa-f][0-9A-Fa-f]';
- var PN_LOCAL_ESC = "\\\\[_~.!$&'()*+,;=/?#@%-]";
- var PLX = PERCENT + '|' + PN_LOCAL_ESC;
- var PNAME_NS = '(' + PN_PREFIX + ')?:';
- var PN_LOCAL =
- '([' + PN_CHARS_U + ':0-9]|' + PLX + ')([' + PN_CHARS + '.:]|' + PLX + ')*([' + PN_CHARS + ':]|' + PLX + ')?';
- var PNAME_LN = PNAME_NS + PN_LOCAL;
- var PNAME_NS_or_LN = PNAME_NS + '(' + PN_LOCAL + ')?';
-
- var PNAME = {
- begin: PNAME_NS_or_LN,
- relevance: 0,
- className: 'symbol'
- };
-
- var BLANK_NODE = {
- begin: BLANK_NODE_LABEL,
- relevance: 10,
- className: 'template-variable'
- };
-
- var LANGTAG = {
- begin: /@[a-zA-Z]+([a-zA-Z0-9-]+)*/,
- className: 'type',
- relevance: 5 // also catches objectivec keywords like: @protocol, @optional
- };
-
- var DATATYPE = {
- begin: '\\^\\^' + PNAME_LN,
- className: 'type',
- relevance: 10
- };
-
- var TRIPLE_APOS_STRING = {
- begin: /'''/,
- end: /'''/,
- className: 'string',
- relevance: 0
- };
-
- var TRIPLE_QUOTE_STRING = {
- begin: /"""/,
- end: /"""/,
- className: 'string',
- relevance: 0
- };
-
- var APOS_STRING_LITERAL = JSON.parse(JSON.stringify(hljs.APOS_STRING_MODE));
- APOS_STRING_LITERAL.relevance = 0;
-
- var QUOTE_STRING_LITERAL = JSON.parse(JSON.stringify(hljs.QUOTE_STRING_MODE));
- QUOTE_STRING_LITERAL.relevance = 0;
-
- var NUMBER = JSON.parse(JSON.stringify(hljs.C_NUMBER_MODE));
- NUMBER.relevance = 0;
-
- return {
- name: 'Turtle',
- case_insensitive: true, // however `true` and `@prefix` are oblig. cased thus
- keywords: KEYWORDS,
- aliases: ['turtle', 'ttl', 'n3'],
- contains: [
- LANGTAG,
- DATATYPE,
- IRI_LITERAL,
- BLANK_NODE,
- PNAME,
- TRIPLE_APOS_STRING,
- TRIPLE_QUOTE_STRING, // order matters
- APOS_STRING_LITERAL,
- QUOTE_STRING_LITERAL,
- NUMBER,
- hljs.HASH_COMMENT_MODE
- ],
- exports: {
- LANGTAG: LANGTAG,
- DATATYPE: DATATYPE,
- IRI_LITERAL: IRI_LITERAL,
- BLANK_NODE: BLANK_NODE,
- PNAME: PNAME,
- TRIPLE_APOS_STRING: TRIPLE_APOS_STRING,
- TRIPLE_QUOTE_STRING: TRIPLE_QUOTE_STRING,
- APOS_STRING_LITERAL: APOS_STRING_LITERAL,
- QUOTE_STRING_LITERAL: QUOTE_STRING_LITERAL,
- NUMBER: NUMBER,
- KEYWORDS: KEYWORDS
- }
- };
-}
-
-// module.exports = function (hljs) {
-// hljs.registerLanguage('turtle', hljsDefineTurtle);
-// };
-
-// module.exports.definer = hljsDefineTurtle;
diff --git a/astro-frontend/src/utils/nanostores.ts b/astro-frontend/src/utils/nanostores.ts
deleted file mode 100644
index 676888e..0000000
--- a/astro-frontend/src/utils/nanostores.ts
+++ /dev/null
@@ -1,21 +0,0 @@
-import {atom} from 'nanostores';
-
-interface UserProfile {
- id?: string;
- sub?: string;
- username?: string;
- name?: string;
- given_name?: string;
- family_name?: string;
-}
-
-export const userProfile = atom({});
-
-interface UserSettings {
- api: string
-}
-
-export const userSettings = atom({
- // api: process.env.NEXT_PUBLIC_API_URL ? process.env.NEXT_PUBLIC_API_URL : 'https://api.collaboratory.semanticscience.org'
- api: 'https://api.collaboratory.semanticscience.org'
-})
diff --git a/astro-frontend/src/utils/settings.ts b/astro-frontend/src/utils/settings.ts
deleted file mode 100644
index 2ffc296..0000000
--- a/astro-frontend/src/utils/settings.ts
+++ /dev/null
@@ -1,197 +0,0 @@
-export const settings = {
- frontendUrl: import.meta.env.PUBLIC_SITE_URL || 'http://localhost:3000',
- apiUrl: import.meta.env.PUBLIC_API_URL || 'https://api.collaboratory.semanticscience.org',
- docsUrl:
- (import.meta.env.PUBLIC_API_URL ? import.meta.env.PUBLIC_API_URL + '/docs' : null) ||
- 'https://api.collaboratory.semanticscience.org/docs',
- nanopubGrlcUrl: 'https://grlc.np.dumontierlab.com/api/local/local',
- ontogptUrl: 'http://localhost:8001/extract',
- nanopubSparqlUrl: 'https://virtuoso.nps.petapico.org/sparql',
- orcidClientId: import.meta.env.ORCID_CLIENT_ID || 'APP-TEANCMSUOPYZOGJ3',
- basePath: import.meta.env.PUBLIC_BASE_URL || ''
-};
-
-export const genericContext = {
- rdf: 'http://www.w3.org/1999/02/22-rdf-syntax-ns#',
- rdfs: 'http://www.w3.org/2000/01/rdf-schema#',
- biolink: 'https://w3id.org/biolink/vocab/',
- infores: 'https://w3id.org/biolink/infores/',
- dct: 'http://purl.org/dc/terms/'
-};
-
-// https://purl.org/np/RAuN1kyW1BD9754LCUVWozDOhkrUaLUyb5LTu0HcsulIE
-export const samples: any = {
- 'Drug indication with the BioLink model': {
- '@context': 'https://raw.githubusercontent.com/biolink/biolink-model/master/context.jsonld',
- '@wizardQuestions': {
- 'rdf:subject': 'Subject of the association:',
- 'rdf:predicate': 'Predicate of the association:',
- 'rdf:object': 'Object of the association:',
- 'biolink:provided_by': 'Association provided by dataset:',
- 'biolink:publications': 'Publication supporting the association:',
- 'biolink:association_type': 'Type of the association:',
- 'biolink:relation': 'Type of drug indication:',
- 'biolink:has_population_context': 'Population context of the drug indication:'
- },
- '@type': 'rdf:Statement',
- 'rdfs:label':
- 'An atypical drug is now increasingly used as an off-label indication for the management of cancer patients',
- 'rdf:subject': {
- '@id': 'https://go.drugbank.com/drugs/DB00334',
- '@type': 'biolink:Drug'
- },
- 'rdf:predicate': {
- '@id': 'biolink:treats'
- },
- 'rdf:object': {
- '@id': 'https://identifiers.org/HP:0002017',
- '@type': 'biolink:Disease'
- },
- 'biolink:association_type': {
- '@id': 'biolink:ChemicalToDiseaseOrPhenotypicFeatureAssociation'
- },
- 'biolink:relation': {'@id': 'https://w3id.org/um/neurodkg/OffLabelIndication'},
- 'biolink:provided_by': {'@id': 'https://w3id.org/um/NeuroDKG'},
- 'biolink:publications': {'@id': 'https://pubmed.ncbi.nlm.nih.gov/29061799/'},
- 'biolink:has_population_context': {
- 'rdfs:label': 'Adults',
- 'biolink:category': {'@id': 'biolink:Cohort'},
- 'biolink:has_phenotype': {
- '@id': 'https://identifiers.org/MONDO:0004992',
- '@type': 'biolink:Phenotype'
- }
- }
- },
- 'Dataset summary with schema.org': {
- '@context': 'https://schema.org',
- '@wizardQuestions': {
- name: 'Provide the name of this entity:',
- description: 'Give a short description of the content:',
- creator: 'Provide the details of the person who created, or initiated, the creation of this work:',
- contributor: 'Other persons who contributed to, or co-authored, the dataset:',
- publisher: 'Person, or organization, who published this work:',
- inLanguage:
- 'What language is used in the description of this dataset? Use ISO 2 language code e.g. EN for English',
- version: 'What is the version number for this dataset? e.g. 1.1.1 or v1.2',
- license: 'Link to the full text of the terms of use (license) for this dataset:',
- encodingFormat: 'What is the file format of this data?',
- url: 'Link to the website or homepage:',
- temporalCoverage:
- 'What is the creation or publishing date range for the documents or contents of this dataset? Use https://en.wikipedia.org/wiki/ISO_8601#Time_intervals format - e.g. 2007-03-01/2008-05-11:',
- keywords: 'Provide keywords describing the content in this dataset:',
- distribution: 'Supply a direct download link for this dataset:',
- contentSize: 'How large is the download file size e.g. 128KB, 54MB, 1.5GB?',
- isBasedOn: 'Was this dataset generated with the aid of or using a piece of software?',
- applicationCategory: 'Indicate type of software e.g. Python script or Java GUI application:',
- citation: 'Is there an academic publication which describes or centrally makes use of this dataset?',
- datePublished: 'On what date was the dataset published? YYYY-MM-DD',
- dateCreated: 'On what date was the dataset created? YYYY-MM-DD',
- affiliation: 'This person is affiliated to or employed by:',
- logo: 'Link to an image depicting the logo of this organisation:',
- image: 'Provide a link (URL) to a profile photo of the author of the dataset:',
- sameAs: 'Provide a Digital Object Identifier (DOI) for this publication:',
- frequency: 'How often does a new version get published for this dataset? e.g. daily, weekly, monthly'
- },
- '@type': 'Dataset',
- name: 'ECJ case law text similarity analysis',
- description:
- 'results from a study to analyse how closely the textual similarity of ECJ cases resembles the citation network of the cases.',
- version: 'v2.0',
- url: 'https://doi.org/10.5281/zenodo.4228652',
- license: 'https://www.gnu.org/licenses/agpl-3.0.txt',
- encodingFormat: 'CSV',
- temporalCoverage: '2019-09-14/2020-07-01',
- dateCreated: {
- '@type': 'Date',
- '@value': '2019-09-14'
- },
- datePublished: {
- '@type': 'Date',
- '@value': '2020-07-01'
- },
- distribution: {
- '@type': 'DataDownload',
- contentUrl: {
- '@type': 'URL',
- '@value': 'https://zenodo.org/record/4228652/files/docona_cjeu_results_2018_v2_html.zip?download=1'
- },
- encodingFormat: 'application/zip',
- contentSize: '1.1MB'
- },
- inLanguage: {
- '@type': 'Language',
- name: 'EN',
- alternateName: 'EN'
- },
- keywords: ['case law', 'court decisions', 'text similarity', 'network analysis'],
- creator: {
- '@type': 'Person',
- name: 'concat @givenName @familyName',
- givenName: 'Kody',
- familyName: 'Moodley',
- image:
- 'https://www.maastrichtuniversity.nl/sites/default/files/styles/text_with_image_mobile_portrait/public/profile/kody.moodley/kody.moodley_photo_kmoodley.jpg?itok=bN7b8s_-×tamp=1583505301',
- jobTitle: 'Postdoctoral researcher',
- email: 'kody.moodley@maastrichtuniversity.nl',
- affiliation: {
- '@type': 'Organization',
- name: 'Maastricht Law & Tech Lab',
- url: {
- '@type': 'URL',
- '@value': 'https://www.maastrichtuniversity.nl/about-um/faculties/law/research/law-and-tech-lab'
- },
- logo: {
- '@type': 'ImageObject',
- contentUrl:
- 'https://www.maastrichtuniversity.nl/sites/default/files/styles/page_photo/public/compacte20versie20law20and20tech20lab.jpg?itok=7lm6PEQF'
- }
- }
- },
- contributor: [
- {
- '@type': 'Person',
- givenName: 'Pedro',
- familyName: 'Hernandez Serrano',
- jobTitle: 'Data Scientist',
- email: 'p.hernandezserrano@maastrichtuniversity.nl',
- image:
- 'https://www.maastrichtuniversity.nl/sites/default/files/styles/text_with_image_mobile_portrait/public/profile/p.hernandezserrano/p.hernandezserrano_PP%20%287%20of%2013%29.jpg?itok=IUdreoIw×tamp=1610395201',
- affiliation: {
- '@type': 'Organization',
- name: 'Institute of Data Science',
- url: {
- '@type': 'URL',
- '@value': 'https://www.maastrichtuniversity.nl/research/institute-data-science'
- },
- logo: {
- '@type': 'ImageObject',
- contentUrl: 'https://avatars.githubusercontent.com/u/36262526?s=280&v=4'
- }
- }
- }
- ],
- publisher: {
- '@type': 'Person',
- name: 'Kody Moodley',
- givenName: 'Kody',
- familyName: 'Moodley',
- jobTitle: 'Postdoctoral researcher',
- image:
- 'https://www.maastrichtuniversity.nl/sites/default/files/styles/text_with_image_mobile_portrait/public/profile/kody.moodley/kody.moodley_photo_kmoodley.jpg?itok=bN7b8s_-×tamp=1583505301',
- email: 'kody.moodley@maastrichtuniversity.nl',
- affiliation: {
- '@type': 'Organization',
- name: 'Maastricht Law & Tech Lab',
- url: {
- '@type': 'URL',
- '@value': 'https://www.maastrichtuniversity.nl/about-um/faculties/law/research/law-and-tech-lab'
- },
- logo: {
- '@type': 'ImageObject',
- contentUrl:
- 'https://www.maastrichtuniversity.nl/sites/default/files/styles/page_photo/public/compacte20versie20law20and20tech20lab.jpg?itok=7lm6PEQF'
- }
- }
- }
- }
-};
diff --git a/astro-frontend/src/utils/utils.ts b/astro-frontend/src/utils/utils.ts
deleted file mode 100644
index 115fe2a..0000000
--- a/astro-frontend/src/utils/utils.ts
+++ /dev/null
@@ -1,76 +0,0 @@
-// import React from "react";
-// // // const $rdf = require('rdflib')
-// import $rdf from 'rdflib';
-// // const $rdf = require('rdflib')
-// import { genericContext } from './settings';
-
-// NOT USED, it's in Layout.astro
-export const theme = {
- palette: {
- primary: {light: '#6ec6ff', main: '#2196f3', dark: '#0069c0'}, // blue
- secondary: {light: '#76d275', main: '#43a047', dark: '#00701a'} // green
- // default: { light: '#fafafa', main: '#eceff1', dark: grey[600] }
- // success: { light: '#ffe0b2', main: '#a5d6a7', dark: '#00600f' }, // green
- // info: { light: '#b3e5fc', main: '#81d4fa', dark: '#00600f' }, // blue
- // warning: { light: '#c8e6c9', main: '#ffcc80', dark: '#00600f' }, // orange
- // error: { light: '#ffcdd2', main: '#ef9a9a', dark: '#e57373' }, // red
- },
- typography: {
- fontFamily: '"Open Sans", "Roboto", "Arial"',
- fontWeightLight: 300,
- fontWeightRegular: 400,
- fontWeightMedium: 500,
- fontSize: 11
- }
- // spacing: 2
-};
-
-// export const rdfToRdf = (data: any, output: string = 'text/turtle', input: string = 'application/ld+json') => {
-// // Convert RDF to JSON-LD using rdflib
-// // let rdf_format = 'application/rdf+xml';
-// // if (uri.endsWith('.ttl')) rdf_format = 'text/turtle'
-// // if (uri.endsWith('.nq')) rdf_format = 'application/n-quads'
-// // // Or text/x-nquads
-// // if (uri.endsWith('.nt')) rdf_format = 'application/n-triples'
-// // if (uri.endsWith('.n3')) rdf_format = 'text/n3'
-// // if (uri.endsWith('.trig')) rdf_format = 'application/trig'
-// const baseUri = 'http://w3id.org/collaboratory/'
-// return new Promise((resolve, reject) => {
-// let store = $rdf.graph()
-// // let doc = $rdf.sym(base_uri);
-// $rdf.parse(JSON.stringify(data), store, baseUri, input)
-// // console.log(store)
-// $rdf.serialize(genericContext, store, baseUri, output, (err: any, rdfOutput: any) => {
-// return resolve(rdfOutput)
-// })
-// })
-// }
-
-// export const toJSONLD = (data: any, uri: any) => {
-// // Convert RDF to JSON-LD using rdflib
-// let rdf_format = 'application/rdf+xml';
-// if (uri.endsWith('.ttl')) rdf_format = 'text/turtle'
-// if (uri.endsWith('.nq')) rdf_format = 'application/n-quads'
-// // Or text/x-nquads
-// if (uri.endsWith('.nt')) rdf_format = 'application/n-triples'
-// if (uri.endsWith('.n3')) rdf_format = 'text/n3'
-// if (uri.endsWith('.trig')) rdf_format = 'application/trig'
-// return new Promise((resolve, reject) => {
-// let store = $rdf.graph()
-// let doc = $rdf.sym(uri);
-// $rdf.parse(data, store, uri, rdf_format)
-// // console.log(store)
-// $rdf.serialize(doc, store, uri, 'application/ld+json', (err: any, jsonldData: any) => {
-// return resolve(JSON.parse(jsonldData)
-// .sort((a: any, b: any) => {
-// if (a['@type'] && b['@type'] && Array.isArray(a['@type']) && Array.isArray(b['@type'])){
-// // Handle when array of types provided (e.g. SIO via rdflib)
-// return a['@type'][0] < b['@type'][0] ? 1 : -1
-// } else {
-// return a['@type'] < b['@type'] ? 1 : -1
-// }
-// })
-// )
-// })
-// })
-// }
diff --git a/astro-frontend/tailwind.config.cjs b/astro-frontend/tailwind.config.cjs
deleted file mode 100644
index 71d9c84..0000000
--- a/astro-frontend/tailwind.config.cjs
+++ /dev/null
@@ -1,48 +0,0 @@
-/** @type {import('tailwindcss').Config} */
-
-// NOT USED at the moment, too many conflict with current styling
-// Astro + Tailwind template: https://github.com/onwidget/astrowind
-module.exports = {
- content: ['./src/**/*.{astro,html,js,jsx,mdx,svelte,ts,tsx,vue}'],
- darkMode: 'class',
- theme: {
- fontFamily: {
- sans: ['Roboto', 'sans-serif']
- // serif: ['Merriweather', 'serif'],
- },
- fontSize: {
- sm: '0.8rem',
- base: '1rem',
- xl: '1.25rem',
- '2xl': '1.563rem',
- '3xl': '1.953rem',
- '4xl': '2.441rem',
- '5xl': '3.052rem'
- },
- extend: {
- colors: {
- primary: 'var(--color-primary)',
- secondary: 'var(--color-secondary)',
- accent: 'var(--color-accent)'
- }
- // fontFamily: {
- // sans: ['var(--aw-font-sans)', ...defaultTheme.fontFamily.sans],
- // serif: ['var(--aw-font-serif)', ...defaultTheme.fontFamily.serif],
- // heading: ['var(--aw-font-heading)', ...defaultTheme.fontFamily.sans],
- // },
- // spacing: {
- // '128': '32rem',
- // '144': '36rem',
- // },
- // borderRadius: {
- // '4xl': '2rem',
- // }
- }
- },
- // corePlugins: {
- // margin: false,
- // fontSize: false,
- // fontWeight: false,
- // },
- plugins: [require('@tailwindcss/typography')]
-};
diff --git a/astro-frontend/tsconfig.json b/astro-frontend/tsconfig.json
deleted file mode 100644
index b7243b9..0000000
--- a/astro-frontend/tsconfig.json
+++ /dev/null
@@ -1,7 +0,0 @@
-{
- "extends": "astro/tsconfigs/strict",
- "compilerOptions": {
- "jsx": "react-jsx",
- "jsxImportSource": "react"
- }
-}
diff --git a/frontend/src/pages/index.tsx b/frontend/src/pages/index.tsx
index 6d27592..5b4e528 100644
--- a/frontend/src/pages/index.tsx
+++ b/frontend/src/pages/index.tsx
@@ -25,6 +25,7 @@ export default function BrowseNanopub() {
const theme = useTheme()
const resourceTypesList: any = [
+ {label: 'All nanopublications', uri: 'All nanopublications'},
{label: 'PREDICT reference dataset', uri: 'http://purl.org/np/RAWWaT9M_Nd8cVm_-amJErz60Ak__tkS6ROi2P-swdmMw'},
{
label: 'Off-Label drug indication dataset',
@@ -34,7 +35,6 @@ export default function BrowseNanopub() {
label: 'Claims published with Annotate biomedical text',
uri: 'https://w3id.org/biolink/infores/knowledge-collaboratory'
},
- {label: 'All nanopublications', uri: 'All nanopublications'}
]
const users_pubkeys: any = {}
const nanopub_obj: any = {}
@@ -159,10 +159,11 @@ export default function BrowseNanopub() {
}
}`
}
- } else {
- // By default we show all nanopubs in the Knowledge Collaboratory
- assertionBlocks.push(`?association biolink:aggregator_knowledge_source <${knowledgeProvider}> .`)
}
+ // else {
+ // // By default we were showing all nanopubs in the Knowledge Collaboratory. Not anymore (there no new, so we just show all nanopubs)
+ // assertionBlocks.push(`?association biolink:aggregator_knowledge_source <${knowledgeProvider}> .`)
+ // }
let assertionGraphBlock = ''
if (assertionBlocks.length > 0) {