@jbrowse/plugin-config 1.7.8 → 1.7.9
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/ConfigurationEditorWidget/components/CodeEditor.js +16 -13
- package/dist/ConfigurationEditorWidget/components/SlotEditor.js +28 -15
- package/package.json +2 -2
- package/src/ConfigurationEditorWidget/components/CodeEditor.js +4 -3
- package/src/ConfigurationEditorWidget/components/SlotEditor.js +27 -15
- package/src/ConfigurationEditorWidget/components/__snapshots__/ConfigurationEditor.test.js.snap +83 -55
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@@ -31,19 +31,22 @@ function _interopRequireWildcard(obj, nodeInterop) { if (!nodeInterop && obj &&
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var fontSize = '12px'; // Optimize by using system default fonts: https://css-tricks.com/snippets/css/font-stacks/
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var fontFamily = 'Consolas, "Andale Mono WT", "Andale Mono", "Lucida Console", "Lucida Sans Typewriter", "DejaVu Sans Mono", "Bitstream Vera Sans Mono", "Liberation Mono", "Nimbus Mono L", Monaco, "Courier New", Courier, monospace';
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var useStyles = (0, _core.makeStyles)({
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var useStyles = (0, _core.makeStyles)(function (theme) {
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return {
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callbackEditor: {
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fontFamily: fontFamily,
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fontSize: fontSize,
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background: theme.palette.background.default,
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overflowX: 'auto',
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marginTop: '16px',
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border: '1px solid rgba(0,0,0,0.42)'
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},
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syntaxHighlighter: {
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margin: 0,
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fontFamily: fontFamily,
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fontSize: fontSize
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}
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};
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}); // eslint-disable-next-line react/prop-types
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function CodeEditor(_ref) {
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@@ -11,6 +11,8 @@ exports.useSlotEditorStyles = exports.default = void 0;
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var _slicedToArray2 = _interopRequireDefault(require("@babel/runtime/helpers/slicedToArray"));
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var _extends2 = _interopRequireDefault(require("@babel/runtime/helpers/extends"));
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var _react = _interopRequireWildcard(require("react"));
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var _mobxReact = require("mobx-react");
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@@ -41,13 +43,27 @@ function _interopRequireWildcard(obj, nodeInterop) { if (!nodeInterop && obj &&
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// icons
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// locals
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// adds ability to have html in helperText. note that FormHelperTextProps is
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// div because the default is p which does not like div children
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var MyTextField = function MyTextField(props) {
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// eslint-disable-next-line react/prop-types
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var helperText = props.helperText;
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return /*#__PURE__*/_react.default.createElement(_core.TextField, (0, _extends2.default)({}, props, {
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helperText: /*#__PURE__*/_react.default.createElement(_ui.SanitizedHTML, {
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html: helperText
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}),
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FormHelperTextProps: {
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component: 'div'
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},
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fullWidth: true
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}));
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};
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var StringEditor = (0, _mobxReact.observer)(function (_ref) {
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var slot = _ref.slot;
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return /*#__PURE__*/_react.default.createElement(
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label: slot.name
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,
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return /*#__PURE__*/_react.default.createElement(MyTextField, {
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label: slot.name,
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helperText: slot.description,
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fullWidth: true,
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value: slot.value,
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onChange: function onChange(evt) {
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return slot.set(evt.target.value);
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return /*#__PURE__*/_react.default.createElement(_core.TextField, {
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label: slot.name,
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helperText: slot.description,
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fullWidth: true,
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multiline: true,
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value: slot.value,
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onChange: function onChange(evt) {
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slot.reset();
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}
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}, [slot, val]);
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return /*#__PURE__*/_react.default.createElement(
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return /*#__PURE__*/_react.default.createElement(MyTextField, {
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label: slot.name,
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helperText: slot.description,
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value: val,
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slot.set(num);
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}
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}, [slot, val]);
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return /*#__PURE__*/_react.default.createElement(
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return /*#__PURE__*/_react.default.createElement(MyTextField, {
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label: slot.name,
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helperText: slot.description,
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value: val,
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}
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});
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});
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var
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var BooleanEditor = (0, _mobxReact.observer)(function (_ref12) {
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var slot = _ref12.slot;
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return /*#__PURE__*/_react.default.createElement(_core.FormControl, null, /*#__PURE__*/_react.default.createElement(_core.FormControlLabel, {
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label: slot.name,
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@@ -327,20 +342,18 @@ var booleanEditor = (0, _mobxReact.observer)(function (_ref12) {
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})
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}), /*#__PURE__*/_react.default.createElement(_core.FormHelperText, null, slot.description));
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});
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var
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var StringEnumEditor = (0, _mobxReact.observer)(function (_ref13) {
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var slot = _ref13.slot,
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slotSchema = _ref13.slotSchema;
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var p = (0, _mobxStateTree.getPropertyMembers)((0, _mstReflection.getSubType)(slotSchema));
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var choices = (0, _mstReflection.getUnionSubTypes)((0, _mstReflection.getUnionSubTypes)((0, _mstReflection.getSubType)((0, _mstReflection.getPropertyType)(p, 'value')))[1]).map(function (t) {
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return t.value;
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});
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return /*#__PURE__*/_react.default.createElement(
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return /*#__PURE__*/_react.default.createElement(MyTextField, {
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value: slot.value,
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label: slot.name,
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select: true
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,
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select: true,
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helperText: slot.description,
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fullWidth: true,
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onChange: function onChange(evt) {
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return slot.set(evt.target.value);
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}
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number: NumberEditor,
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integer: IntegerEditor,
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color: _ColorEditor.default,
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stringEnum:
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boolean:
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stringEnum: StringEnumEditor,
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boolean: BooleanEditor,
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frozen: _JsonEditor.default,
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configRelationships: _JsonEditor.default
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};
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package/package.json
CHANGED
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{
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"name": "@jbrowse/plugin-config",
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"version": "1.7.
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"version": "1.7.9",
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"description": "JBrowse 2 config utilities",
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"keywords": [
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"jbrowse",
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"publishConfig": {
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"access": "public"
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},
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"gitHead": "
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"gitHead": "a6504c385d703ce6e755d05652ef659ffe28c864"
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}
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const fontFamily =
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'Consolas, "Andale Mono WT", "Andale Mono", "Lucida Console", "Lucida Sans Typewriter", "DejaVu Sans Mono", "Bitstream Vera Sans Mono", "Liberation Mono", "Nimbus Mono L", Monaco, "Courier New", Courier, monospace'
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const useStyles = makeStyles({
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const useStyles = makeStyles(theme => ({
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callbackEditor: {
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fontFamily,
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fontSize,
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background: theme.palette.background.default,
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overflowX: 'auto',
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marginTop: '16px',
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border: '1px solid rgba(0,0,0,0.42)',
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},
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syntaxHighlighter: {
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margin: 0,
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fontFamily,
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fontSize,
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},
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})
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}))
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// eslint-disable-next-line react/prop-types
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export default function CodeEditor({ contents, setContents }) {
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import React, { useEffect, useState } from 'react'
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import { observer } from 'mobx-react'
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import { getPropertyMembers, getEnv } from 'mobx-state-tree'
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import { FileSelector } from '@jbrowse/core/ui'
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import { FileSelector, SanitizedHTML } from '@jbrowse/core/ui'
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import {
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import ColorEditor from './ColorEditor'
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import JsonEditor from './JsonEditor'
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// adds ability to have html in helperText. note that FormHelperTextProps is
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// div because the default is p which does not like div children
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const MyTextField = props => {
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// eslint-disable-next-line react/prop-types
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const { helperText } = props
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return (
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<TextField
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{...props}
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helperText={<SanitizedHTML html={helperText} />}
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FormHelperTextProps={{
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component: 'div',
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}}
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fullWidth
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/>
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)
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}
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const StringEditor = observer(({ slot }) => (
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<MyTextField
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helperText={slot.description}
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value={slot.value}
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onChange={evt => slot.set(evt.target.value)}
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<TextField
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helperText={slot.description}
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multiline
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onChange={evt => slot.set(evt.target.value)}
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}, [slot, val])
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<MyTextField
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value={val}
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<
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<MyTextField
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value={val}
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const BooleanEditor = observer(({ slot }) => (
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<FormControl>
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<FormControlLabel
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const
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const StringEnumEditor = observer(({ slot, slotSchema }) => {
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const choices = getUnionSubTypes(
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getUnionSubTypes(getSubType(getPropertyType(p, 'value')))[1],
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).map(t => t.value)
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value={slot.value}
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select
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// error={filterError}
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helperText={slot.description}
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>
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{choices.map(str => (
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number: NumberEditor,
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integer: IntegerEditor,
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color: ColorEditor,
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stringEnum:
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boolean:
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stringEnum: StringEnumEditor,
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boolean: BooleanEditor,
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frozen: JsonEditor,
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configRelationships: JsonEditor,
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}
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package/src/ConfigurationEditorWidget/components/__snapshots__/ConfigurationEditor.test.js.snap
CHANGED
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value="string1"
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/>
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</div>
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<
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<div
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class="MuiFormHelperText-root MuiFormHelperText-filled"
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<div>
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stringTest
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</div>
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</div>
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<div
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+
maximum features per pixel that is displayed in the view, used if byte size estimates not available
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</div>
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@@ -917,7 +925,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
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fetchSizeLimit
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@@ -926,11 +934,13 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
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value="1000000"
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/>
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|
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|
-
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+
<div>
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+
maximum data to attempt to download for a given track, used if adapter doesn't specify one
|
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+
</div>
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+
</div>
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@@ -1284,11 +1294,13 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
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/>
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+
read sequencer orienation. fr is normal "reads pointing at each other ---> <--- while some other sequencers can use other options
|
|
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|
+
</div>
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+
</div>
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@@ -1338,11 +1350,13 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
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/>
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</svg>
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-
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+
<div>
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+
Alternative display modes
|
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|
+
</div>
|
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+
</div>
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@@ -1356,7 +1370,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
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class="makeStyles-paperContent"
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class="MuiFormLabel-root MuiInputLabel-root MuiInputLabel-formControl MuiInputLabel-animated MuiInputLabel-shrink MuiFormLabel-filled"
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@@ -1365,7 +1379,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
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minSubfeatureWidth
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|
-
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-formControl MuiInput-formControl"
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+
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-fullWidth MuiInput-fullWidth MuiInputBase-formControl MuiInput-formControl"
|
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@@ -1374,11 +1388,13 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
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|
value="0.7"
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/>
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<
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|
-
|
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|
-
|
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1394
|
+
<div>
|
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1395
|
+
the minimum width in px for a pileup mismatch feature. use for increasing/decreasing mismatch marker widths when zoomed out, e.g. 0 or 1
|
|
1396
|
+
</div>
|
|
1397
|
+
</div>
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|
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<div
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@@ -1392,7 +1408,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
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class="makeStyles-paperContent"
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|
-
class="MuiFormControl-root MuiTextField-root"
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+
class="MuiFormControl-root MuiTextField-root MuiFormControl-fullWidth"
|
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<label
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class="MuiFormLabel-root MuiInputLabel-root MuiInputLabel-formControl MuiInputLabel-animated MuiInputLabel-shrink MuiFormLabel-filled"
|
|
@@ -1401,7 +1417,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
|
|
1401
1417
|
maxHeight
|
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1402
1418
|
</label>
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|
<div
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|
1404
|
-
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-formControl MuiInput-formControl"
|
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1420
|
+
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-fullWidth MuiInput-fullWidth MuiInputBase-formControl MuiInput-formControl"
|
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1421
|
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<input
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1407
1423
|
aria-invalid="false"
|
|
@@ -1410,11 +1426,13 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
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|
value="1200"
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|
/>
|
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|
</div>
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|
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|
-
<
|
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|
+
<div
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|
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|
>
|
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1416
|
-
|
|
1417
|
-
|
|
1432
|
+
<div>
|
|
1433
|
+
the maximum height to be used in a pileup rendering
|
|
1434
|
+
</div>
|
|
1435
|
+
</div>
|
|
1418
1436
|
</div>
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1437
|
</div>
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1438
|
<div
|
|
@@ -1428,7 +1446,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
|
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1428
1446
|
class="makeStyles-paperContent"
|
|
1429
1447
|
>
|
|
1430
1448
|
<div
|
|
1431
|
-
class="MuiFormControl-root MuiTextField-root"
|
|
1449
|
+
class="MuiFormControl-root MuiTextField-root MuiFormControl-fullWidth"
|
|
1432
1450
|
>
|
|
1433
1451
|
<label
|
|
1434
1452
|
class="MuiFormLabel-root MuiInputLabel-root MuiInputLabel-formControl MuiInputLabel-animated MuiInputLabel-shrink MuiFormLabel-filled"
|
|
@@ -1437,7 +1455,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
|
|
1437
1455
|
maxClippingSize
|
|
1438
1456
|
</label>
|
|
1439
1457
|
<div
|
|
1440
|
-
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-formControl MuiInput-formControl"
|
|
1458
|
+
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-fullWidth MuiInput-fullWidth MuiInputBase-formControl MuiInput-formControl"
|
|
1441
1459
|
>
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1442
1460
|
<input
|
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1443
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|
aria-invalid="false"
|
|
@@ -1446,11 +1464,13 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
|
|
1446
1464
|
value="10000"
|
|
1447
1465
|
/>
|
|
1448
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|
</div>
|
|
1449
|
-
<
|
|
1467
|
+
<div
|
|
1450
1468
|
class="MuiFormHelperText-root MuiFormHelperText-filled"
|
|
1451
1469
|
>
|
|
1452
|
-
|
|
1453
|
-
|
|
1470
|
+
<div>
|
|
1471
|
+
the max clip size to be used in a pileup rendering
|
|
1472
|
+
</div>
|
|
1473
|
+
</div>
|
|
1454
1474
|
</div>
|
|
1455
1475
|
</div>
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|
1456
1476
|
<div
|
|
@@ -1464,7 +1484,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
|
|
1464
1484
|
class="makeStyles-paperContent"
|
|
1465
1485
|
>
|
|
1466
1486
|
<div
|
|
1467
|
-
class="MuiFormControl-root MuiTextField-root"
|
|
1487
|
+
class="MuiFormControl-root MuiTextField-root MuiFormControl-fullWidth"
|
|
1468
1488
|
>
|
|
1469
1489
|
<label
|
|
1470
1490
|
class="MuiFormLabel-root MuiInputLabel-root MuiInputLabel-formControl MuiInputLabel-animated MuiInputLabel-shrink MuiFormLabel-filled"
|
|
@@ -1473,7 +1493,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
|
|
1473
1493
|
height
|
|
1474
1494
|
</label>
|
|
1475
1495
|
<div
|
|
1476
|
-
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-formControl MuiInput-formControl"
|
|
1496
|
+
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-fullWidth MuiInput-fullWidth MuiInputBase-formControl MuiInput-formControl"
|
|
1477
1497
|
>
|
|
1478
1498
|
<input
|
|
1479
1499
|
aria-invalid="false"
|
|
@@ -1482,11 +1502,13 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
|
|
1482
1502
|
value="7"
|
|
1483
1503
|
/>
|
|
1484
1504
|
</div>
|
|
1485
|
-
<
|
|
1505
|
+
<div
|
|
1486
1506
|
class="MuiFormHelperText-root MuiFormHelperText-filled"
|
|
1487
1507
|
>
|
|
1488
|
-
|
|
1489
|
-
|
|
1508
|
+
<div>
|
|
1509
|
+
the height of each feature in a pileup alignment
|
|
1510
|
+
</div>
|
|
1511
|
+
</div>
|
|
1490
1512
|
</div>
|
|
1491
1513
|
</div>
|
|
1492
1514
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<div
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@@ -1582,7 +1604,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
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class="makeStyles-paperContent"
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>
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<div
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1585
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-
class="MuiFormControl-root MuiTextField-root"
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1607
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+
class="MuiFormControl-root MuiTextField-root MuiFormControl-fullWidth"
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>
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1587
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<label
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class="MuiFormLabel-root MuiInputLabel-root MuiInputLabel-formControl MuiInputLabel-animated MuiInputLabel-shrink MuiFormLabel-filled"
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@@ -1591,7 +1613,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
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largeInsertionIndicatorScale
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</label>
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1593
1615
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<div
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1594
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-
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-formControl MuiInput-formControl"
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1616
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+
class="MuiInputBase-root MuiInput-root MuiInput-underline MuiInputBase-fullWidth MuiInput-fullWidth MuiInputBase-formControl MuiInput-formControl"
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>
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<input
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aria-invalid="false"
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@@ -1600,11 +1622,13 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
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value="10"
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/>
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</div>
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1603
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-
<
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1625
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+
<div
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1604
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class="MuiFormHelperText-root MuiFormHelperText-filled"
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1605
1627
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>
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1606
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-
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1607
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-
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1628
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+
<div>
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1629
|
+
scale at which to draw the large insertion indicators (bp/pixel)
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1630
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+
</div>
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1631
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+
</div>
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1608
1632
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</div>
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1609
1633
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</div>
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1610
1634
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<div
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@@ -1769,7 +1793,11 @@ exports[`ConfigurationEditor widget renders with just the required model element
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value="bar"
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1770
1794
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/>
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1771
1795
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</div>
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1772
|
-
|
|
1796
|
+
<div
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|
1797
|
+
class="MuiFormHelperText-root MuiFormHelperText-filled"
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|
1798
|
+
>
|
|
1799
|
+
<div />
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|
1800
|
+
</div>
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1773
1801
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</div>
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1774
1802
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</div>
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1775
1803
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<div
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