react-science 0.19.1

package/lib/app/panels/measurements/MeasurementsPanel.js

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+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.MeasurementsPanel = void 0;
+const jsx_runtime_1 = require("react/jsx-runtime");
+const index_1 = require("../../../app-data/index");
+const index_2 = require("../../../components/index");
+const MeasurementsTable_1 = require("./MeasurementsTable");
+function MeasurementsPanel() {
+    const appState = (0, index_1.useAppState)();
+    const { data, view } = appState;
+    const dispatch = (0, index_1.useAppDispatch)();
+    const kindItem = (kind) => ({
+        id: kind,
+        title: index_1.kindLabels[kind],
+        content: (0, jsx_runtime_1.jsx)(MeasurementsTable_1.MeasurementsTable, { kind: kind }),
+    });
+    const availableKinds = index_1.measurementKinds.filter((label) => data.measurements[label].entries.length > 0);
+    const items = availableKinds.map(kindItem);
+    function handleTabSelection(id) {
+        dispatch({
+            type: 'SELECT_MEASUREMENT_KIND',
+            payload: id,
+        });
+    }
+    if (items.length > 1) {
+        return ((0, jsx_runtime_1.jsx)(index_2.Tabs, { orientation: "horizontal", items: items, opened: view.selectedKind, onClick: handleTabSelection }));
+    }
+    if (items.length === 1 && items[0].content) {
+        return (0, jsx_runtime_1.jsx)(jsx_runtime_1.Fragment, { children: items[0].content });
+    }
+    return ((0, jsx_runtime_1.jsx)("div", { style: { paddingTop: '1rem', marginInline: 'auto' }, children: "No data available" }));
+}
+exports.MeasurementsPanel = MeasurementsPanel;

package/lib/app/panels/measurements/MeasurementsPanelAccordion.js

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+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.MeasurementsPanelAccordion = void 0;
+const jsx_runtime_1 = require("react/jsx-runtime");
+const index_1 = require("../../../app-data/index");
+const index_2 = require("../../../components/index");
+const MeasurementsPanel_1 = require("./MeasurementsPanel");
+function MeasurementsPanelAccordion() {
+    const appData = (0, index_1.useAppData)();
+    const kinds = (0, index_1.getExistingMeasurementKinds)(appData.measurements);
+    const title = kinds.length === 1
+        ? `${index_1.kindLabels[kinds[0]]} measurements`
+        : 'Measurements';
+    return ((0, jsx_runtime_1.jsx)(index_2.Accordion.Item, { title: title, defaultOpened: true, children: (0, jsx_runtime_1.jsx)(MeasurementsPanel_1.MeasurementsPanel, {}) }));
+}
+exports.MeasurementsPanelAccordion = MeasurementsPanelAccordion;

package/lib/app/panels/measurements/MeasurementsTable.js

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+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
+    Object.defineProperty(o, "default", { enumerable: true, value: v });
+}) : function(o, v) {
+    o["default"] = v;
+});
+var __importStar = (this && this.__importStar) || function (mod) {
+    if (mod && mod.__esModule) return mod;
+    var result = {};
+    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
+    __setModuleDefault(result, mod);
+    return result;
+};
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.MeasurementsTable = void 0;
+const jsx_runtime_1 = require("@emotion/react/jsx-runtime");
+/** @jsxImportSource @emotion/react */
+const react_1 = require("@emotion/react");
+const fa_1 = require("react-icons/fa");
+const index_1 = require("../../../app-data/index");
+const index_2 = require("../../../components/index");
+const MeasurementCheckbox_1 = require("./MeasurementCheckbox");
+const MeasurementColorPreview_1 = __importDefault(require("./MeasurementColorPreview"));
+const MeasurementVisibilityToggle_1 = __importStar(require("./MeasurementVisibilityToggle"));
+const styles = {
+    root: (0, react_1.css) `
+    font-size: 0.875rem;
+    line-height: 1.25rem;
+    border-collapse: collapse;
+    table-layout: fixed;
+  `,
+    th: (0, react_1.css) `
+    border-bottom-width: 1px;
+    font-weight: 500;
+    text-align: left;
+    padding-bottom: 10px;
+    padding-top: 10px;
+    padding-left: 2rem;
+  `,
+    tbody: (0, react_1.css) `
+    background-color: white;
+  `,
+    tr: (0, react_1.css) `
+    height: 50px;
+    max-height: 50px;
+    overflow: hidden;
+    cursor: pointer;
+    padding-left: 2rem;
+    padding-bottom: 10px;
+    padding-top: 10px;
+    border-bottom-width: 1px;
+
+    font-weight: 500;
+    font-size: 0.875rem;
+    line-height: 1.25rem;
+  `,
+    header: (0, react_1.css) `
+    border-bottom-width: 1px;
+    font-weight: 500;
+    text-align: left;
+    padding-bottom: 10px;
+    padding-top: 10px;
+    padding-left: 2rem;
+  `,
+    iconsContainer: (0, react_1.css) `
+    display: flex;
+    justify-content: center;
+    align-items: center;
+    justify-items: center;
+    height: 50px;
+    flex-direction: row;
+    gap: 0.5rem;
+    cursor: default;
+    width: 70px;
+  `,
+    linkButton: (0, react_1.css) `
+    cursor: pointer;
+    :hover {
+      text-decoration: underline;
+    }
+  `,
+    container: (0, react_1.css) `
+    display: flex;
+    flex-direction: column;
+    gap: 5px;
+  `,
+    headerColumn: (0, react_1.css) `
+    display: flex;
+    flex-direction: row;
+    gap: 10px;
+    align-items: center;
+    padding-left: 5px;
+
+    border-bottom: 1px solid black;
+  `,
+};
+function MeasurementsTable(props) {
+    const { kind } = props;
+    const { data: { measurements }, view: { selectedMeasurements }, } = (0, index_1.useAppState)();
+    const dispatch = (0, index_1.useAppDispatch)();
+    const [isRemoveModalOpen, openRemoveModal, closeRemoveModal] = (0, index_2.useOnOff)();
+    const hasSelectedMeasurements = (selectedMeasurements[kind]?.length ?? 0) > 0;
+    function onSelectLink(select) {
+        dispatch({
+            type: 'SELECT_ALL_MEASUREMENTS',
+            payload: {
+                kind,
+                select,
+            },
+        });
+    }
+    function onRemove() {
+        dispatch({ type: 'REMOVE_SELECTED_MEASUREMENTS', payload: { kind } });
+        closeRemoveModal();
+    }
+    return ((0, jsx_runtime_1.jsxs)("div", { css: styles.container, children: [(0, jsx_runtime_1.jsxs)("div", { css: styles.headerColumn, children: [(0, jsx_runtime_1.jsx)(MeasurementVisibilityToggle_1.MeasurementSelectedVisibilityChange, { kind: kind, openedEyes: true }), (0, jsx_runtime_1.jsx)(MeasurementVisibilityToggle_1.MeasurementSelectedVisibilityChange, { kind: kind, openedEyes: false }), (0, jsx_runtime_1.jsx)("span", { css: styles.linkButton, onClick: () => onSelectLink(true), children: "Select all" }), (0, jsx_runtime_1.jsx)("span", { css: styles.linkButton, onClick: () => onSelectLink(false), children: "Unselect all" }), (0, jsx_runtime_1.jsx)(fa_1.FaTrash, { style: hasSelectedMeasurements ? { cursor: 'pointer' } : { opacity: 0.6 }, onClick: hasSelectedMeasurements ? openRemoveModal : undefined }), (0, jsx_runtime_1.jsx)(index_2.ConfirmModal, { headerColor: "red", isOpen: isRemoveModalOpen, onConfirm: onRemove, onRequestClose: closeRemoveModal, saveText: "Remove", children: (0, jsx_runtime_1.jsx)("div", { style: { fontWeight: 'bold', padding: 10 }, children: "Remove selected measurements?" }) })] }), (0, jsx_runtime_1.jsxs)("table", { css: styles.root, children: [(0, jsx_runtime_1.jsx)(MeasurementsTableHeader, {}), (0, jsx_runtime_1.jsx)("tbody", { css: styles.tbody, children: measurements[kind].entries.map((element) => ((0, jsx_runtime_1.jsx)(MeasurementsTableRow, { item: element, kind: kind }, element.id))) })] })] }));
+}
+exports.MeasurementsTable = MeasurementsTable;
+const tableHeaderStyles = {
+    thStyleEmpty: (0, react_1.css) `
+    display: flex;
+    gap: 5px;
+    align-items: center;
+    width: 70px;
+  `,
+    thStyleFilename: (0, react_1.css) `
+    width: 60%;
+  `,
+    thStyleTechnique: (0, react_1.css) `
+    width: 150px;
+  `,
+    tdName: (0, react_1.css) `
+    width: 60%;
+    overflow: hidden;
+  `,
+};
+function MeasurementsTableHeader() {
+    return ((0, jsx_runtime_1.jsx)("thead", { children: (0, jsx_runtime_1.jsxs)("tr", { css: styles.header, children: [(0, jsx_runtime_1.jsx)("th", { css: tableHeaderStyles.thStyleEmpty }), (0, jsx_runtime_1.jsx)("th", { css: tableHeaderStyles.thStyleFilename, children: "Filename" }), (0, jsx_runtime_1.jsx)("th", { css: tableHeaderStyles.thStyleTechnique, children: "Technique" })] }) }));
+}
+function MeasurementsTableRow(props) {
+    const { item, kind } = props;
+    const { view: { selectedMeasurements, measurements }, } = (0, index_1.useAppState)();
+    const dispatch = (0, index_1.useAppDispatch)();
+    function onSelectRow() {
+        dispatch({
+            type: 'SELECT_MEASUREMENT',
+            payload: { id: item.id, kind, acc: 'replace' },
+        });
+    }
+    function onSelectCheckbox() {
+        const isAlreadyChecked = selectedMeasurements[kind]?.includes(item.id);
+        dispatch({
+            type: 'SELECT_MEASUREMENT',
+            payload: { id: item.id, kind, acc: isAlreadyChecked ? 'remove' : 'add' },
+        });
+    }
+    return ((0, jsx_runtime_1.jsxs)("tr", { css: styles.tr, children: [(0, jsx_runtime_1.jsxs)("td", { css: styles.iconsContainer, children: [(0, jsx_runtime_1.jsx)(MeasurementVisibilityToggle_1.default, { id: item.id, isVisible: measurements[item.id].visible }), (0, jsx_runtime_1.jsx)(MeasurementColorPreview_1.default, { measurementId: item.id, kind: kind, color: measurements[item.id].color }), (0, jsx_runtime_1.jsx)(MeasurementCheckbox_1.MeasurementCheckbox, { checked: selectedMeasurements[kind]?.includes(item.id) || false, onSelectCheckbox: onSelectCheckbox })] }), (0, jsx_runtime_1.jsx)("td", { css: tableHeaderStyles.tdName, onClick: onSelectRow, title: item.id, children: item.info.file?.name ?? item.info.title }), (0, jsx_runtime_1.jsx)("td", { onClick: onSelectRow, children: item.meta.technique })] }));
+}

package/lib/app/panels/measurements/index.js

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+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __exportStar = (this && this.__exportStar) || function(m, exports) {
+    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+__exportStar(require("./MeasurementsPanelAccordion"), exports);
+__exportStar(require("./MeasurementsPanel"), exports);

package/lib/app-data/enhancers/enhance.js

@@ -0,0 +1,16 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.enhance = void 0;
+function enhance(measurements, enhancers) {
+    for (const [kind, kindEnhancers] of Object.entries(enhancers)) {
+        const kindMeasurements = measurements[kind];
+        if (kindMeasurements) {
+            for (const measurement of kindMeasurements.entries) {
+                for (const enhancer of kindEnhancers) {
+                    enhancer(measurement);
+                }
+            }
+        }
+    }
+}
+exports.enhance = enhance;

package/lib/app-data/enhancers/index.js

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+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __exportStar = (this && this.__exportStar) || function(m, exports) {
+    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+__exportStar(require("./enhance"), exports);

package/lib/app-data/helpers/index.js

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+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __exportStar = (this && this.__exportStar) || function(m, exports) {
+    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+__exportStar(require("./variables"), exports);

package/lib/app-data/helpers/variables.js

@@ -0,0 +1,25 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.getVariableByLabel = exports.getPreferredVariable = exports.getAllVariableSymbols = void 0;
+function getAllVariableSymbols(measurement) {
+    return Object.values(measurement.data[0].variables).map((v) => v.label);
+}
+exports.getAllVariableSymbols = getAllVariableSymbols;
+function getPreferredVariable(measurement, axis) {
+    if (axis === 'x') {
+        return measurement.data[0].variables.x || measurement.data[0].variables.a;
+    }
+    else {
+        return measurement.data[0].variables.y || measurement.data[0].variables.b;
+    }
+}
+exports.getPreferredVariable = getPreferredVariable;
+function getVariableByLabel(measurement, label) {
+    const variables = measurement.data[0].variables;
+    for (const value of Object.values(variables)) {
+        if (value.label === label)
+            return value;
+    }
+    return null;
+}
+exports.getVariableByLabel = getVariableByLabel;

package/lib/app-data/index.js

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+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __exportStar = (this && this.__exportStar) || function(m, exports) {
+    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+__exportStar(require("./enhancers/index"), exports);
+__exportStar(require("./helpers/index"), exports);
+__exportStar(require("./kinds/index"), exports);
+__exportStar(require("./loaders/index"), exports);
+__exportStar(require("./state/index"), exports);
+__exportStar(require("./utils"), exports);

package/lib/app-data/kinds/index.js

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+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __exportStar = (this && this.__exportStar) || function(m, exports) {
+    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+__exportStar(require("./ir/index"), exports);
+__exportStar(require("./iv/index"), exports);

package/lib/app-data/kinds/ir/IrMeasurement.js

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+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });

package/lib/app-data/kinds/ir/IrPeak.js

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+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });

package/lib/app-data/kinds/ir/index.js

@@ -0,0 +1,20 @@
+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __exportStar = (this && this.__exportStar) || function(m, exports) {
+    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+__exportStar(require("./irAutoPeakPickingEnhancer"), exports);
+__exportStar(require("./IrMeasurement"), exports);
+__exportStar(require("./irMeasurementEnhancer"), exports);
+__exportStar(require("./IrPeak"), exports);

package/lib/app-data/kinds/ir/irAutoPeakPickingEnhancer.js

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+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.getIrAutoPeakPickingEnhancer = exports.irAutoPeakPickingEnhancer = void 0;
+const ml_gsd_1 = require("ml-gsd");
+const ml_spectra_processing_1 = require("ml-spectra-processing");
+/** Based on a x value we will return a peak*/
+function irAutoPeakPickingEnhancer(measurement, options = {}) {
+    const { xVariable = 'x', yVariable = 'y', minPeakWidth } = options;
+    // we throw if there are more than one spectrum
+    if (measurement.data.length > 1) {
+        throw new Error('autoPeakPickingEnhancer can only be applied if there is only on measurement data');
+    }
+    if (measurement.data.length === 0)
+        return;
+    const datum = measurement.data[0];
+    let x = datum.variables[xVariable]?.data;
+    let y = datum.variables[yVariable]?.data;
+    if (!x || !y)
+        return [];
+    let { from, to } = options;
+    let peaks = (0, ml_gsd_1.gsd)({ x, y }, options);
+    if (from !== undefined) {
+        peaks = peaks.filter((peak) => peak.x >= from);
+    }
+    if (to !== undefined) {
+        peaks = peaks.filter((peak) => peak.x <= to);
+    }
+    if (minPeakWidth) {
+        peaks = peaks.filter((peak) => peak.width >= minPeakWidth);
+    }
+    const minMaxTransmittance = (0, ml_spectra_processing_1.xMinMaxValues)(datum.variables.t.data);
+    const results = peaks.map((peak) => ({
+        wavenumber: datum.variables.x.data[peak.index],
+        absorbance: datum.variables.a.data[peak.index],
+        transmittance: datum.variables.t.data[peak.index] / 100,
+        kind: getPeakKind(datum.variables.t.data[peak.index], minMaxTransmittance.min, minMaxTransmittance.max),
+    }));
+    measurement.peaks = results;
+}
+exports.irAutoPeakPickingEnhancer = irAutoPeakPickingEnhancer;
+function getIrAutoPeakPickingEnhancer(options) {
+    return (measurement) => irAutoPeakPickingEnhancer(measurement, options);
+}
+exports.getIrAutoPeakPickingEnhancer = getIrAutoPeakPickingEnhancer;
+function getPeakKind(transmittance, minTransmittance, maxTransmittance) {
+    let position = (maxTransmittance - transmittance) / (maxTransmittance - minTransmittance);
+    if (position < 0.33) {
+        return 'w';
+    }
+    else if (position < 0.66) {
+        return 'm';
+    }
+    return 'S';
+}

package/lib/app-data/kinds/ir/irMeasurementEnhancer.js

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+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.irMeasurementEnhancer = void 0;
+/**
+ * we add missing absorbance / transmittance
+ * variable a = absorbance
+ * variable t = transmittance
+ */
+function irMeasurementEnhancer(measurement) {
+    for (const datum of measurement.data) {
+        const variables = datum.variables;
+        let yVariable = variables.y;
+        let absorbance = true;
+        if (yVariable.label.toLowerCase().includes('trans')) {
+            absorbance = false;
+        }
+        if (absorbance) {
+            variables.a = { ...yVariable };
+            variables.a.data = variables.a.data.slice();
+            variables.t = {
+                data: yVariable.data.map((absorbance) => 10 ** -absorbance * 100),
+                label: 'Transmittance (%)',
+                units: '',
+            };
+        }
+        else {
+            const factor = yVariable.label.includes('%') ||
+                yVariable.label.toLowerCase().includes('percent')
+                ? 100
+                : 1;
+            variables.a = {
+                data: yVariable.data.map((transmittance) => -Math.log10(transmittance / factor)),
+                label: 'Absorbance',
+                units: '',
+            };
+            if (factor === 100) {
+                variables.t = { ...yVariable };
+                variables.t.data = variables.t.data.slice();
+            }
+            else {
+                variables.t = {
+                    units: '',
+                    label: 'Transmittance (%)',
+                    data: yVariable.data.map((transmittance) => transmittance * 100),
+                };
+            }
+        }
+    }
+}
+exports.irMeasurementEnhancer = irMeasurementEnhancer;

package/lib/app-data/kinds/iv/IvMeasurement.js

@@ -0,0 +1,2 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });

package/lib/app-data/kinds/iv/index.js

@@ -0,0 +1,17 @@
+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __exportStar = (this && this.__exportStar) || function(m, exports) {
+    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+__exportStar(require("./IvMeasurement"), exports);

package/lib/app-data/loaders/biologicLoader.js

@@ -0,0 +1,140 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.biologicLoader = void 0;
+const biologic_converter_1 = require("biologic-converter");
+const getMeasurementInfoFromFile_1 = require("./utility/getMeasurementInfoFromFile");
+const parserLog_1 = require("./utility/parserLog");
+/**
+ *
+ * @param fileCollection - the dragged file/files
+ * @param logs - pass to append errors to the logs, it mutates the external array.
+ * @returns - new measurements object to be merged
+ */
+async function biologicLoader(fileCollection, logs) {
+    const measurements = {};
+    const entries = [];
+    for (const file of fileCollection.files) {
+        try {
+            if (/\.mpr$/i.test(file.name)) {
+                const mpr = (0, biologic_converter_1.parseMPR)(await file.arrayBuffer());
+                const meta = mpr.settings.variables;
+                const info = (0, getMeasurementInfoFromFile_1.getMeasurementInfoFromFile)(file, `Experiment: ${meta.technique}`);
+                // puts the "useful" variables at x and y for default plot.
+                const variables = preferredXY(meta.technique, mpr.data.variables);
+                const result = {
+                    ...info,
+                    meta,
+                    data: [{ variables }],
+                };
+                entries.push(result);
+            }
+            else if (/\.mpt$/i.test(file.name)) {
+                const { data, settings } = (0, biologic_converter_1.parseMPT)(await file.arrayBuffer());
+                if (data.variables) {
+                    const metaData = settings?.variables;
+                    const info = (0, getMeasurementInfoFromFile_1.getMeasurementInfoFromFile)(file, metaData?.technique
+                        ? `Experiment: ${metaData.technique}`
+                        : file.name);
+                    // puts the "useful" variables at x and y for default plot.
+                    const variables = preferredXY(metaData?.technique, data.variables);
+                    const result = {
+                        ...info,
+                        meta: metaData || {},
+                        data: [{ variables }],
+                    };
+                    entries.push(result);
+                }
+            }
+        }
+        catch (error) {
+            //send error to UI to show to User ?
+            if (error instanceof Error) {
+                if (logs) {
+                    logs.push((0, parserLog_1.createLogEntry)({ error, relativePath: file.relativePath }));
+                }
+                else {
+                    throw error;
+                }
+            }
+        }
+    }
+    measurements.iv = { entries };
+    return measurements;
+}
+exports.biologicLoader = biologicLoader;
+/**
+ * Each biologic experiment stores measurement variables (not just `x` and `y`) in the
+ * `data.variables` object.
+ * this function takes "useful ones", and place them as `x` and `y`.
+ * so they are default for the plot.
+ * @param technique technique used in the experiment
+ * @param variables experiment variables
+ * @returns the same data (and type) with rearranged variables.
+ * (does not need return type as it is inferred)
+ */
+function preferredXY(technique, variables) {
+    if (!technique)
+        return variables;
+    switch (technique) {
+        case 'CA': {
+            //Chronoamperometry or Chronocoulometry (distinguish?)
+            variables = setDefault(variables, 'I', 'y');
+            variables = setDefault(variables, 'time', 'x');
+            break;
+        }
+        case 'CP': {
+            //Chronopotentiometry. <average>
+            variables = setDefault(variables, '<Ewe>', 'y');
+            variables = setDefault(variables, 'time', 'x');
+            break;
+        }
+        case 'CV': {
+            //cyclic voltammetry. <average>
+            variables = setDefault(variables, '<I>', 'y');
+            variables = setDefault(variables, 'Ewe', 'x');
+            break;
+        }
+        case 'GCPL': {
+            variables = setDefault(variables, 'Ewe', 'y');
+            variables = setDefault(variables, 'time', 'x');
+            break;
+        }
+        case 'OCV': {
+            variables = setDefault(variables, 'Ewe', 'y');
+            variables = setDefault(variables, 'time', 'x');
+            break;
+        }
+        default:
+            break;
+    }
+    return variables;
+}
+/**
+ * Stores object with "label" at either "x" or "y".
+ * the data stored is still the same.
+ * @param variables experimental variables
+ * @param label label to search for in the variables object (time, potential, current, etc)
+ * @param storeAt which key to move that data to
+ * @returns the new variables object.
+ */
+function setDefault(variables, label, storeAt) {
+    for (const varum in variables) {
+        // find the key with `label` (or skip if not found)
+        if (variables[varum].label === label && //if not already at the right key
+            varum !== storeAt) {
+            // populate key, if there is no data there.
+            if (!variables[storeAt]) {
+                variables[storeAt] = variables[varum];
+                delete variables[varum];
+            }
+            else {
+                // if the storeAt is already occupied, swap the two
+                const originalX = variables[storeAt];
+                const newX = variables[varum];
+                variables[storeAt] = newX;
+                variables[varum] = originalX;
+            }
+        }
+    }
+    return variables;
+}