/* CSS Variables for Theming */
:root {
    --bg-primary: #ffffff;
    --bg-secondary: #f8f9fa;
    --bg-card: #f8f9fa;
    --text-primary: #333333;
    --text-secondary: #666666;
    --text-muted: #999999;
    --border-color: #e0e0e0;
    --accent: #0a66c2;
    --accent-hover: #0856a1;
    --accent-light: #e8f4fc;
    --danger: #cc0000;
    --danger-light: #ffdddd;
    --success: #28a745;
    --warning: #ffc107;
    --graph-bg: #ffffff;
    --graph-line: #cc0000;
    --shadow: rgba(0, 0, 0, 0.1);
    --input-bg: #ffffff;
}

[data-theme="dark"] {
    --bg-primary: #121212;
    --bg-secondary: #1e1e1e;
    --bg-card: #252525;
    --text-primary: #f5f5f5;
    --text-secondary: #b0b0b0;
    --text-muted: #808080;
    --border-color: #404040;
    --accent: #6bb3ff;
    --accent-hover: #8ac4ff;
    --accent-light: #1a3a5a;
    --danger: #ff7b7b;
    --danger-light: #3d2020;
    --success: #66bb6a;
    --warning: #ffca28;
    --graph-bg: #1a1a1a;
    --graph-line: #ff7b7b;
    --shadow: rgba(0, 0, 0, 0.5);
    --input-bg: #2a2a2a;
}

* {
    box-sizing: border-box;
    margin: 0;
    padding: 0;
}

/* Screen reader only content */
.visually-hidden {
    position: absolute;
    width: 1px;
    height: 1px;
    padding: 0;
    margin: -1px;
    overflow: hidden;
    clip: rect(0, 0, 0, 0);
    white-space: nowrap;
    border: 0;
}

/* Skip link for keyboard navigation */
.skip-link {
    position: absolute;
    top: -40px;
    left: 0;
    background: var(--accent);
    color: white;
    padding: 8px 16px;
    z-index: 10002;
    transition: top 0.3s;
}

.skip-link:focus {
    top: 0;
}

body {
    font-family: -apple-system, BlinkMacSystemFont, 'Segoe UI', Roboto, Oxygen, Ubuntu, sans-serif;
    background: var(--bg-primary);
    color: var(--text-primary);
    line-height: 1.6;
    padding: 20px;
    max-width: 1200px;
    margin: 0 auto;
    transition: background-color 0.3s, color 0.3s;
}

/* Header */
.header {
    display: flex;
    justify-content: space-between;
    align-items: center;
    margin-bottom: 24px;
}

.header h1 {
    color: var(--accent);
    font-weight: 600;
    margin: 0;
}

.header-controls {
    display: flex;
    gap: 8px;
}

.icon-btn {
    background: var(--bg-secondary);
    border: 1px solid var(--border-color);
    border-radius: 8px;
    padding: 8px 12px;
    cursor: pointer;
    font-size: 16px;
    transition: all 0.2s;
}

.icon-btn:hover {
    background: var(--accent-light);
    border-color: var(--accent);
}

/* Cards */
.card {
    background: var(--bg-card);
    border: 1px solid var(--border-color);
    border-radius: 8px;
    padding: 0;
    margin-bottom: 16px;
    overflow: hidden;
    transition: background-color 0.3s, border-color 0.3s;
}

/* Section Headers (Collapsible) */
.section-header {
    display: flex;
    align-items: center;
    gap: 8px;
    padding: 16px 20px;
    cursor: pointer;
    user-select: none;
    transition: background-color 0.2s;
}

.section-header:hover {
    background: var(--bg-secondary);
}

.collapse-icon {
    font-size: 12px;
    color: var(--text-secondary);
    transition: transform 0.3s;
    width: 16px;
}

.section-header.collapsed .collapse-icon {
    transform: rotate(-90deg);
}

.section-title {
    font-size: 14px;
    font-weight: 600;
    text-transform: uppercase;
    letter-spacing: 0.5px;
    color: var(--text-secondary);
    flex: 1;
    margin: 0;
}

.section-actions {
    display: flex;
    gap: 8px;
}

.section-content {
    padding: 0 20px 20px;
    transition: max-height 0.3s ease, opacity 0.3s ease, padding 0.3s ease;
    overflow: hidden;
}

.section-content.collapsed {
    max-height: 0;
    opacity: 0;
    padding: 0 20px;
}

/* Dropzone */
.dropzone {
    border: 2px dashed var(--accent);
    border-radius: 8px;
    padding: 40px;
    text-align: center;
    cursor: pointer;
    transition: all 0.2s ease;
    background: var(--bg-primary);
    margin: 20px;
}

.dropzone:hover,
.dropzone.dragover {
    background: var(--accent-light);
    border-color: var(--accent-hover);
}

.dropzone-icon {
    font-size: 48px;
    margin-bottom: 12px;
}

.dropzone-text {
    color: var(--text-secondary);
    margin-bottom: 8px;
}

.dropzone-hint {
    font-size: 14px;
    color: var(--text-muted);
}

.hint {
    font-size: 13px;
    color: var(--text-muted);
    margin-top: 8px;
}

.file-info {
    margin: 0 20px 20px;
    padding: 10px 12px;
    background: var(--accent-light);
    border-radius: 4px;
    display: none;
}

.file-info.visible {
    display: block;
}

#fileInput {
    display: none;
}

/* Controls */
.controls {
    display: grid;
    grid-template-columns: repeat(auto-fit, minmax(280px, 1fr));
    gap: 24px;
}

.control-group {
    margin-bottom: 16px;
}

.control-group label {
    display: flex;
    align-items: center;
    gap: 8px;
    margin-bottom: 8px;
    font-weight: 500;
    flex-wrap: wrap;
}

.control-group input[type="checkbox"] {
    width: 18px;
    height: 18px;
    accent-color: var(--accent);
}

.control-row {
    display: flex;
    align-items: center;
    gap: 12px;
    margin-bottom: 12px;
}

.control-row label {
    min-width: 100px;
    margin: 0;
}

.control-row input[type="range"] {
    flex: 1;
}

.slider-container {
    display: flex;
    align-items: center;
    gap: 8px;
    flex-wrap: wrap;
}

.slider-container input[type="range"] {
    flex: 1;
    min-width: 100px;
    height: 6px;
    accent-color: var(--accent);
}

.slider-value {
    min-width: 40px;
    text-align: center;
    font-weight: 500;
    color: var(--accent);
}

/* Preset buttons */
.preset-group {
    display: flex;
    gap: 8px;
    margin-bottom: 16px;
    flex-wrap: wrap;
}

.preset-btn {
    padding: 6px 14px;
    border: 2px solid var(--border-color);
    border-radius: 20px;
    background: var(--bg-primary);
    font-size: 13px;
    font-weight: 500;
    cursor: pointer;
    transition: all 0.2s ease;
    color: var(--text-primary);
}

.preset-btn:hover {
    border-color: var(--accent);
    color: var(--accent);
}

.preset-btn.active {
    background: var(--accent);
    border-color: var(--accent);
    color: white;
}

.preset-management {
    display: flex;
    gap: 12px;
    margin-bottom: 16px;
    flex-wrap: wrap;
}

/* Select dropdowns */
.select-container {
    display: flex;
    align-items: center;
    gap: 8px;
    margin-bottom: 12px;
    flex-wrap: wrap;
}

.select-container label {
    min-width: 80px;
    font-weight: 500;
    margin: 0;
}

.select-container select {
    flex: 1;
    max-width: 200px;
    padding: 8px 12px;
    border: 1px solid var(--border-color);
    border-radius: 6px;
    background: var(--bg-primary);
    color: var(--text-primary);
    font-size: 14px;
    cursor: pointer;
}

.select-container select:focus {
    outline: none;
    border-color: var(--accent);
}

/* Indented sub-options */
.sub-options {
    margin-left: 26px;
    padding-left: 12px;
    border-left: 2px solid var(--border-color);
    margin-top: 8px;
}

.sub-title {
    font-weight: 500;
    margin-bottom: 8px;
    color: var(--text-secondary);
}

.info-text {
    color: var(--text-muted);
    font-size: 13px;
    margin-bottom: 12px;
}

/* Buttons */
.btn {
    padding: 10px 20px;
    border: none;
    border-radius: 6px;
    font-size: 14px;
    font-weight: 500;
    cursor: pointer;
    transition: all 0.2s ease;
}

.btn-primary {
    background: var(--accent);
    color: white;
}

.btn-primary:hover {
    background: var(--accent-hover);
}

.btn-secondary {
    background: var(--border-color);
    color: var(--text-primary);
}

.btn-secondary:hover {
    background: var(--text-muted);
}

.btn:disabled {
    opacity: 0.5;
    cursor: not-allowed;
}

.btn-small {
    padding: 6px 12px;
    border: 1px solid var(--border-color);
    border-radius: 4px;
    background: var(--bg-primary);
    color: var(--text-primary);
    font-size: 12px;
    cursor: pointer;
    transition: all 0.2s;
}

.btn-small:hover {
    background: var(--bg-secondary);
    border-color: var(--accent);
}

.btn-small.btn-primary {
    background: var(--accent);
    color: white;
    border-color: var(--accent);
}

.btn-small.btn-danger {
    color: var(--danger);
    border-color: var(--danger);
}

.btn-small.btn-danger:hover {
    background: var(--danger-light);
}

.btn-reset {
    padding: 8px 16px;
    border: 1px solid var(--border-color);
    border-radius: 6px;
    background: var(--bg-primary);
    color: var(--text-primary);
    font-size: 13px;
    cursor: pointer;
    transition: all 0.2s ease;
}

.btn-reset:hover {
    background: var(--bg-secondary);
}

.button-group {
    display: flex;
    gap: 12px;
    flex-wrap: wrap;
}

/* Graph container */
.graph-container {
    position: relative;
    background: var(--graph-bg);
    border: 1px solid var(--border-color);
    border-radius: 8px;
    overflow: hidden;
}

#graphCanvas {
    display: block;
    width: 100%;
    height: 500px;
}

.graph-placeholder {
    display: flex;
    flex-direction: column;
    align-items: center;
    justify-content: center;
    height: 500px;
    color: var(--text-muted);
}

.graph-placeholder.hidden {
    display: none;
}

.graph-toolbar {
    display: flex;
    gap: 4px;
    align-items: center;
}

.toolbar-checkbox {
    display: flex;
    align-items: center;
    gap: 4px;
    font-size: 12px;
    color: var(--text-secondary);
    margin-left: 8px;
}

.toolbar-checkbox input {
    width: 14px;
    height: 14px;
}

.tooltip {
    position: absolute;
    background: rgba(0, 0, 0, 0.85);
    color: white;
    padding: 8px 12px;
    border-radius: 4px;
    font-size: 13px;
    pointer-events: none;
    display: none;
    z-index: 100;
    white-space: pre-line;
}

.tooltip.visible {
    display: block;
}

.zoom-hint {
    position: absolute;
    bottom: 10px;
    right: 10px;
    font-size: 12px;
    color: var(--text-muted);
    background: var(--bg-primary);
    padding: 4px 8px;
    border-radius: 4px;
    opacity: 0.9;
}

/* File list panel */
.file-list-container {
    max-height: 200px;
    overflow-y: auto;
}

.file-list-item {
    display: flex;
    align-items: center;
    gap: 8px;
    padding: 8px 10px;
    border-radius: 4px;
    margin-bottom: 4px;
    background: var(--bg-primary);
    border: 1px solid var(--border-color);
    cursor: grab;
}

.file-list-item:hover {
    background: var(--bg-secondary);
}

.file-list-item.dragging {
    opacity: 0.5;
}

.file-color-indicator {
    width: 16px;
    height: 16px;
    border-radius: 3px;
    flex-shrink: 0;
    border: 1px solid rgba(0, 0, 0, 0.2);
    cursor: pointer;
}

.file-name {
    flex: 1;
    font-weight: 500;
    white-space: nowrap;
    overflow: hidden;
    text-overflow: ellipsis;
    max-width: 200px;
}

.file-points {
    color: var(--text-muted);
    font-size: 12px;
    flex-shrink: 0;
}

.file-btn {
    padding: 4px 8px;
    border: none;
    background: transparent;
    cursor: pointer;
    font-size: 14px;
    border-radius: 4px;
    transition: background 0.2s;
}

.file-btn:hover {
    background: var(--border-color);
}

.file-remove-btn:hover {
    background: var(--danger-light);
    color: var(--danger);
}

/* Info Tooltips */
.info-tooltip {
    display: inline-flex;
    align-items: center;
    justify-content: center;
    width: 16px;
    height: 16px;
    border-radius: 50%;
    background: var(--border-color);
    color: var(--text-secondary);
    font-size: 10px;
    cursor: help;
    position: static;
}

/* Global tooltip element - positioned via JS */
.tooltip-popup {
    position: fixed;
    background: rgba(0, 0, 0, 0.9);
    color: white;
    padding: 8px 12px;
    border-radius: 6px;
    font-size: 12px;
    font-weight: normal;
    max-width: 280px;
    line-height: 1.4;
    opacity: 0;
    visibility: hidden;
    transition: opacity 0.15s, visibility 0.15s;
    z-index: 10000;
    pointer-events: none;
    box-shadow: 0 4px 12px rgba(0, 0, 0, 0.3);
}

.tooltip-popup.visible {
    opacity: 1;
    visibility: visible;
}

/* Remove old ::after tooltip */
.info-tooltip::after {
    display: none;
}

/* Peak Table */
.peak-settings {
    margin-bottom: 16px;
}

.peak-table-container {
    margin-top: 16px;
    max-height: 300px;
    overflow-y: auto;
}

.peak-table {
    width: 100%;
    border-collapse: collapse;
    font-size: 13px;
}

.peak-table th,
.peak-table td {
    padding: 8px 12px;
    text-align: left;
    border-bottom: 1px solid var(--border-color);
}

.peak-table th {
    background: var(--bg-secondary);
    font-weight: 600;
    position: sticky;
    top: 0;
}

.peak-table tr:hover {
    background: var(--bg-secondary);
}

.peak-actions {
    margin-top: 12px;
    display: flex;
    gap: 8px;
}

.peak-wavelength {
    margin-top: 16px;
    display: flex;
    align-items: center;
    gap: 12px;
    flex-wrap: wrap;
}

.peak-wavelength label {
    font-weight: 500;
}

.peak-wavelength select {
    padding: 6px 10px;
    border: 1px solid var(--border-color);
    border-radius: 4px;
    background: var(--bg-primary);
    color: var(--text-primary);
}

/* Data Table */
.data-table-controls {
    display: flex;
    gap: 12px;
    margin-bottom: 12px;
    flex-wrap: wrap;
}

.data-table-controls select {
    flex: 1;
    max-width: 200px;
    padding: 8px 12px;
    border: 1px solid var(--border-color);
    border-radius: 4px;
    background: var(--bg-primary);
    color: var(--text-primary);
}

.data-table-container {
    max-height: 400px;
    overflow-y: auto;
    border: 1px solid var(--border-color);
    border-radius: 4px;
}

.data-table {
    width: 100%;
    border-collapse: collapse;
    font-size: 13px;
}

.data-table th,
.data-table td {
    padding: 6px 12px;
    text-align: right;
    border-bottom: 1px solid var(--border-color);
}

.data-table th {
    background: var(--bg-secondary);
    font-weight: 600;
    position: sticky;
    top: 0;
    text-align: right;
}

.data-table td:first-child,
.data-table th:first-child {
    text-align: left;
}

.table-pagination {
    display: flex;
    align-items: center;
    justify-content: center;
    gap: 12px;
    margin-top: 12px;
}

.table-pagination select {
    padding: 4px 8px;
    border: 1px solid var(--border-color);
    border-radius: 4px;
    background: var(--bg-primary);
    color: var(--text-primary);
}

/* Removed peaks list */
.removed-peak-item {
    display: flex;
    align-items: center;
    gap: 8px;
    padding: 6px 10px;
    background: var(--bg-secondary);
    border-radius: 4px;
    margin-bottom: 4px;
    font-size: 13px;
}

/* Peak Fitting Section */
.peak-fitting-section,
.williamson-hall-section,
.cod-section {
    border-top: 1px solid var(--border-color);
    padding-top: 12px;
    margin-top: 12px;
}

.fitting-controls {
    display: flex;
    flex-direction: column;
    gap: 8px;
}

.fitting-stats,
.wh-stats {
    display: flex;
    flex-wrap: wrap;
    gap: 16px;
    padding: 12px;
    background: var(--bg-secondary);
    border-radius: 6px;
    margin-bottom: 12px;
    font-size: 14px;
}

.wh-stats {
    flex-direction: column;
    gap: 8px;
}

.fitting-table-container {
    max-height: 200px;
    overflow-y: auto;
    border: 1px solid var(--border-color);
    border-radius: 4px;
}

.fitting-results,
.wh-results {
    margin-top: 12px;
}

#whPlotCanvas {
    background: var(--bg-primary);
    border: 1px solid var(--border-color);
    border-radius: 4px;
}

/* COD Database Section */
.cod-results {
    margin-top: 12px;
}

.cod-result-item {
    display: flex;
    flex-direction: column;
    gap: 4px;
    padding: 10px;
    margin-bottom: 8px;
    background: var(--bg-secondary);
    border: 1px solid var(--border-color);
    border-radius: 6px;
    transition: border-color 0.2s;
}

.cod-result-item:hover {
    border-color: var(--accent);
}

.cod-result-item.selected {
    border-color: var(--accent);
    background: var(--accent-light);
}

.cod-result-header {
    display: flex;
    justify-content: space-between;
    align-items: center;
    gap: 8px;
}

.cod-result-formula {
    font-weight: bold;
    font-size: 14px;
    color: var(--text-primary);
}

.cod-result-score {
    font-size: 12px;
    padding: 2px 8px;
    border-radius: 12px;
    background: var(--success);
    color: white;
}

.cod-result-score.medium {
    background: var(--warning);
    color: #333;
}

.cod-result-score.low {
    background: var(--danger);
}

.cod-result-details {
    font-size: 12px;
    color: var(--text-secondary);
}

.cod-result-details span {
    margin-right: 12px;
}

.cod-result-actions {
    display: flex;
    gap: 8px;
    margin-top: 6px;
}

.cod-result-actions button {
    padding: 4px 10px;
    font-size: 12px;
}

.error-message {
    color: var(--danger);
    padding: 10px;
    background: var(--danger-light);
    border-radius: 4px;
    margin-top: 12px;
    font-size: 13px;
}

.removed-peak-item button {
    padding: 2px 8px;
    font-size: 12px;
}

/* Export options */
.export-options {
    margin-bottom: 16px;
}

.export-options label {
    display: flex;
    align-items: center;
    gap: 8px;
}

/* Loading Overlay */
.loading-overlay {
    display: none;
    position: fixed;
    top: 0;
    left: 0;
    width: 100%;
    height: 100%;
    background: rgba(0, 0, 0, 0.5);
    z-index: 10001;
    align-items: center;
    justify-content: center;
    flex-direction: column;
    gap: 16px;
}

.loading-overlay.visible {
    display: flex;
}

.loading-spinner {
    width: 48px;
    height: 48px;
    border: 4px solid var(--border-color);
    border-top-color: var(--accent);
    border-radius: 50%;
    animation: spin 1s linear infinite;
}

@keyframes spin {
    to {
        transform: rotate(360deg);
    }
}

.loading-text {
    color: white;
    font-size: 16px;
    font-weight: 500;
}

/* Toast notifications */
.toast-container {
    position: fixed;
    top: 20px;
    right: 20px;
    z-index: 10000;
    display: flex;
    flex-direction: column;
    gap: 8px;
}

.toast {
    display: flex;
    align-items: center;
    gap: 10px;
    padding: 12px 16px;
    border-radius: 8px;
    background: var(--bg-card);
    border: 1px solid var(--border-color);
    box-shadow: 0 4px 12px var(--shadow);
    animation: slideIn 0.3s ease;
    min-width: 250px;
}

@keyframes slideIn {
    from {
        transform: translateX(100%);
        opacity: 0;
    }

    to {
        transform: translateX(0);
        opacity: 1;
    }
}

.toast-success {
    border-color: var(--success);
}

.toast-success .toast-icon {
    color: var(--success);
}

.toast-error {
    border-color: var(--danger);
}

.toast-error .toast-icon {
    color: var(--danger);
}

.toast-info .toast-icon {
    color: var(--accent);
}

.toast-icon {
    font-size: 18px;
}

.toast-message {
    flex: 1;
    font-size: 14px;
}

/* Modal */
.modal {
    display: none;
    position: fixed;
    top: 0;
    left: 0;
    width: 100%;
    height: 100%;
    background: rgba(0, 0, 0, 0.5);
    z-index: 9999;
    align-items: center;
    justify-content: center;
}

.modal.visible {
    display: flex;
}

.modal-content {
    background: var(--bg-card);
    border-radius: 12px;
    width: 90%;
    max-width: 400px;
    box-shadow: 0 8px 32px var(--shadow);
}

.modal-header {
    display: flex;
    justify-content: space-between;
    align-items: center;
    padding: 16px 20px;
    border-bottom: 1px solid var(--border-color);
}

.modal-header h3 {
    margin: 0;
    font-size: 18px;
}

.modal-close {
    background: none;
    border: none;
    font-size: 24px;
    cursor: pointer;
    color: var(--text-secondary);
    padding: 0;
    line-height: 1;
}

.modal-close:hover {
    color: var(--text-primary);
}

.modal-body {
    padding: 20px;
}

.modal-body input[type="text"],
.modal-body input[type="number"] {
    width: 100%;
    padding: 10px 12px;
    border: 1px solid var(--border-color);
    border-radius: 6px;
    background: var(--bg-primary);
    color: var(--text-primary);
    font-size: 14px;
    margin-top: 8px;
}

.modal-body input:focus {
    outline: none;
    border-color: var(--accent);
}

.modal-footer {
    display: flex;
    justify-content: flex-end;
    gap: 12px;
    padding: 16px 20px;
    border-top: 1px solid var(--border-color);
}

/* Shortcuts table */
.shortcuts-table {
    width: 100%;
}

.shortcuts-table td {
    padding: 8px 0;
}

.shortcuts-table td:first-child {
    width: 50%;
}

kbd {
    display: inline-block;
    padding: 3px 8px;
    font-size: 12px;
    font-family: monospace;
    background: var(--bg-secondary);
    border: 1px solid var(--border-color);
    border-radius: 4px;
    box-shadow: 0 1px 2px var(--shadow);
}

/* Responsive */
@media (max-width: 768px) {
    body {
        padding: 12px;
    }

    .header {
        flex-direction: column;
        gap: 12px;
        text-align: center;
    }

    .controls {
        grid-template-columns: 1fr;
    }

    .dropzone {
        padding: 24px;
        margin: 12px;
    }

    .section-header {
        padding: 12px 16px;
    }

    .section-content {
        padding: 0 16px 16px;
    }

    .button-group {
        flex-direction: column;
    }

    .button-group .btn {
        width: 100%;
    }
}

/* Scrollbar styling */
::-webkit-scrollbar {
    width: 8px;
    height: 8px;
}

::-webkit-scrollbar-track {
    background: var(--bg-secondary);
    border-radius: 4px;
}

::-webkit-scrollbar-thumb {
    background: var(--border-color);
    border-radius: 4px;
}

::-webkit-scrollbar-thumb:hover {
    background: var(--text-muted);
}

/* Dark mode specific styles */

/* Form inputs */
[data-theme="dark"] input[type="text"],
[data-theme="dark"] input[type="number"],
[data-theme="dark"] input[type="search"],
[data-theme="dark"] textarea {
    background: var(--input-bg);
    color: var(--text-primary);
    border-color: var(--border-color);
}

[data-theme="dark"] input[type="text"]:focus,
[data-theme="dark"] input[type="number"]:focus,
[data-theme="dark"] input[type="search"]:focus,
[data-theme="dark"] textarea:focus {
    border-color: var(--accent);
    outline: none;
    box-shadow: 0 0 0 2px rgba(107, 179, 255, 0.2);
}

[data-theme="dark"] select {
    background: var(--input-bg);
    color: var(--text-primary);
    border-color: var(--border-color);
}

[data-theme="dark"] select:focus {
    border-color: var(--accent);
    outline: none;
}

[data-theme="dark"] select option {
    background: var(--bg-card);
    color: var(--text-primary);
}

/* Range sliders */
[data-theme="dark"] input[type="range"] {
    background: transparent;
}

[data-theme="dark"] input[type="range"]::-webkit-slider-track {
    background: var(--border-color);
    border-radius: 3px;
    height: 6px;
}

[data-theme="dark"] input[type="range"]::-webkit-slider-thumb {
    background: var(--accent);
    border: none;
}

[data-theme="dark"] input[type="range"]::-moz-range-track {
    background: var(--border-color);
    border-radius: 3px;
    height: 6px;
}

[data-theme="dark"] input[type="range"]::-moz-range-thumb {
    background: var(--accent);
    border: none;
}

/* Checkboxes */
[data-theme="dark"] input[type="checkbox"] {
    accent-color: var(--accent);
}

/* Tooltip */
[data-theme="dark"] .tooltip {
    background: var(--bg-card);
    border: 1px solid var(--border-color);
    color: var(--text-primary);
}

/* Info tooltip */
[data-theme="dark"] .info-tooltip {
    background: var(--border-color);
    color: var(--text-secondary);
}

[data-theme="dark"] .info-tooltip:hover {
    background: var(--accent);
    color: var(--bg-primary);
}

[data-theme="dark"] .tooltip-popup {
    background: var(--bg-card);
    border: 1px solid var(--border-color);
    color: var(--text-primary);
    box-shadow: 0 4px 12px var(--shadow);
}

/* Keyboard shortcuts */
[data-theme="dark"] kbd {
    background: var(--bg-secondary);
    border-color: var(--border-color);
    color: var(--text-primary);
    box-shadow: 0 1px 2px var(--shadow);
}

/* Modal */
[data-theme="dark"] .modal {
    background: rgba(0, 0, 0, 0.75);
}

[data-theme="dark"] .modal-content {
    border: 1px solid var(--border-color);
}

/* Placeholder text */
[data-theme="dark"] ::placeholder {
    color: var(--text-muted);
}

/* File color indicator border in dark mode */
[data-theme="dark"] .file-color-indicator {
    border-color: rgba(255, 255, 255, 0.2);
}

/* Tables - ensure proper dark mode styling */
[data-theme="dark"] .peak-table th,
[data-theme="dark"] .data-table th {
    background: var(--bg-secondary);
    color: var(--text-primary);
}

[data-theme="dark"] .peak-table tr:hover,
[data-theme="dark"] .data-table tr:hover {
    background: var(--bg-secondary);
}

/* Buttons */
[data-theme="dark"] .btn-secondary {
    background: var(--border-color);
    color: var(--text-primary);
}

[data-theme="dark"] .btn-secondary:hover {
    background: var(--text-muted);
    color: var(--text-primary);
}

/* Zoom hint */
[data-theme="dark"] .zoom-hint {
    background: var(--bg-card);
    border: 1px solid var(--border-color);
}

/* Removed peak items */
[data-theme="dark"] .removed-peak-item {
    background: var(--bg-secondary);
    border: 1px solid var(--border-color);
}

/* Dropzone enhancement */
[data-theme="dark"] .dropzone {
    border-color: var(--accent);
}

[data-theme="dark"] .dropzone:hover,
[data-theme="dark"] .dropzone.dragover {
    background: var(--accent-light);
    border-color: var(--accent-hover);
}

/* Toast enhancements */
[data-theme="dark"] .toast {
    background: var(--bg-card);
    border: 1px solid var(--border-color);
}

[data-theme="dark"] .toast-success {
    border-left: 3px solid var(--success);
}

[data-theme="dark"] .toast-error {
    border-left: 3px solid var(--danger);
}

[data-theme="dark"] .toast-info {
    border-left: 3px solid var(--accent);
}

/* Data table container */
[data-theme="dark"] .data-table-container {
    border-color: var(--border-color);
}

/* Peak table container */
[data-theme="dark"] .peak-table-container {
    border: 1px solid var(--border-color);
    border-radius: 4px;
}

/* Graph container */
[data-theme="dark"] .graph-container {
    border-color: var(--border-color);
}

/* File list items */
[data-theme="dark"] .file-list-item {
    background: var(--bg-secondary);
    border-color: var(--border-color);
}

[data-theme="dark"] .file-list-item:hover {
    background: var(--bg-card);
}

/* Sub-options border */
[data-theme="dark"] .sub-options {
    border-left-color: var(--border-color);
}

/* Link colors */
[data-theme="dark"] a {
    color: var(--accent);
}

[data-theme="dark"] a:hover {
    color: var(--accent-hover);
}

/* Focus visible styles for keyboard navigation */
:focus-visible {
    outline: 2px solid var(--accent);
    outline-offset: 2px;
}

button:focus-visible,
.btn:focus-visible,
.btn-small:focus-visible,
.icon-btn:focus-visible,
.preset-btn:focus-visible {
    outline: 2px solid var(--accent);
    outline-offset: 2px;
}

.dropzone:focus-visible {
    outline: 3px solid var(--accent);
    outline-offset: 2px;
    border-color: var(--accent-hover);
}

input:focus-visible,
select:focus-visible,
textarea:focus-visible {
    outline: none;
    border-color: var(--accent);
    box-shadow: 0 0 0 3px rgba(10, 102, 194, 0.2);
}

[data-theme="dark"] input:focus-visible,
[data-theme="dark"] select:focus-visible,
[data-theme="dark"] textarea:focus-visible {
    box-shadow: 0 0 0 3px rgba(107, 179, 255, 0.2);
}

/* Theme transition effects */
body,
.card,
.btn,
.btn-small,
.btn-reset,
.icon-btn,
.preset-btn,
input,
select,
textarea,
.modal-content,
.toast,
.dropzone,
.file-list-item,
.removed-peak-item,
.zoom-hint,
.info-tooltip,
.tooltip,
.graph-container,
.data-table-container,
.peak-table-container,
kbd,
a {
    transition: background-color 0.2s ease,
                border-color 0.2s ease,
                color 0.2s ease,
                box-shadow 0.2s ease;
}

/* Respect system preference for first-time visitors */
@media (prefers-color-scheme: dark) {
    html:not([data-theme]) {
        --bg-primary: #121212;
        --bg-secondary: #1e1e1e;
        --bg-card: #252525;
        --text-primary: #f5f5f5;
        --text-secondary: #b0b0b0;
        --text-muted: #808080;
        --border-color: #404040;
        --accent: #6bb3ff;
        --accent-hover: #8ac4ff;
        --accent-light: #1a3a5a;
        --danger: #ff7b7b;
        --danger-light: #3d2020;
        --success: #66bb6a;
        --warning: #ffca28;
        --graph-bg: #1a1a1a;
        --graph-line: #ff7b7b;
        --shadow: rgba(0, 0, 0, 0.5);
        --input-bg: #2a2a2a;
    }
}

/* Print styles */
@media print {

    .header-controls,
    .section-header,
    .dropzone,
    .controls,
    .button-group,
    .toast-container {
        display: none !important;
    }

    .card {
        break-inside: avoid;
        border: 1px solid #ccc;
    }

    .section-content {
        display: block !important;
        max-height: none !important;
        opacity: 1 !important;
    }
}

/* ============================================
   NMR Processing Section Styles
   ============================================ */

.nmr-section {
    margin-top: 16px;
    padding-top: 16px;
    border-top: 1px solid var(--border-color);
}

.integration-list {
    margin-top: 12px;
    max-height: 200px;
    overflow-y: auto;
}

.integration-table {
    width: 100%;
    font-size: 12px;
    border-collapse: collapse;
}

.integration-table th,
.integration-table td {
    padding: 4px 8px;
    text-align: left;
    border-bottom: 1px solid var(--border-color);
}

.integration-table th {
    font-weight: 600;
    background: var(--bg-hover);
}

.btn-tiny {
    padding: 2px 6px;
    font-size: 12px;
    line-height: 1;
    border: none;
    background: var(--danger-color, #dc3545);
    color: white;
    border-radius: 3px;
    cursor: pointer;
}

.btn-tiny:hover {
    background: #c82333;
}

[data-theme="dark"] .btn-tiny {
    background: #e74c3c;
}

[data-theme="dark"] .btn-tiny:hover {
    background: #c0392b;
}

/* NMR Apodization Presets */
.nmr-presets {
    display: flex;
    flex-wrap: wrap;
    gap: 6px;
}

.nmr-presets .preset-btn {
    padding: 4px 10px;
    font-size: 12px;
    border-radius: 4px;
    background: var(--bg-secondary);
    border: 1px solid var(--border-color);
    color: var(--text-primary);
    cursor: pointer;
    transition: all 0.15s ease;
}

.nmr-presets .preset-btn:hover {
    background: var(--accent-light);
    border-color: var(--accent);
}

.nmr-presets .preset-btn.active {
    background: var(--accent);
    color: white;
    border-color: var(--accent);
}

/* NMR Processing Info Display */
.nmr-processing-info {
    margin-top: 12px;
    padding: 8px 12px;
    background: var(--bg-secondary);
    border-radius: 4px;
    font-size: 12px;
    color: var(--text-secondary);
}

.nmr-processing-info strong {
    color: var(--text-primary);
}

/* Slider value display for NMR controls */
.nmr-section .slider-value {
    min-width: 60px;
    text-align: right;
    font-size: 13px;
    color: var(--text-secondary);
}

/* Dark mode for NMR presets */
[data-theme="dark"] .nmr-presets .preset-btn {
    background: var(--bg-secondary);
    border-color: var(--border-color);
    color: var(--text-primary);
}

[data-theme="dark"] .nmr-presets .preset-btn:hover {
    background: var(--accent-light);
    border-color: var(--accent);
}

[data-theme="dark"] .nmr-presets .preset-btn.active {
    background: var(--accent);
    color: var(--bg-primary);
}

/* NMR Sub-controls (indented options under checkboxes) */
.sub-control {
    margin-left: 24px;
    padding-left: 12px;
    border-left: 2px solid var(--border-color);
    margin-top: 4px;
    margin-bottom: 8px;
}

.sub-control .control-row {
    margin-bottom: 6px;
}

.sub-control .control-row:last-child {
    margin-bottom: 0;
}

.sub-control label {
    font-size: 12px;
}

.sub-control select,
.sub-control input[type="number"] {
    font-size: 12px;
    padding: 4px 6px;
}

/* Checkbox label styling for NMR advanced options */
#nmrProcessingContent .control-row label input[type="checkbox"] {
    margin-right: 6px;
}

/* Dark mode sub-control styling */
[data-theme="dark"] .sub-control {
    border-left-color: var(--border-color);
}