:root {
    --bg-dark: #f8f9fa;
    --bg-panel: #ffffff;
    --text-primary: #1f2937;
    --text-secondary: #6b7280;
    --accent-color: #3b82f6;
    --accent-hover: #2563eb;
    --border-color: #e5e7eb;
    --success-color: #10b981;
    --error-color: #ef4444;
    --font-family: 'Inter', sans-serif;
}

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

body {
    font-family: var(--font-family);
    background-color: var(--bg-dark);
    color: var(--text-primary);
    height: 100vh;
    overflow: hidden;
}

.app-container {
    display: flex;
    height: 100vh;
}

/* Sidebar */
.sidebar {
    width: 350px;
    background-color: var(--bg-panel);
    border-right: 1px solid var(--border-color);
    padding: 20px;
    display: flex;
    flex-direction: column;
    gap: 20px;
    overflow-y: auto;
}

.header h1 {
    font-size: 1.5rem;
    font-weight: 700;
    background: linear-gradient(45deg, var(--accent-color), #8b5cf6);
    -webkit-background-clip: text;
    background-clip: text;
    -webkit-text-fill-color: transparent;
}

.title-row {
    display: flex;
    align-items: center;
    justify-content: space-between;
}

.sm-btn {
    background-color: transparent;
    border: 1px solid var(--accent-color);
    color: var(--accent-color);
    padding: 6px 12px;
    font-size: 0.75rem;
    border-radius: 4px;
}

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

.header p {
    color: var(--text-secondary);
    font-size: 0.85rem;
    margin-top: 5px;
}

/* Form */
#annotation-form {
    display: flex;
    flex-direction: column;
    gap: 15px;
    flex: 1;
}

.form-group {
    display: flex;
    flex-direction: column;
    gap: 6px;
}

.form-group.full-height {
    flex: 1;
    display: flex;
    flex-direction: column;
}

label {
    font-size: 0.85rem;
    font-weight: 500;
    color: var(--text-secondary);
}

input,
textarea {
    background-color: var(--bg-dark);
    border: 1px solid var(--border-color);
    border-radius: 6px;
    padding: 10px;
    color: var(--text-primary);
    font-family: inherit;
    font-size: 0.9rem;
    transition: border-color 0.2s;
}

input:focus,
textarea:focus {
    outline: none;
    border-color: var(--accent-color);
}

textarea {
    flex: 1;
    resize: none;
    min-height: 200px;
    font-family: monospace;
    font-size: 0.8rem;
}

small {
    font-size: 0.75rem;
    color: var(--text-secondary);
    opacity: 0.8;
}

button {
    background-color: var(--accent-color);
    color: white;
    border: none;
    border-radius: 6px;
    padding: 12px;
    font-weight: 600;
    cursor: pointer;
    transition: background-color 0.2s, transform 0.1s;
}

button:hover {
    background-color: var(--accent-hover);
}

button:active {
    transform: translateY(1px);
}

/* Main Content */
.content {
    flex: 1;
    background-color: var(--bg-dark);
    display: flex;
    flex-direction: column;
    position: relative;
    padding: 20px;
}

#plot-container {
    flex: 1;
    background-color: var(--bg-panel);
    border-radius: 12px;
    border: 1px solid var(--border-color);
    overflow: hidden;
    position: relative;
}

.placeholder-msg {
    position: absolute;
    top: 50%;
    left: 50%;
    transform: translate(-50%, -50%);
    color: var(--text-secondary);
    text-align: center;
}

/* Stats */
#stats-panel {
    display: flex;
    gap: 20px;
    margin-top: 20px;
    height: 80px;
}

.stat-card {
    background-color: var(--bg-panel);
    border: 1px solid var(--border-color);
    border-radius: 8px;
    padding: 15px 25px;
    display: flex;
    flex-direction: column;
    justify-content: center;
}

.stat-card h3 {
    font-size: 0.85rem;
    color: var(--text-secondary);
    font-weight: 500;
    margin-bottom: 5px;
}

.stat-card span {
    font-size: 1.5rem;
    font-weight: 700;
    color: var(--text-primary);
}

.hidden {
    display: none !important;
}

/* Status */
.status {
    font-size: 0.8rem;
    color: var(--text-secondary);
    text-align: center;
    padding-top: 10px;
    border-top: 1px solid var(--border-color);
}

::-webkit-scrollbar {
    width: 8px;
    height: 8px;
}

::-webkit-scrollbar-track {
    background: transparent;
}

::-webkit-scrollbar-thumb {
    background: #333;
    border-radius: 4px;
}

::-webkit-scrollbar-thumb:hover {
    background: #444;
}

/* File Upload & List Styles */
.file-upload-section {
    display: flex;
    flex-direction: column;
    gap: 15px;
    padding-bottom: 20px;
    border-bottom: 1px solid var(--border-color);
}

.list-section {
    flex: 1;
    display: flex;
    flex-direction: column;
    overflow: hidden;
    /* For scrolling list */
    margin-top: 20px;
}

.list-section h3 {
    font-size: 14px;
    color: var(--text-secondary);
    margin-bottom: 10px;
}

/* ag-Grid Customization */
.ag-theme-alpine-dark {
    --ag-background-color: var(--bg-card);
    --ag-header-background-color: var(--bg-panel);
    --ag-odd-row-background-color: var(--bg-card);
    --ag-row-hover-color: var(--accent-hover);
    --ag-selected-row-background-color: var(--primary-light);
    --ag-foreground-color: var(--text-primary);
    --ag-header-foreground-color: var(--text-secondary);
    --ag-border-color: var(--border-color);
}



/* Handsontable overrides for dark/light theme consistency */




.peptide-item .seq {
    font-weight: 600;
    font-family: monospace;
    display: block;
}

.peptide-item .meta {
    font-size: 12px;
    opacity: 0.8;
}

.placeholder-text {
    color: var(--text-tertiary);
    font-size: 13px;
    text-align: center;
    margin-top: 20px;
}