/* CSS for Immunoglobulin Locus Browser & V(D)J Recombinator */
@import url('https://fonts.googleapis.com/css2?family=Outfit:wght@300;400;500;600;700&family=JetBrains+Mono:wght@400;700&display=swap');

:root {
  --bg-color: #06070b;
  --bg-panel: rgba(17, 19, 29, 0.75);
  --border-color: rgba(255, 255, 255, 0.08);
  --border-accent: rgba(79, 172, 254, 0.3);
  --text-primary: #f1f3f9;
  --text-secondary: #9aa0b0;
  --text-muted: #5e6475;
  --accent-color: #00f2fe;
  --accent-glow: rgba(0, 242, 254, 0.4);
  
  --base-a: #2ecc71; /* Green */
  --base-t: #e74c3c; /* Red */
  --base-c: #3498db; /* Blue */
  --base-g: #f1c40f; /* Yellow */
}

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

body {
  font-family: 'Outfit', -apple-system, BlinkMacSystemFont, "Segoe UI", Roboto, Helvetica, Arial, sans-serif;
  background-color: var(--bg-color);
  color: var(--text-primary);
  height: 100vh;
  overflow: hidden;
  display: flex;
  flex-direction: column;
}

/* Header styling */
header {
  display: flex;
  justify-content: space-between;
  align-items: center;
  padding: 1rem 1.5rem;
  background: var(--bg-panel);
  border-bottom: 1px solid var(--border-color);
  backdrop-filter: blur(12px);
  z-index: 10;
}

.title-container h1 {
  font-size: 1.5rem;
  font-weight: 700;
  letter-spacing: -0.5px;
  background: linear-gradient(135deg, #00f2fe 0%, #4facfe 100%);
  -webkit-background-clip: text;
  -webkit-text-fill-color: transparent;
}

.title-container p {
  font-size: 0.8rem;
  color: var(--text-secondary);
}

.controls-header {
  display: flex;
  gap: 1rem;
  align-items: center;
}

/* Glassmorphic Buttons & Selects */
.btn {
  background: rgba(255, 255, 255, 0.05);
  border: 1px solid var(--border-color);
  color: var(--text-primary);
  padding: 0.5rem 1rem;
  border-radius: 8px;
  font-family: inherit;
  font-size: 0.9rem;
  font-weight: 500;
  cursor: pointer;
  transition: all 0.2s ease;
  display: flex;
  align-items: center;
  gap: 0.5rem;
}

.btn:hover {
  background: rgba(255, 255, 255, 0.1);
  border-color: rgba(255, 255, 255, 0.2);
  box-shadow: 0 0 10px rgba(255, 255, 255, 0.05);
}

.btn.primary {
  background: linear-gradient(135deg, #4facfe 0%, #00f2fe 100%);
  color: #06070b;
  border: none;
  font-weight: 600;
}

.btn.primary:hover {
  box-shadow: 0 0 15px var(--accent-glow);
  opacity: 0.95;
}

.btn.active {
  background: rgba(0, 242, 254, 0.15);
  border-color: var(--accent-color);
  color: var(--accent-color);
  box-shadow: 0 0 8px rgba(0, 242, 254, 0.2);
}

.toggle-group {
  display: flex;
  background: rgba(255, 255, 255, 0.03);
  border: 1px solid var(--border-color);
  padding: 2px;
  border-radius: 10px;
}

.toggle-group .btn {
  border: none;
  border-radius: 8px;
  padding: 0.4rem 0.8rem;
}

/* Tabs */
.tabs-container {
  display: flex;
  gap: 0.5rem;
}

.tab {
  background: none;
  border: none;
  color: var(--text-secondary);
  padding: 0.5rem 1rem;
  font-size: 0.95rem;
  font-weight: 500;
  cursor: pointer;
  position: relative;
  transition: color 0.2s ease;
}

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

.tab.active {
  color: var(--accent-color);
  font-weight: 600;
}

.tab.active::after {
  content: '';
  position: absolute;
  bottom: -1rem;
  left: 0;
  right: 0;
  height: 2px;
  background: var(--accent-color);
  box-shadow: 0 0 8px var(--accent-glow);
}

/* Layout split */
main {
  flex: 1;
  display: grid;
  grid-template-columns: 1fr 400px;
  height: calc(100vh - 70px);
  overflow: hidden;
}

.left-panel {
  display: flex;
  flex-direction: column;
  border-right: 1px solid var(--border-color);
  position: relative;
  overflow: hidden;
}

.right-panel {
  background: rgba(10, 11, 17, 0.8);
  backdrop-filter: blur(16px);
  display: flex;
  flex-direction: column;
  overflow-y: auto;
  border-left: 1px solid var(--border-color);
}

/* Minimap / Overview map */
.minimap-container {
  height: 60px;
  background: rgba(0, 0, 0, 0.2);
  border-bottom: 1px solid var(--border-color);
  position: relative;
  user-select: none;
}

.minimap-canvas {
  width: 100%;
  height: 100%;
  display: block;
}

.minimap-slider {
  position: absolute;
  top: 0;
  height: 100%;
  background: rgba(0, 242, 254, 0.1);
  border: 1px solid var(--accent-color);
  box-shadow: 0 0 10px rgba(0, 242, 254, 0.15);
  cursor: grab;
  z-index: 5;
}

.minimap-slider:active {
  cursor: grabbing;
}

/* Main Locus Browser Track */
.browser-viewport {
  flex: 1;
  position: relative;
  overflow: hidden;
  background: radial-gradient(circle at center, #0e111a 0%, #06070b 100%);
  cursor: grab;
}

.browser-viewport:active {
  cursor: grabbing;
}

.browser-canvas {
  width: 100%;
  height: 100%;
  display: block;
}

/* Zoom floating controls */
.zoom-controls {
  position: absolute;
  bottom: 1.5rem;
  left: 1.5rem;
  display: flex;
  flex-direction: column;
  gap: 0.5rem;
  background: var(--bg-panel);
  border: 1px solid var(--border-color);
  padding: 0.5rem;
  border-radius: 12px;
  backdrop-filter: blur(12px);
  z-index: 5;
  box-shadow: 0 4px 20px rgba(0,0,0,0.5);
}

.zoom-btn {
  width: 36px;
  height: 36px;
  border-radius: 8px;
  border: 1px solid var(--border-color);
  background: rgba(255, 255, 255, 0.03);
  color: var(--text-primary);
  font-size: 1.2rem;
  font-weight: 600;
  cursor: pointer;
  display: flex;
  align-items: center;
  justify-content: center;
  transition: all 0.2s ease;
}

.zoom-btn:hover {
  background: rgba(255,255,255,0.08);
  border-color: rgba(255,255,255,0.2);
}

.zoom-label {
  font-size: 0.75rem;
  text-align: center;
  color: var(--text-secondary);
  font-family: 'JetBrains Mono', monospace;
  padding: 0.2rem 0;
}

/* Info overlay on track */
.track-info-overlay {
  position: absolute;
  top: 1rem;
  left: 1rem;
  background: var(--bg-panel);
  border: 1px solid var(--border-color);
  padding: 0.75rem 1rem;
  border-radius: 12px;
  backdrop-filter: blur(12px);
  pointer-events: none;
  font-size: 0.85rem;
  z-index: 5;
  display: flex;
  flex-direction: column;
  gap: 0.25rem;
}

.track-info-overlay span {
  font-family: 'JetBrains Mono', monospace;
  color: var(--accent-color);
}

/* Recombination Panel Details */
.panel-section {
  padding: 1.5rem;
  border-bottom: 1px solid var(--border-color);
}

.panel-section h2 {
  font-size: 1.1rem;
  font-weight: 600;
  margin-bottom: 1rem;
  color: var(--text-primary);
  display: flex;
  align-items: center;
  justify-content: space-between;
}

/* Segment Search / Selection lists */
.segment-list {
  display: flex;
  flex-direction: column;
  gap: 0.5rem;
  max-height: 220px;
  overflow-y: auto;
  padding-right: 0.25rem;
}

.segment-item {
  display: flex;
  justify-content: space-between;
  align-items: center;
  padding: 0.6rem 0.8rem;
  background: rgba(255, 255, 255, 0.02);
  border: 1px solid var(--border-color);
  border-radius: 8px;
  cursor: pointer;
  transition: all 0.2s ease;
}

.segment-item:hover {
  background: rgba(255, 255, 255, 0.06);
  border-color: rgba(255, 255, 255, 0.15);
}

.segment-item.selected {
  border-color: var(--accent-color);
  background: rgba(0, 242, 254, 0.05);
}

.segment-badge {
  padding: 0.2rem 0.4rem;
  font-size: 0.7rem;
  font-weight: 700;
  border-radius: 4px;
  text-transform: uppercase;
}

.segment-badge.v { background: rgba(255, 107, 107, 0.2); color: #ff6b6b; }
.segment-badge.d { background: rgba(241, 196, 15, 0.2); color: #f1c40f; }
.segment-badge.j { background: rgba(238, 82, 83, 0.2); color: #ee5253; }
.segment-badge.c { background: rgba(84, 160, 255, 0.2); color: #54a0ff; }

/* Recombinator Wizard */
.wizard-steps {
  display: flex;
  justify-content: space-between;
  margin-bottom: 1.5rem;
  position: relative;
  padding: 0 0.5rem;
}

.wizard-steps::before {
  content: '';
  position: absolute;
  top: 15px;
  left: 1.5rem;
  right: 1.5rem;
  height: 2px;
  background: var(--border-color);
  z-index: 1;
}

.step-indicator {
  width: 32px;
  height: 32px;
  border-radius: 50%;
  background: #12131c;
  border: 2px solid var(--border-color);
  display: flex;
  align-items: center;
  justify-content: center;
  font-size: 0.85rem;
  font-weight: 600;
  z-index: 2;
  color: var(--text-secondary);
  transition: all 0.3s ease;
}

.step-indicator.active {
  border-color: var(--accent-color);
  background: var(--bg-color);
  color: var(--accent-color);
  box-shadow: 0 0 10px var(--accent-glow);
}

.step-indicator.complete {
  border-color: #2ecc71;
  background: #2ecc71;
  color: #06070b;
}

.wizard-content {
  background: rgba(255,255,255,0.02);
  border: 1px solid var(--border-color);
  border-radius: 12px;
  padding: 1.25rem;
  margin-bottom: 1.5rem;
  min-height: 200px;
}

.wizard-actions {
  display: flex;
  justify-content: space-between;
  gap: 1rem;
}

/* Custom biological graphics in recombinator */
.biological-alignment {
  display: flex;
  flex-direction: column;
  gap: 1rem;
  margin: 1rem 0;
  padding: 1rem;
  background: rgba(0,0,0,0.3);
  border-radius: 8px;
  border: 1px solid var(--border-color);
  font-family: 'JetBrains Mono', monospace;
  font-size: 0.8rem;
  overflow-x: auto;
}

.alignment-row {
  display: flex;
  align-items: center;
  white-space: nowrap;
}

.row-label {
  width: 60px;
  color: var(--text-muted);
  font-size: 0.75rem;
}

.row-seq {
  color: var(--text-primary);
  letter-spacing: 1px;
}

.row-seq span.highlight {
  color: var(--accent-color);
  font-weight: 700;
}

.row-seq span.p-add {
  color: #e84393;
  font-weight: 700;
  border-bottom: 1px dashed #e84393;
}

.row-seq span.n-add {
  color: #fdcb6e;
  font-weight: 700;
  border-bottom: 1px dashed #fdcb6e;
}

/* RSS visualization */
.rss-box {
  border: 1px solid var(--text-muted);
  border-radius: 4px;
  padding: 1px 4px;
  font-size: 0.65rem;
  margin: 0 4px;
  text-transform: uppercase;
  display: inline-block;
}
.rss-12 { background: rgba(230, 126, 34, 0.2); border-color: #e67e22; color: #e67e22; }
.rss-23 { background: rgba(155, 89, 182, 0.2); border-color: #9b59b6; color: #9b59b6; }

/* Interactive slider for N-additions */
.control-slider-group {
  margin: 1.5rem 0;
}
.control-slider-group label {
  display: flex;
  justify-content: space-between;
  font-size: 0.85rem;
  margin-bottom: 0.5rem;
  color: var(--text-secondary);
}
.control-slider-group label span {
  font-family: 'JetBrains Mono', monospace;
  color: var(--accent-color);
}
.range-input {
  width: 100%;
  background: var(--border-color);
  height: 6px;
  border-radius: 3px;
  outline: none;
  appearance: none;
}
.range-input::-webkit-slider-thumb {
  appearance: none;
  width: 18px;
  height: 18px;
  border-radius: 50%;
  background: var(--accent-color);
  cursor: pointer;
  box-shadow: 0 0 8px var(--accent-glow);
  transition: transform 0.1s ease;
}
.range-input::-webkit-slider-thumb:hover {
  transform: scale(1.2);
}

/* Sequence text formatting */
.sequence-block {
  font-family: 'JetBrains Mono', monospace;
  font-size: 0.85rem;
  background: rgba(0, 0, 0, 0.4);
  padding: 1rem;
  border-radius: 8px;
  border: 1px solid var(--border-color);
  word-break: break-all;
  line-height: 1.5;
  max-height: 180px;
  overflow-y: auto;
}

/* Results panel */
.recombination-success {
  background: rgba(46, 204, 113, 0.05);
  border: 1px solid rgba(46, 204, 113, 0.3);
  border-radius: 12px;
  padding: 1.25rem;
  margin-bottom: 1rem;
}
.recombination-success h3 {
  color: #2ecc71;
  font-size: 1rem;
  margin-bottom: 0.5rem;
  display: flex;
  align-items: center;
  gap: 0.5rem;
}
.recombination-success p {
  font-size: 0.85rem;
  color: var(--text-secondary);
  line-height: 1.4;
}

.recombination-fail {
  background: rgba(231, 76, 60, 0.05);
  border: 1px solid rgba(231, 76, 60, 0.3);
  border-radius: 12px;
  padding: 1.25rem;
  margin-bottom: 1rem;
}
.recombination-fail h3 {
  color: #e74c3c;
  font-size: 1rem;
  margin-bottom: 0.5rem;
  display: flex;
  align-items: center;
  gap: 0.5rem;
}
.recombination-fail p {
  font-size: 0.85rem;
  color: var(--text-secondary);
  line-height: 1.4;
}

/* Custom scrollbars */
::-webkit-scrollbar {
  width: 6px;
  height: 6px;
}
::-webkit-scrollbar-track {
  background: transparent;
}
::-webkit-scrollbar-thumb {
  background: var(--border-color);
  border-radius: 3px;
}
::-webkit-scrollbar-thumb:hover {
  background: var(--text-muted);
}

/* Tooltip definitions */
.tooltip-icon {
  display: inline-flex;
  align-items: center;
  justify-content: center;
  width: 16px;
  height: 16px;
  border-radius: 50%;
  background: rgba(255,255,255,0.08);
  font-size: 0.65rem;
  color: var(--text-secondary);
  cursor: help;
  position: relative;
}

.tooltip-icon:hover::after {
  content: attr(data-tooltip);
  position: absolute;
  bottom: 125%;
  right: 50%;
  transform: translateX(50%);
  background: #181a26;
  border: 1px solid var(--border-color);
  padding: 0.5rem 0.75rem;
  border-radius: 8px;
  font-family: 'Outfit', sans-serif;
  font-size: 0.75rem;
  color: var(--text-primary);
  width: 200px;
  white-space: normal;
  box-shadow: 0 4px 15px rgba(0,0,0,0.5);
  z-index: 100;
  pointer-events: none;
}

/* Selected Info Inspector Box */
.inspector-card {
  background: rgba(255, 255, 255, 0.02);
  border: 1px solid var(--border-color);
  border-radius: 12px;
  padding: 1rem;
  margin-top: 1rem;
}
.inspector-title {
  font-size: 0.9rem;
  font-weight: 600;
  color: var(--accent-color);
  margin-bottom: 0.5rem;
  display: flex;
  align-items: center;
  justify-content: space-between;
}
.inspector-grid {
  display: grid;
  grid-template-columns: 1fr 1fr;
  gap: 0.5rem;
  font-size: 0.8rem;
  color: var(--text-secondary);
}
.inspector-grid span {
  font-family: 'JetBrains Mono', monospace;
  color: var(--text-primary);
}

/* Animations */
@keyframes pulseGlow {
  0% { box-shadow: 0 0 5px rgba(0, 242, 254, 0.2); }
  50% { box-shadow: 0 0 15px rgba(0, 242, 254, 0.4); }
  100% { box-shadow: 0 0 5px rgba(0, 242, 254, 0.2); }
}

.recombination-pulse {
  animation: pulseGlow 2s infinite;
}