/* ═══════════════════════════════════════════════════════════════
   styles.css — Project-specific overrides for biosim.
   Shared patterns (glass, tool-btn, layout tokens) in /shared-base.css.
   All colors via CSS vars injected by colors.js — no hardcoded values.
   ═══════════════════════════════════════════════════════════════ */

/* ───── Design Tokens ───── */
:root {
  --tog-shadow:       inset 0 1px 2px var(--tog-inset);
}


/* ───── Keyframes ───── */
@keyframes pulse-dot {
  0%, 100% { opacity: 0.4; transform: scale(1); }
  50%      { opacity: 1; transform: scale(1.6); }
}


/* ───── Reference Overlay — above all other layers ───── */
#reference-overlay { z-index: 9999; }

/* ───── Base — full-viewport app shell ───── */
html {
  font-size: clamp(14px, 1.5vw, 16px);
  -webkit-text-size-adjust: 100%;
  text-size-adjust: 100%;
  overflow: hidden;
}

body {
  height: 100vh;
  height: 100dvh;  /* iOS Safari dynamic viewport height */
  overflow: hidden;
  display: flex;
  flex-direction: column;
}


/* ═══════════════════════════════════════
   THEME TOGGLE ICONS
   ═══════════════════════════════════════ */
#theme-btn .icon-auto,
#theme-btn .icon-sun,
#theme-btn .icon-moon { display: none; }

#theme-btn[data-theme="auto"] .icon-auto { display: block; }
#theme-btn[data-theme="light"] .icon-sun { display: block; }
#theme-btn[data-theme="dark"] .icon-moon { display: block; }




/* ═══════════════════════════════════════
   MAIN LAYOUT
   ═══════════════════════════════════════ */
main {
  flex: 1;
  min-height: 0;
  position: relative;
  z-index: 1;
}


/* ═══════════════════════════════════════
   CANVAS CONTAINER
   ═══════════════════════════════════════ */
#sim-container {
  width: 100%;
  height: 100%;
  overflow: hidden;
  background: var(--bg-scrim);
  position: relative;
  cursor: grab;
  touch-action: none;
  transition: background 0.3s var(--ease-out);
}

#sim-container:active { cursor: grabbing; }

#sim-canvas {
  display: block;
  image-rendering: -webkit-optimize-contrast;
  image-rendering: crisp-edges;
  touch-action: none;
}


/* ═══════════════════════════════════════
   FLOATING SUBSTRATE BAR
   ═══════════════════════════════════════ */
.substrate-pill-group {
  display: flex;
  align-items: center;
}

.substrate-pill {
  display: flex;
  align-items: center;
  gap: 0.35rem;
  padding: 0.35rem 0.7rem;
  border: none;
  background: transparent;
  font-family: var(--font-body);
  font-weight: 600;
  font-size: clamp(0.72rem, 1vw, 0.82rem);
  cursor: pointer;
  transition: color 0.2s, background 0.2s;
  white-space: nowrap;
  outline: none;
  -webkit-appearance: none;
}

.substrate-pill-left  { border-radius: var(--radius-pill) 0 0 var(--radius-pill); color: var(--pw-calvin); }
.substrate-pill-right { border-radius: 0 var(--radius-pill) var(--radius-pill) 0; color: var(--pw-betaox); }

.substrate-pill:hover { background: color-mix(in srgb, currentColor 10%, transparent); }
.substrate-pill:active { transform: scale(0.96); }

.substrate-pill svg {
  width: 13px;
  height: 13px;
  flex-shrink: 0;
}

.substrate-divider {
  width: 1px;
  height: 20px;
  background: var(--border);
  flex-shrink: 0;
}


/* ═══════════════════════════════════════
   PULSE DOT
   ═══════════════════════════════════════ */
.pulse-dot {
  display: inline-block;
  width: 6px;
  height: 6px;
  border-radius: 50%;
  background: var(--accent);
  animation: pulse-dot 2.5s ease-in-out infinite;
  flex-shrink: 0;
  vertical-align: middle;
  margin-right: 0.35rem;
}


/* ═══════════════════════════════════════
   ACTIVE STEP
   ═══════════════════════════════════════ */
.active-step-body {
  min-height: 2.8rem;
}

.step-enzyme {
  font-family: var(--font-mono);
  font-weight: 700;
  font-size: clamp(0.82rem, 1.2vw, 0.92rem);
  color: var(--pw-ppp);
  line-height: 1.3;
}

.step-reaction {
  font-size: clamp(0.68rem, 1vw, 0.76rem);
  color: var(--text-secondary);
  line-height: 1.4;
  margin-top: 0.1rem;
}

.step-yield {
  font-family: var(--font-mono);
  font-size: clamp(0.64rem, 0.95vw, 0.72rem);
  color: var(--accent);
  margin-top: 0.08rem;
}

.turn-counters {
  display: flex;
  flex-wrap: wrap;
  gap: 0.5rem;
  margin-top: 0.45rem;
  padding-top: 0.4rem;
  border-top: 1px solid var(--border);
}

.counter {
  display: flex;
  align-items: baseline;
  gap: 0.25rem;
}

.counter-lbl {
  font-family: var(--font-mono);
  font-size: clamp(0.56rem, 0.85vw, 0.62rem);
  color: var(--text-muted);
  text-transform: uppercase;
  letter-spacing: 0.04em;
}

.counter-val {
  font-family: var(--font-mono);
  font-weight: 700;
  font-size: clamp(0.72rem, 1.05vw, 0.82rem);
}

.cv-krebs { color: var(--pw-krebs); }
.cv-calvin { color: var(--pw-calvin); }
.cv-glyc { color: var(--pw-glyc); }
.cv-ppp { color: var(--pw-ppp); }
.cv-betaox { color: var(--pw-betaox); }


/* ═══════════════════════════════════════
   METABOLITE GAUGES
   ═══════════════════════════════════════ */
.metab-grid {
  display: grid;
  grid-template-columns: 1fr 1fr;
  gap: 0.35rem;
}

.metab-card {
  background: var(--metab-card-bg);
  border-radius: var(--radius-md);
  padding: 0.4rem 0.5rem;
  transition: background 0.28s ease;
}

.metab-head {
  display: flex;
  justify-content: space-between;
  align-items: baseline;
  margin-bottom: 0.25rem;
}

.metab-name {
  font-family: var(--font-mono);
  font-size: clamp(0.52rem, 0.8vw, 0.58rem);
  font-weight: 500;
  color: var(--text-muted);
  text-transform: uppercase;
  letter-spacing: 0.04em;
}

.metab-pct {
  font-family: var(--font-mono);
  font-weight: 700;
  font-size: clamp(0.82rem, 1.2vw, 0.95rem);
  transition: transform 0.2s var(--ease-spring);
  display: inline-block;
}

.metab-track {
  width: 100%;
  height: 4px;
  background: var(--bg-track);
  border-radius: 2px;
  overflow: hidden;
  box-shadow: var(--track-shadow);
}

.metab-fill {
  height: 100%;
  width: 0%;
  border-radius: 2px;
  transition: width 0.4s cubic-bezier(0.25, 0.46, 0.45, 0.94);
}

/* Per-card --mc-color assignments; one generic rule styles all variants */
.mc-atp   { --mc-color: var(--co-atp); }
.mc-nadh  { --mc-color: var(--co-nadh); }
.mc-nadph { --mc-color: var(--co-nadph); }
.mc-fadh2 { --mc-color: var(--co-fadh2); }

.metab-card[class*="mc-"] {
  background: color-mix(in srgb, var(--mc-color) 8%, transparent);
}
.metab-card[class*="mc-"]:hover { box-shadow: 0 0 16px color-mix(in srgb, var(--mc-color) 6%, transparent); }
.metab-card[class*="mc-"] .metab-pct { color: var(--mc-color); }
.metab-card[class*="mc-"] .metab-fill {
  background: linear-gradient(90deg, color-mix(in srgb, var(--mc-color), black 20%), var(--mc-color));
  box-shadow: 0 0 6px color-mix(in srgb, var(--mc-color) 35%, transparent);
}


#atp-source-bar {
  display: flex;
  height: 6px;
  border-radius: 3px;
  overflow: hidden;
  width: 100%;
}

#atp-source-sub {
  background: var(--pw-glyc);
  height: 100%;
  transition: width 0.3s;
}

#atp-source-ox {
  background: var(--pw-krebs);
  height: 100%;
  transition: width 0.3s;
}


/* ═══════════════════════════════════════
   TOGGLE SWITCHES — --tog-color per pathway
   Generic toggle mechanics in shared-base.css
   ═══════════════════════════════════════ */
.tog-light  { --tog-color: var(--co-atp); }
.tog-o2     { --tog-color: var(--co-nadh); }
.tog-glyc   { --tog-color: var(--pw-glyc); }
.tog-ppp    { --tog-color: var(--pw-ppp); }
.tog-calvin { --tog-color: var(--pw-calvin); }
.tog-krebs  { --tog-color: var(--pw-krebs); }
.tog-betaox { --tog-color: var(--pw-betaox); }
.tog-uncoupling { --tog-color: var(--pw-ros); }
.tog-auto       { --tog-color: var(--text); }

/* Sunlight toggle gets extra glow to reinforce "light is on" */
.tog-wrap input:checked + .tog-light {
  box-shadow: 0 0 12px color-mix(in srgb, var(--tog-color) 30%, transparent);
}


/* ═══════════════════════════════════════
   STATS — scale-bounce animation on value change
   ═══════════════════════════════════════ */
.stat-value {
  transition: transform 0.15s var(--ease-spring);
}

.stat-value.bump, .metab-pct.bump { transform: scale(1.25); }


/* ═══════════════════════════════════════
   REFERENCE: EQUATIONS
   ═══════════════════════════════════════ */
.ref-group {
  margin-bottom: 0.6rem;
}

.ref-group:last-child { margin-bottom: 0; }

.equation {
  padding: 4px 0;
  border-bottom: 1px solid var(--border);
}

.equation:last-child { border-bottom: none; }

.eq-dot {
  display: inline-block;
  width: 5px;
  height: 5px;
  border-radius: 50%;
  background: currentColor;
  margin-right: 0.4em;
  vertical-align: middle;
  opacity: 0.65;
}

.eq-name {
  display: inline;
  font-family: var(--font-body);
  font-weight: 600;
  font-size: 0.72rem;
}

.eq-formula {
  display: block;
  font-family: var(--font-mono);
  font-size: 0.62rem;
  color: var(--text-muted);
  line-height: 1.4;
  padding-left: calc(5px + 0.4em);
  margin-top: 2px;
}

/* --eq-color per pathway; one generic rule colors .eq-name + .eq-dot */
.eq-glycolysis { --eq-color: var(--pw-glyc); }
.eq-calvin     { --eq-color: var(--pw-calvin); }
.eq-krebs      { --eq-color: var(--pw-krebs); }
.eq-ppp        { --eq-color: var(--pw-ppp); }
.eq-oxphos     { --eq-color: var(--pw-krebs); }
.eq-light      { --eq-color: var(--pw-calvin); }
.eq-cyclic     { --eq-color: var(--pw-cyclic); }
.eq-ferment    { --eq-color: var(--pw-ferment); }
.eq-betaox     { --eq-color: var(--pw-betaox); }
.equation[class*="eq-"] .eq-name,
.equation[class*="eq-"] .eq-dot { color: var(--eq-color); }


/* ═══════════════════════════════════════
   REFERENCE: LEGEND
   ═══════════════════════════════════════ */
.legend-grid {
  display: flex;
  flex-direction: column;
  gap: 0.12rem;
}

.legend-sub {
  font-family: var(--font-body);
  font-size: clamp(0.46rem, 0.7vw, 0.52rem);
  font-weight: 600;
  text-transform: uppercase;
  letter-spacing: 0.1em;
  color: var(--text-muted);
  margin-top: 0.25rem;
  opacity: 0.6;
}

.legend-sub:first-child { margin-top: 0; }

.legend-item {
  display: flex;
  align-items: center;
  gap: 0.35rem;
  font-size: clamp(0.58rem, 0.88vw, 0.66rem);
  color: var(--text-secondary);
}

.legend-dot {
  width: 7px;
  height: 7px;
  border-radius: 50%;
  flex-shrink: 0;
}

.legend-dot.respiratory    { --dot-color: var(--pw-krebs); }
.legend-dot.photosynthetic { --dot-color: var(--pw-calvin); }
.legend-dot.shared         { --dot-color: var(--pw-glyc); }
.legend-dot.ppp-dot        { --dot-color: var(--pw-ppp); }
.legend-dot.cyclic-dot     { --dot-color: var(--pw-cyclic); }
.legend-dot.ferment-dot    { --dot-color: var(--pw-ferment); }
.legend-dot.betaox-dot     { --dot-color: var(--pw-betaox); }
.legend-dot.electron       { --dot-color: var(--pw-electron); }
.legend-dot.proton         { --dot-color: var(--pw-proton); }
.legend-dot.photon         { --dot-color: var(--pw-photon); }

.legend-dot[class] { background: var(--dot-color); }
.legend-dot.electron,
.legend-dot.proton,
.legend-dot.photon { box-shadow: 0 0 5px color-mix(in srgb, var(--dot-color) 50%, transparent); }


/* ═══════════════════════════════════════
   DARK MODE — deeper toggle shadow + adjusted card/toggle opacity
   ═══════════════════════════════════════ */
[data-theme="dark"] {
  --tog-shadow:       inset 0 1px 3px var(--tog-inset);
}

/* Sunlight toggle glow more prominent in dark mode */
[data-theme="dark"] .tog-wrap input:checked + .tog-light {
  border-color: color-mix(in srgb, var(--tog-color) 35%, transparent);
  box-shadow: 0 0 14px color-mix(in srgb, var(--tog-color) 12%, transparent), inset 0 1px 2px var(--tog-checked-inset);
}
[data-theme="dark"] .tog-wrap input:checked + .tog-light .tog-thumb {
  box-shadow: 0 0 14px color-mix(in srgb, var(--tog-color) 65%, transparent), 0 0 4px var(--tog-color);
}

[data-theme="dark"] .metab-card[class*="mc-"] { background: color-mix(in srgb, var(--mc-color) 5%, transparent); }


/* ═══════════════════════════════════════
   RESPONSIVE — Tablet (≤ 900px)
   Canvas fills viewport; dashboard becomes bottom sheet
   ═══════════════════════════════════════ */
@media (max-width: 900px) {
  body {
    overflow: hidden;
  }

  /* #top-bar positioning handled by shared-base.css (.sim-toolbar) */

  main {
    position: fixed;
    inset: 0;
    height: 100%;
  }

  #sim-container {
    position: fixed;
    inset: 0;
    width: 100%;
    height: 100%;
  }

  /* Bottom sheet: slides up from bottom */
  #dashboard {
    position: fixed;
    top: auto;
    right: 0;
    bottom: 0;
    left: 0;
    width: 100%;
    max-height: 55vh;
    border-radius: var(--radius-lg) var(--radius-lg) 0 0;
    transform: translateY(100%);
    z-index: 95;
    overflow: hidden;
  }

  #dashboard.open {
    transform: translateY(0);
  }

  #glucose-bar {
    bottom: 6px;
    gap: 3px;
    padding: 4px 6px;
  }

}


/* ═══════════════════════════════════════
   RESPONSIVE — Phone (≤ 600px)
   ═══════════════════════════════════════ */
@media (max-width: 600px) {
  #top-bar {
    gap: 0.4rem;
  }

  /* .tool-btn sizing handled by shared-base.css (32x32 at 600px) */

  .tab-panel {
    padding: 0.5rem 0.65rem;
  }

  .metab-grid {
    grid-template-columns: 1fr 1fr;
    gap: 0.25rem;
  }

  .metab-card {
    padding: 0.3rem 0.4rem;
  }

  .turn-counters {
    gap: 0.35rem;
  }
}


/* ═══════════════════════════════════════
   ACCESSIBILITY — coarse pointer touch targets
   ═══════════════════════════════════════ */
@media (pointer: coarse) {
  .ctrl-row {
    padding: 0.4rem 0;
  }

  .tab-btn {
    padding: 0.65rem 0.4rem 0.55rem;
  }
}


.organism-desc { font-size: 0.75rem; color: var(--text-muted); margin: 4px 0 0; }


/* ───── Canvas Tooltip — uses shared-tooltip.js (sim-tooltip) with biosim overrides ───── */
.sim-tooltip.canvas-tip {
  white-space: normal;
  max-width: 280px;
  font: 0.75rem/1.45 var(--font-body);
}
.sim-tooltip.canvas-tip strong {
  font-size: 0.8rem;
  color: var(--text);
}
.sim-tooltip.canvas-tip .ct-full {
  font-size: 0.7rem;
  color: var(--text-secondary);
}
.sim-tooltip.canvas-tip .ct-eq {
  font: 0.72rem var(--font-mono);
  color: var(--accent);
}
.sim-tooltip.canvas-tip em {
  font-size: 0.7rem;
  color: var(--text-muted);
}


/* ═══════════════════════════════════════
   SPARKLINE TIME SERIES
   ═══════════════════════════════════════ */
.sparkline { display: block; width: 100%; height: 36px; margin-top: 4px; border-radius: 4px; background: transparent; }