:root {
  --bg: #f5f6f4;
  --surface: #ffffff;
  --surface-2: #f0f2ef;
  --border: #dde1dc;
  --text: #1c2321;
  --muted: #5f6b67;
  --faint: #8c9692;
  --accent: #0f7c6e;
  --accent-soft: #d9efe9;
  --accent-ink: #ffffff;
  --tier-preferred: #1d7f4e;
  --tier-caution: #a86a00;
  --tier-later: #4a6bb0;
  --tier-exclude: #b23b3b;
  --inv-core: #0f7c6e;
  --inv-used: #8fd0c2;
  --inv-mentioned: #ffffff;
  --inv-none: #eef0ed;
  --inv-unknown: #e4e1d8;
  --shadow: 0 1px 2px rgba(20, 30, 25, .06), 0 2px 8px rgba(20, 30, 25, .05);
  --radius: 10px;
  --mono: ui-monospace, SFMono-Regular, Menlo, Consolas, monospace;
  color-scheme: light;
}

@media (prefers-color-scheme: dark) {
  :root:not([data-theme="light"]) {
    --bg: #111615;
    --surface: #182020;
    --surface-2: #1f2928;
    --border: #2c3836;
    --text: #e4ebe8;
    --muted: #9fb0aa;
    --faint: #6f807a;
    --accent: #3fbfa8;
    --accent-soft: #1d3b36;
    --accent-ink: #0b1514;
    --tier-preferred: #5cc98f;
    --tier-caution: #e0a83e;
    --tier-later: #84a5ea;
    --tier-exclude: #ec7d7d;
    --inv-core: #3fbfa8;
    --inv-used: #2a6d61;
    --inv-mentioned: #182020;
    --inv-none: #1c2423;
    --inv-unknown: #2c2a24;
    --shadow: none;
    color-scheme: dark;
  }
}

* { box-sizing: border-box; }
html, body { height: 100%; }
body {
  margin: 0;
  background: var(--bg);
  color: var(--text);
  font: 14px/1.5 system-ui, -apple-system, "Segoe UI", Roboto, sans-serif;
  display: flex;
  flex-direction: column;
}
h1, h2, h3, h4 { margin: 0; line-height: 1.25; }
a { color: var(--accent); text-decoration: none; }
a:hover { text-decoration: underline; }
button { font: inherit; color: inherit; }

/* Top bar */
.topbar {
  display: flex; align-items: center; justify-content: space-between; gap: 16px;
  padding: 10px 18px; background: var(--surface); border-bottom: 1px solid var(--border);
}
.brand { display: flex; align-items: center; gap: 12px; min-width: 0; }
.brand-mark {
  width: 28px; height: 28px; border-radius: 8px; flex: none;
  background: radial-gradient(circle at 30% 35%, var(--accent) 0 4px, transparent 5px),
              radial-gradient(circle at 68% 40%, var(--tier-later) 0 4px, transparent 5px),
              radial-gradient(circle at 50% 72%, var(--tier-caution) 0 4px, transparent 5px),
              var(--accent-soft);
}
.brand h1 { font-size: 16px; }
.sub { margin: 0; color: var(--muted); font-size: 12px; }
.stats { display: flex; gap: 18px; color: var(--muted); font-size: 12px; white-space: nowrap; }
.top-right { display: flex; align-items: center; gap: 18px; }
.help-button {
  border: 1px solid var(--border); border-radius: 8px; padding: 4px 12px; font-size: 13px; font-weight: 600;
  color: var(--text); background: var(--surface-2);
}
.help-button:hover { border-color: var(--accent); color: var(--accent); text-decoration: none; }
/* Small "?" links into the help pages */
.help-link {
  display: inline-flex; align-items: center; justify-content: center; flex: none;
  width: 17px; height: 17px; border-radius: 50%; border: 1px solid var(--border);
  font-size: 11px; font-weight: 700; line-height: 1; color: var(--muted); background: var(--surface);
  vertical-align: middle; text-transform: none; letter-spacing: 0;
}
.help-link:hover { border-color: var(--accent); color: var(--accent); text-decoration: none; }
.control-row { display: flex; align-items: center; justify-content: space-between; gap: 8px; }
.stats b { color: var(--text); font-size: 15px; display: block; font-variant-numeric: tabular-nums; }

/* Layout: list on the left, two stacked panels on the right */
/* Section sizes come from custom properties that the dividers (layout.js) adjust. */
.layout {
  flex: 1; min-height: 0;
  display: grid; padding: 12px;
  grid-template-columns: var(--side-w, 360px) 12px minmax(0, 1fr);
  grid-template-rows: minmax(0, var(--top-fr, 1.15fr)) 12px minmax(0, 1fr);
  grid-template-areas: "list gside top" "list gside gpanels" "list gside bottom";
}
#gutter-side { grid-area: gside; }
#gutter-panels { grid-area: gpanels; }

/* Draggable dividers */
.gutter { position: relative; touch-action: none; outline: none; }
.gutter::after {
  content: ""; position: absolute; border-radius: 2px; background: transparent; transition: background .12s;
}
.gutter-v { cursor: col-resize; }
.gutter-v::after { top: 0; bottom: 0; left: 50%; width: 3px; transform: translateX(-50%); }
.gutter-h { cursor: row-resize; }
.gutter-h::after { left: 0; right: 0; top: 50%; height: 3px; transform: translateY(-50%); }
.gutter:hover::after, .gutter:focus-visible::after, .gutter.dragging::after { background: var(--accent); }
body.resizing { user-select: none; }
body.resizing.col { cursor: col-resize; }
body.resizing.row { cursor: row-resize; }
body.resizing iframe, body.resizing svg { pointer-events: none; }
.sidebar, .panel {
  background: var(--surface); border: 1px solid var(--border);
  border-radius: var(--radius); box-shadow: var(--shadow); min-height: 0;
}
.sidebar { grid-area: list; display: flex; flex-direction: column; overflow: hidden; }
.panel-top { grid-area: top; overflow: auto; }
.panel-bottom { grid-area: bottom; display: flex; flex-direction: column; overflow: hidden; }

/* Sidebar */
.controls { padding: 12px; border-bottom: 1px solid var(--border); display: grid; gap: 8px; }
.controls input[type="search"] {
  width: 100%; padding: 8px 10px; border-radius: 8px;
  border: 1px solid var(--border); background: var(--surface-2); color: var(--text); font: inherit;
}
.chips { display: flex; flex-wrap: wrap; gap: 6px; }
.chip {
  border: 1px solid var(--border); background: var(--surface); border-radius: 999px;
  padding: 2px 10px; font-size: 12px; cursor: pointer; color: var(--muted);
}
.chip[aria-pressed="true"] { background: var(--text); color: var(--surface); border-color: var(--text); }
.toggle { font-size: 12px; color: var(--muted); display: flex; align-items: center; gap: 6px; }

.paper-list { list-style: none; margin: 0; padding: 0 0 12px; overflow: auto; flex: 1; }
.tier-heading {
  position: sticky; top: 0; z-index: 1;
  padding: 8px 12px 6px; background: var(--surface); border-bottom: 1px solid var(--border);
  font-size: 11px; font-weight: 600; letter-spacing: .04em; text-transform: uppercase;
  display: flex; justify-content: space-between; color: var(--muted);
}
.tier-heading .dot { display: inline-block; width: 8px; height: 8px; border-radius: 50%; margin-right: 6px; }
.paper {
  display: grid; grid-template-columns: 34px 1fr; gap: 8px;
  padding: 9px 12px; border-bottom: 1px solid var(--border); cursor: pointer;
  border-left: 3px solid transparent;
}
.paper:hover { background: var(--surface-2); }
.paper[aria-selected="true"] { background: var(--accent-soft); border-left-color: var(--accent); }
.paper .rank { color: var(--faint); font: 600 12px/1.6 var(--mono); text-align: right; }
.paper .title {
  font-weight: 550; font-size: 13px;
  display: -webkit-box; -webkit-line-clamp: 2; -webkit-box-orient: vertical; overflow: hidden;
}
.paper .meta { color: var(--muted); font-size: 12px; display: flex; gap: 8px; flex-wrap: wrap; margin-top: 2px; }
.badge-ingested { color: var(--accent); font-weight: 600; }
.badge-pending { color: var(--faint); }
.empty { padding: 24px 12px; color: var(--muted); text-align: center; }

/* Top panel: enhanced abstract */
.abstract { display: grid; grid-template-columns: minmax(0, 1fr) 280px; gap: 18px; padding: 18px; }
.abstract-main { min-width: 0; }
.abstract h2 { font-size: 19px; }
.byline { color: var(--muted); font-size: 13px; margin-top: 4px; }
.tags { display: flex; flex-wrap: wrap; gap: 6px; margin: 10px 0 12px; }
.tag {
  font-size: 11px; font-weight: 600; padding: 2px 8px; border-radius: 6px;
  background: var(--surface-2); color: var(--muted); border: 1px solid var(--border);
}
.tag.tier { color: #fff; border: none; }
.tldr {
  background: var(--accent-soft); border-left: 3px solid var(--accent);
  padding: 10px 12px; border-radius: 6px; margin-bottom: 14px;
}
.tldr strong { display: block; font-size: 11px; text-transform: uppercase; letter-spacing: .05em; color: var(--accent); }
.section { margin-bottom: 12px; }
.section h3 { font-size: 13px; margin-bottom: 2px; }
.section p { margin: 0; color: var(--text); }
.twocol { display: grid; grid-template-columns: 1fr 1fr; gap: 14px; margin: 14px 0; }
.twocol h3, .why h3 { font-size: 12px; text-transform: uppercase; letter-spacing: .05em; color: var(--muted); margin-bottom: 4px; }
.twocol ul { margin: 0; padding-left: 18px; }
.twocol li { margin-bottom: 3px; }
.why { border-top: 1px solid var(--border); padding-top: 10px; }
.why p { margin: 0; }
.provenance { margin-top: 12px; font-size: 12px; color: var(--faint); }
.notice {
  border: 1px dashed var(--border); border-radius: 8px; padding: 12px; margin: 12px 0;
  background: var(--surface-2); color: var(--muted);
}
.notice code, .stage-detail code { font-family: var(--mono); font-size: 12px; }
.notice.warn { border-color: var(--tier-caution); color: var(--text); }

.aside { display: grid; gap: 12px; align-content: start; }
.box { border: 1px solid var(--border); border-radius: 8px; padding: 10px 12px; background: var(--surface-2); }
.box h3 { font-size: 12px; text-transform: uppercase; letter-spacing: .05em; color: var(--muted); margin-bottom: 6px; }
.box ul { list-style: none; margin: 0; padding: 0; display: grid; gap: 4px; }
.box .group { font-size: 11px; color: var(--faint); margin-top: 6px; }
.citebig { font-size: 26px; font-weight: 650; font-variant-numeric: tabular-nums; line-height: 1.1; }
.citesub { color: var(--muted); font-size: 12px; }
.chart { margin-top: 8px; }
.chart svg { width: 100%; height: auto; display: block; }
.chart .bar { fill: var(--accent); }
.chart .lbl { fill: var(--faint); font-size: 9px; }
.scores { display: grid; grid-template-columns: auto 1fr auto; gap: 4px 8px; align-items: center; font-size: 12px; }
.meter { height: 6px; border-radius: 3px; background: var(--border); overflow: hidden; }
.meter span { display: block; height: 100%; background: var(--accent); }

.markers { margin-top: 14px; }
.markers summary { cursor: pointer; font-weight: 600; font-size: 13px; }
.markers table { width: 100%; border-collapse: collapse; margin-top: 8px; font-size: 12px; }
.markers th, .markers td { text-align: left; padding: 5px 6px; border-bottom: 1px solid var(--border); vertical-align: top; }
.markers th { color: var(--muted); font-weight: 600; }
.gene { font-family: var(--mono); font-size: 11px; }
.gene.pos { color: var(--tier-preferred); }
.gene.neg { color: var(--tier-exclude); }

/* Bottom panel: workflow */
.panel-head {
  display: flex; align-items: center; justify-content: space-between; gap: 12px; flex-wrap: wrap;
  padding: 10px 14px; border-bottom: 1px solid var(--border);
}
.panel-head h2 { font-size: 14px; }
.legend { display: flex; gap: 12px; flex-wrap: wrap; font-size: 11px; color: var(--muted); }
.legend span { display: inline-flex; align-items: center; gap: 5px; }
.legend i { width: 14px; height: 10px; border-radius: 3px; border: 1px solid var(--border); display: inline-block; }
.workflow {
  flex: 1; min-height: 0; display: grid;
  grid-template-columns: minmax(0, var(--diag-fr, 1.5fr)) 9px minmax(220px, 1fr);
}
#gutter-workflow { border-left: 1px solid var(--border); }
.diagram-wrap { padding: 8px 12px; overflow: auto; display: flex; align-items: center; }
#diagram { width: 100%; height: auto; max-height: 100%; }
.node { cursor: pointer; }
.node rect { stroke: var(--border); stroke-width: 1.2; transition: filter .15s; }
.node:hover rect { filter: brightness(.96); }
.node.sel rect { stroke: var(--text); stroke-width: 2.4; }
.node text { font-size: 12.5px; font-weight: 600; pointer-events: none; }
.node .inv { font-size: 10px; font-weight: 500; }
.node.core rect { fill: var(--inv-core); stroke: var(--inv-core); }
.node.core text { fill: var(--accent-ink); }
.node.used rect { fill: var(--inv-used); }
.node.used text { fill: var(--text); }
.node.mentioned rect { fill: var(--inv-mentioned); stroke-dasharray: 5 3; stroke: var(--muted); }
.node.mentioned text { fill: var(--text); }
.node.none rect { fill: var(--inv-none); }
.node.none text { fill: var(--faint); }
.node.unknown rect { fill: var(--inv-unknown); stroke-dasharray: 2 3; stroke: var(--faint); }
.node.unknown text { fill: var(--muted); }
.node.na rect { fill: var(--surface-2); }
.node.na text { fill: var(--faint); }
.node.sel.core rect { stroke: var(--text); }
.edge { stroke: var(--faint); stroke-width: 1.6; fill: none; }
.arrowhead { fill: var(--faint); }

.stage-detail { padding: 12px 14px 12px 5px; overflow: auto; }
.stage-detail h3 { font-size: 15px; }
.inv-pill {
  display: inline-block; font-size: 11px; font-weight: 600; padding: 1px 8px; border-radius: 999px;
  margin: 4px 0 8px; border: 1px solid var(--border);
}
.inv-pill.core { background: var(--inv-core); color: var(--accent-ink); border-color: var(--inv-core); }
.inv-pill.used { background: var(--inv-used); }
.inv-pill.mentioned { border-style: dashed; }
.inv-pill.none, .inv-pill.unknown { color: var(--muted); }
.stage-detail p { margin: 0 0 10px; }
.stage-detail h4 { font-size: 11px; text-transform: uppercase; letter-spacing: .05em; color: var(--muted); margin: 10px 0 4px; }
.pills { display: flex; flex-wrap: wrap; gap: 5px; }
.pill { font-size: 12px; padding: 2px 8px; border-radius: 6px; background: var(--surface-2); border: 1px solid var(--border); }
.pill small { color: var(--faint); margin-left: 4px; }
.hint { color: var(--faint); font-size: 12px; }

/* Workflow view toggle and aggregate ("All ingested papers") mode */
.head-left { display: flex; align-items: center; gap: 12px; flex-wrap: wrap; }
.segmented { display: inline-flex; border: 1px solid var(--border); border-radius: 8px; overflow: hidden; }
.segmented button {
  border: 0; background: var(--surface); padding: 3px 10px; font-size: 12px; cursor: pointer; color: var(--muted);
}
.segmented button + button { border-left: 1px solid var(--border); }
.segmented button[aria-pressed="true"] { background: var(--text); color: var(--surface); }
.coverage-legend { display: inline-flex; align-items: center; gap: 6px; }
.legend i.ramp {
  width: 60px; border: 1px solid var(--border);
  background: linear-gradient(90deg, var(--surface), var(--inv-core));
}
.node.agg rect { fill: color-mix(in srgb, var(--inv-core) var(--share), var(--surface)); stroke: var(--border); }
.node.agg text { fill: var(--text); }
.node.agg.strong text { fill: var(--accent-ink); }
.node.agg.sel rect { stroke: var(--text); stroke-width: 2.4; }

.usage-controls { display: flex; flex-wrap: wrap; align-items: center; gap: 10px; margin: 6px 0 4px; }
.usage-controls select {
  font: inherit; font-size: 12px; padding: 3px 6px; border-radius: 6px;
  border: 1px solid var(--border); background: var(--surface-2); color: var(--text);
}
.cov { color: var(--muted); font-size: 12.5px; }
.bars { list-style: none; margin: 0; padding: 0; display: grid; gap: 3px; }
.bar-row {
  width: 100%; display: grid; grid-template-columns: minmax(90px, 40%) 1fr 34px; gap: 8px; align-items: center;
  border: 0; background: none; padding: 3px 4px; border-radius: 6px; cursor: pointer; text-align: left;
}
.bar-row:hover { background: var(--surface-2); }
.bar-name { font-size: 12.5px; overflow: hidden; text-overflow: ellipsis; white-space: nowrap; }
.bar-name small { color: var(--faint); }
.bar-track { height: 10px; background: var(--surface-2); border-radius: 5px; overflow: hidden; }
.bar-fill { display: block; height: 100%; background: var(--accent); border-radius: 5px; }
.bar-val { font: 600 12px var(--mono); text-align: right; font-variant-numeric: tabular-nums; }

.pill.linky { cursor: pointer; color: inherit; font: inherit; font-size: 12px; }
.pill.linky:hover { border-color: var(--accent); color: var(--accent); }
.linkbtn { border: 0; background: none; padding: 0; color: var(--accent); cursor: pointer; text-align: left; font-size: 12.5px; }
.linkbtn:hover { text-decoration: underline; }
.paper-mini { list-style: none; margin: 0; padding: 0; display: grid; gap: 5px; font-size: 12.5px; }
.paper-mini small { color: var(--faint); }
.action {
  margin-top: 12px; border: 1px solid var(--accent); color: var(--accent); background: var(--accent-soft);
  border-radius: 8px; padding: 5px 10px; font-size: 12.5px; cursor: pointer;
}
.filter-chip {
  display: inline-flex; align-items: center; gap: 6px; font-size: 12px;
  background: var(--accent-soft); color: var(--accent); border-radius: 999px; padding: 2px 4px 2px 10px;
}
.filter-chip button {
  border: 0; background: none; color: inherit; cursor: pointer; font-size: 14px; line-height: 1; padding: 0 4px;
}

/* Medium screens: diagram above the step details */
@media (max-width: 1200px) {
  .panel-bottom { overflow: auto; }
  .workflow { grid-template-columns: 1fr; flex: none; }
  .diagram-wrap { max-width: 760px; }
  #gutter-workflow { display: none; }
  .stage-detail { border-top: 1px solid var(--border); overflow: visible; padding: 12px 14px; }
}

/* Narrow screens: stack everything */
@media (max-width: 980px) {
  body { display: block; }
  .layout {
    gap: 12px;
    grid-template-columns: 1fr; grid-template-rows: auto;
    grid-template-areas: "list" "top" "bottom";
  }
  .gutter { display: none; }
  .sidebar { max-height: 55vh; }
  .panel-top, .panel-bottom { overflow: visible; }
  .abstract { grid-template-columns: 1fr; }
  .workflow { grid-template-columns: 1fr; }
  .stage-detail { border-left: none; border-top: 1px solid var(--border); }
  .twocol { grid-template-columns: 1fr; }
  .topbar { flex-wrap: wrap; }
}
@media (max-width: 520px) {
  .layout { padding: 8px 0; }
  .sidebar, .panel { border-radius: 0; border-left: 0; border-right: 0; }
  .abstract { padding: 14px 16px; }
  .stats { gap: 12px; }
}