/* Panel layout: the shell, the tab strip, the provenance rail, and the inside of each sheet.
 * BUILD_SPEC section 7. Desktop first; responsive.css stacks it. */

/* ------------------------------------------------------------------------- shell */

.app {
  display: grid;
  grid-template-rows: auto auto 1fr;
  min-height: 100vh;
}

.title-bar {
  position: sticky;
  top: 0;
  z-index: 20;
  display: flex;
  align-items: center;
  gap: var(--unit);
  padding: calc(var(--unit) * 1.25) var(--sheet-pad);
  background: color-mix(in srgb, var(--bg) 88%, var(--surface));
  backdrop-filter: blur(6px);
  border-bottom: var(--rule) solid var(--line-strong);
}

.wordmark {
  font-family: var(--mono);
  font-size: 15px;
  font-weight: 600;
  letter-spacing: 0.22em;
  color: var(--ink);
  text-transform: uppercase;
}

.wordmark span { color: var(--target); }

.paper-switcher {
  display: flex;
  gap: 0;
  margin-left: var(--unit);
  border: var(--rule) solid var(--line);
  border-radius: var(--radius);
  overflow: hidden;
}

.paper-switcher button {
  border: 0;
  border-right: var(--rule) solid var(--line);
  border-radius: 0;
  padding: 4px 10px;
  background: var(--surface);
  font-size: 12px;
}

.paper-switcher button:last-child { border-right: 0; }

.paper-switcher button[aria-pressed="true"] {
  background: color-mix(in srgb, var(--target) 18%, var(--surface));
  color: var(--ink);
}

.paper-switcher kbd {
  margin-left: 6px;
  font-size: 10px;
  color: var(--ink-dim);
}

.title-bar-spacer { flex: 1 1 auto; }

/* ---------------------------------------------------------------------- search */

.search { position: relative; }

.search input {
  width: 190px;
  font-family: var(--mono);
  font-size: 12px;
  padding: 5px 10px;
  background: var(--surface);
}

.search input:focus { width: 260px; }

.search-results {
  position: absolute;
  top: calc(100% + 6px);
  right: 0;
  z-index: 40;
  width: min(460px, 78vw);
  max-height: 60vh;
  overflow-y: auto;
  background: var(--surface);
  border: var(--rule) solid var(--line-strong);
  border-radius: var(--radius);
  box-shadow: 0 8px 24px var(--shadow);
}

.search-hit {
  display: block;
  width: 100%;
  text-align: left;
  padding: 8px 10px;
  background: none;
  border: 0;
  border-bottom: var(--rule) solid var(--line);
  border-radius: 0;
}

.search-hit:hover { background: var(--surface-2); }

.search-hit-head {
  display: flex;
  align-items: baseline;
  justify-content: space-between;
  gap: var(--unit);
}

.search-hit-title { font-weight: 600; font-size: 13px; }
.search-hit-text { margin: 4px 0 0; font-size: 12px; color: var(--ink-dim); line-height: 1.45; }
.search-hit-source { font-size: 10px; color: var(--measure); }

/* Nothing found is information, not an error. */
.search-empty { padding: var(--unit) calc(var(--unit) * 1.5); }
.search-empty strong { display: block; color: var(--ink); margin-bottom: 4px; }
.search-empty p { margin: 0; font-size: 12px; color: var(--ink-dim); line-height: 1.5; }

@media (max-width: 900px) {
  .search input, .search input:focus { width: 130px; }
}

.tab-strip {
  display: flex;
  gap: 0;
  padding: 0 var(--sheet-pad);
  background: var(--bg);
  border-bottom: var(--rule) solid var(--line);
}

.tab-strip button {
  border: 0;
  border-bottom: 2px solid transparent;
  border-radius: 0;
  background: none;
  padding: 10px 14px;
  font-size: 13px;
  text-transform: uppercase;
  letter-spacing: 0.08em;
  color: var(--ink-dim);
}

.tab-strip button[aria-selected="true"] {
  color: var(--ink);
  border-bottom-color: var(--target);
}

.register-toggle,
.theme-toggle {
  display: flex;
  align-items: center;
  gap: 6px;
  font-size: 12px;
}

/* ----------------------------------------------------------------- provenance rail
 * Always visible. This is what makes the app defensible to a specialist. */

.provenance-rail {
  display: flex;
  align-items: center;
  gap: var(--unit);
  flex-wrap: wrap;
  padding: 6px var(--sheet-pad);
  font-family: var(--mono);
  font-size: 11px;
  color: var(--ink-dim);
  background: var(--surface-2);
  border-bottom: var(--rule) solid var(--line);
}

.provenance-rail .rail-item { display: flex; align-items: center; gap: 5px; }
.provenance-rail .rail-label { text-transform: uppercase; letter-spacing: 0.08em; }
.provenance-rail .rail-value { color: var(--ink); }
.provenance-rail .rail-source { color: var(--measure); }

/* A claim the authors themselves call speculative is marked as such, everywhere it appears. */
.speculative {
  border-bottom: 1px dotted var(--measure);
  cursor: help;
}

.speculative::after {
  content: " (authors' hypothesis)";
  color: var(--measure);
  font-size: 0.9em;
}

/* ------------------------------------------------------------------------ tab body */

.tab-body { padding: var(--sheet-pad); }
.tab-body[hidden] { display: none !important; }

.layout-structure {
  display: grid;
  grid-template-columns: minmax(0, 1.55fr) minmax(320px, 1fr);
  gap: var(--sheet-pad);
  align-items: start;
}

.layout-sar {
  display: grid;
  grid-template-columns: minmax(0, 1fr) minmax(0, 1fr);
  gap: var(--sheet-pad);
  align-items: start;
}

.layout-story {
  display: grid;
  grid-template-columns: minmax(0, 1fr) minmax(0, 1.1fr);
  gap: var(--sheet-pad);
  align-items: start;
}

.stack { display: grid; gap: var(--sheet-pad); }

/* --------------------------------------------------------------------- structure */

.viewer-host {
  position: relative;
  width: 100%;
  aspect-ratio: 4 / 3;
  max-width: 100%;
  background: var(--surface-2);
  border: var(--rule) solid var(--line);
  border-radius: var(--radius);
  overflow: hidden;
}

.viewer-pair {
  display: grid;
  grid-template-columns: 1fr 1fr;
  gap: calc(var(--unit) * 0.5);
}

/* The frame owns the positioning context, so the label can sit over the canvas without
 * being a child of the element Mol* mounts into and wipes. */
.viewer-frame { position: relative; min-width: 0; }
.viewer-frame[hidden] { display: none !important; }

.viewer-pair .viewer-label {
  position: absolute;
  top: 6px;
  left: 8px;
  z-index: 2;
  font-family: var(--mono);
  font-size: 11px;
  padding: 1px 6px;
  background: color-mix(in srgb, var(--bg) 80%, transparent);
  border: var(--rule) solid var(--line);
  border-radius: var(--radius);
}

.viewer-frame.is-target .viewer-label { color: var(--target); border-color: var(--target); }
.viewer-frame.is-anti .viewer-label { color: var(--anti); border-color: var(--anti); }

/* Mol* paints its own ground, so the panel colour is set on the canvas host and the
 * plugin chrome is hidden: the app supplies its own controls. */
.viewer-host .msp-plugin-content,
.viewer-host .msp-default-bg,
.viewer-host .msp-viewport { background: transparent !important; }

/* Mol* draws its own chrome: viewport buttons, a hover info strip and a highlight toast
 * naming whatever is under the pointer. The app supplies its own controls and its own
 * residue labels, so all of it is hidden. The toast in particular sits over the lower half
 * of the viewer and reports Mol*'s internal numbering, which fights the app's. */
.viewer-host .msp-viewport-controls,
.viewer-host .msp-hover-info,
.viewer-host .msp-highlight-toast-wrapper,
.viewer-host .msp-toast-container,
.viewer-host .msp-selection-viewport-controls { display: none !important; }

/* KLIFS ruler: scrolls horizontally in its own container, never widening the page. */
.ruler {
  overflow-x: auto;
  padding-bottom: 4px;
  border: var(--rule) solid var(--line);
  border-radius: var(--radius);
  background: var(--surface-2);
}

.ruler svg { display: block; min-width: 100%; }
.ruler-cell { cursor: pointer; }
.ruler-cell:hover { stroke: var(--ink); stroke-width: 1; }
.ruler-cell[aria-selected="true"] { stroke: var(--focus); stroke-width: 1.5; }
.ruler-tick { fill: var(--ink-dim); font-family: var(--mono); font-size: 9px; }
.ruler-band { opacity: 0.75; }

/* contact list */
.contact-list { display: grid; gap: 2px; max-height: 320px; overflow-y: auto; }

.contact-row {
  display: grid;
  grid-template-columns: 78px 1fr auto;
  gap: var(--unit);
  align-items: center;
  padding: 3px 6px;
  font-family: var(--mono);
  font-size: 12px;
  background: none;
  border: var(--rule) solid transparent;
  border-radius: var(--radius);
  text-align: left;
  width: 100%;
}

.contact-row:hover { border-color: var(--line-strong); background: var(--surface-2); }
.contact-row .contact-type { color: var(--ink-dim); font-size: 10px; text-transform: uppercase; }
.contact-row .contact-distance { color: var(--measure); }

.contact-group-head {
  margin-top: var(--unit);
  font-family: var(--ui);
  font-size: 10px;
  text-transform: uppercase;
  letter-spacing: 0.08em;
  color: var(--ink-dim);
}

/* ---------------------------------------------------------------------- edit log */

.edit-card {
  display: grid;
  gap: var(--unit);
  padding: var(--unit);
  border: var(--rule) solid var(--line);
  border-radius: var(--radius);
  background: var(--surface);
}

.edit-card.is-active { border-color: var(--target); }

.edit-swap {
  display: grid;
  grid-template-columns: 1fr auto 1fr;
  gap: var(--unit);
  align-items: center;
}

.edit-arrow {
  font-family: var(--mono);
  font-size: 18px;
  color: var(--ink-dim);
  text-align: center;
}

.edit-deltas {
  display: flex;
  flex-wrap: wrap;
  gap: calc(var(--unit) * 0.75);
  font-family: var(--mono);
  font-size: 11px;
}

.edit-delta {
  padding: 1px 6px;
  border: var(--rule) solid var(--line);
  border-radius: var(--radius);
}

.edit-delta.gain { border-color: var(--gain); color: var(--gain); }
.edit-delta.loss { border-color: var(--loss); color: var(--loss); }

.change-tag {
  font-family: var(--mono);
  font-size: 10px;
  text-transform: uppercase;
  letter-spacing: 0.06em;
  color: var(--measure);
  border: var(--rule) solid var(--measure);
  border-radius: var(--radius);
  padding: 1px 6px;
}

/* --------------------------------------------------------------------------- SAR */

.rgroup-grid { overflow: auto; }

.rgroup-grid table { border-collapse: collapse; }

.rgroup-grid th,
.rgroup-grid td {
  border: var(--rule) solid var(--line);
  padding: 2px;
  text-align: center;
  vertical-align: middle;
}

.rgroup-grid th .depiction { width: 88px; }

.rgroup-cell {
  width: 76px;
  height: 46px;
  font-family: var(--mono);
  font-size: 11px;
  cursor: pointer;
}

/* An empty cell is drawn as deliberately empty: the combination was never made. */
.rgroup-cell.is-empty {
  background-image: repeating-linear-gradient(
    45deg, transparent, transparent 4px, var(--line) 4px, var(--line) 5px);
  cursor: default;
}

.selectivity-matrix td.fold { font-family: var(--mono); text-align: right; }

/* ------------------------------------------------------------------- story sheet */

.beat {
  padding: calc(var(--unit) * 3) 0;
  border-bottom: var(--rule) dashed var(--line);
}

.beat-kicker {
  font-family: var(--mono);
  font-size: 11px;
  text-transform: uppercase;
  letter-spacing: 0.12em;
  color: var(--measure);
}

.beat h3 { font-family: var(--prose); font-size: 1.3rem; color: var(--ink); margin: 6px 0; }
.beat.is-current { border-left: 2px solid var(--target); padding-left: var(--unit); }

.beat-evidence {
  font-family: var(--mono);
  font-size: 11px;
  color: var(--ink-dim);
}

.pinned {
  position: sticky;
  top: calc(var(--unit) * 14);
  display: grid;
  gap: var(--unit);
}

/* graphical abstract strip: our own drawing, from SMILES, never the publisher's image */
.abstract-strip {
  display: flex;
  gap: var(--unit);
  align-items: stretch;
  overflow-x: auto;
  padding-bottom: var(--unit);
}

.abstract-panel {
  flex: 0 0 auto;
  width: 190px;
  display: grid;
  gap: 4px;
  padding: var(--unit);
  border: var(--rule) solid var(--line);
  border-radius: var(--radius);
  background: var(--surface-2);
  cursor: pointer;
  text-align: left;
}

.abstract-panel:hover { border-color: var(--target); }
.abstract-panel .abstract-caption { font-size: 11px; color: var(--ink-dim); }
.abstract-panel .abstract-value { font-family: var(--mono); font-size: 12px; color: var(--measure); }

.abstract-arrow {
  flex: 0 0 auto;
  align-self: center;
  width: 150px;
  font-size: 11px;
  color: var(--ink-dim);
  text-align: center;
}

.abstract-arrow::before {
  content: "⟶";
  display: block;
  font-family: var(--mono);
  font-size: 20px;
  color: var(--line-strong);
}

/* ---------------------------------------------------------------------- abstract quote
 * The published abstract is quoted verbatim, so it is marked unmistakably as a quotation
 * with its citation, and the surrounding narrative is ours. */

blockquote.abstract {
  margin: 0;
  padding: var(--unit) var(--sheet-pad);
  border-left: 3px solid var(--measure);
  background: var(--surface-2);
  font-family: var(--prose);
}

blockquote.abstract cite {
  display: block;
  margin-top: var(--unit);
  font-family: var(--mono);
  font-size: 11px;
  font-style: normal;
  color: var(--ink-dim);
}

/* ------------------------------------------------------------------------- plots */

.plot-host { width: 100%; min-height: 300px; }

/* ------------------------------------------------------------------------- about
 * The pipeline schematic is a row of stage cards joined by arrows: it wraps to a column
 * at narrow widths rather than scrolling, because a reader on a phone should be able to
 * follow the sequence without dragging it sideways. */

.about-flow {
  display: flex;
  flex-wrap: wrap;
  align-items: stretch;
  gap: calc(var(--unit) * 0.5);
}

.about-stage {
  flex: 1 1 190px;
  min-width: 170px;
  padding: var(--unit);
  background: var(--surface-2);
  border: var(--rule) solid var(--line);
  border-radius: var(--radius);
}

.about-stage-n {
  font-size: 10px;
  letter-spacing: 0.12em;
  color: var(--measure);
}

.about-stage h3 {
  margin: 2px 0 6px;
  font-size: 0.95rem;
  color: var(--ink);
  text-transform: uppercase;
  letter-spacing: 0.06em;
}

.about-stage p { margin: 0; font-size: 12px; color: var(--ink-dim); line-height: 1.5; }

.about-arrow {
  align-self: center;
  font-family: var(--mono);
  font-size: 18px;
  color: var(--line-strong);
}

.about-source {
  padding: var(--unit) 0;
  border-bottom: var(--rule) dashed var(--line);
}

.about-source:last-child { border-bottom: 0; }
.about-source h3 { margin: 0 0 4px; font-size: 0.95rem; color: var(--ink); }
.about-source p { margin: 0; color: var(--ink-dim); font-size: 13px; }

@media (max-width: 700px) {
  /* Stacked, so the arrows point down the page rather than across it. */
  .about-flow { flex-direction: column; }
  .about-arrow { transform: rotate(90deg); }
}