/* Layout and components. Colors mirror styles/theme.scss (DFCI palette). */

:root {
  --mm-deep: #003354;
  --mm-blue: #00629B;
  --mm-light: #41B6E6;
  --mm-orange: #FFA300;
  --mm-gray: #63666A;
  --mm-ink: #1c2b36;
  --mm-mist: #f2f6f9;
  --mm-rule: #d9e2e8;
  --mm-wrap: 1160px;
}

.wrap {
  max-width: var(--mm-wrap);
  margin: 0 auto;
  padding: 0 1.5rem;
}

/* Custom-layout pages: sections are full-bleed bands */
/* #quarto-content > * zeroes padding, so match its specificity */
#quarto-content > .band { padding: 5rem 0; }
.band-mist { background: var(--mm-mist); }
.band-deep { background: var(--mm-deep); color: #dce8f0; }
.band-deep h2 { color: #fff; }
.band-deep a { color: var(--mm-light); }

.band h2 { margin-bottom: 1rem; border-bottom: 0; padding-bottom: 0; }
.band .wrap > section > p { max-width: 42rem; }

/* ---------- Hero ---------- */

#quarto-content > .band-hero {
  background: var(--mm-deep);
  color: #cfe0ec;
  padding: 5rem 0 5rem;
  overflow: hidden;
}

.hero-grid {
  display: grid;
  grid-template-columns: minmax(0, 0.85fr) minmax(0, 1.3fr);
  gap: 3rem;
  align-items: center;
}

.hero-copy h1 {
  color: #fff;
  font-size: clamp(2.3rem, 4.6vw, 3.6rem);
  font-weight: 700;
  font-stretch: 78%;
  line-height: 1.02;
  letter-spacing: -0.02em;
  margin: 0 0 1.4rem;
}

.hero-copy p {
  font-size: 1.2rem;
  line-height: 1.55;
  max-width: 30rem;
}

.hero-actions {
  display: flex;
  flex-wrap: wrap;
  gap: 0.75rem;
  margin-top: 2rem;
}

.hero-actions .btn-warning { color: var(--mm-deep); }

/* Hero: one synthetic patient passing through all three tools */

figure.suite-demo {
  margin: 0;
  display: grid;
  grid-template-columns: repeat(2, minmax(0, 1fr));
  gap: 1rem;
  align-items: start;
  font-size: 0.86rem;
}

.sd-card {
  background: #fff;
  color: var(--mm-ink);
  border-radius: 8px;
  padding: 0.95rem 1.1rem;
  box-shadow: 0 24px 48px -24px rgba(0, 20, 40, 0.6);
  animation: card-in 0.5s ease-out both;
  animation-delay: calc(0.2s + var(--i) * 0.25s);
}
.sd-card p { margin: 0; }
/* Reading order Genomics, MatchMiner-AI, Dashboard: Genomics top left,
   MatchMiner-AI on the right across both rows, Dashboard below Genomics. */
.sd-genomics { grid-column: 1; grid-row: 1; }
.sd-ai { grid-column: 2; grid-row: 1 / span 2; align-self: center; }
.sd-dash { grid-column: 1; grid-row: 2; }

@keyframes card-in {
  from { opacity: 0; transform: translateY(8px); }
}

.sd-tool {
  font-weight: 700;
  font-stretch: 85%;
  font-size: 0.8rem;
  color: var(--mm-blue);
  padding-bottom: 0.45rem;
  margin-bottom: 0.5rem !important;
  border-bottom: 1px solid var(--mm-rule);
}

.sd-trials { width: 100%; border-collapse: collapse; font-variant-numeric: tabular-nums; }
.sd-trials th { font-weight: 600; color: var(--mm-gray); font-size: 0.74rem; text-align: left; padding: 0 0 0.25rem; }
.sd-trials td { padding: 0.2rem 0; border-top: 1px solid var(--mm-mist); }
.sd-trials th:last-child, .sd-trials td:last-child { text-align: right; }
.sd-trials tbody tr:first-child td { color: var(--mm-deep); font-weight: 600; }

.sd-line { margin-bottom: 0.6rem !important; }
.sd-result { font-weight: 600; color: var(--mm-deep); }
.sd-label { display: block; color: var(--mm-gray); font-size: 0.74rem; font-weight: 600; }
.sd-summary { margin-bottom: 0.6rem !important; line-height: 1.45; }

.sd-ranked { list-style: none; margin: 0; padding: 0; }
.sd-ranked li {
  display: flex;
  align-items: baseline;
  padding: 0.3rem 0;
  border-top: 1px solid var(--mm-rule);
}
.sd-ranked b { color: var(--mm-deep); font-variant-numeric: tabular-nums; margin-right: 0.35rem; }

.dot {
  flex: none;
  display: inline-block;
  width: 0.6rem;
  height: 0.6rem;
  margin-right: 0.45rem;
  border-radius: 50%;
  background: var(--mm-orange);
}
.dot-muted { background: transparent; box-shadow: inset 0 0 0 2px var(--mm-orange); }

.suite-demo figcaption {
  grid-column: 1 / -1;
  padding-top: 0.5rem;
  font-size: 0.8rem;
  line-height: 1.45;
  color: #8eaec4;
}

/* The match demo: CTML on the left, a patient card that satisfies it */

figure.match-demo {
  margin: 0;
  display: grid;
  grid-template-columns: 1fr min(19rem, 70%);
  column-gap: 1.5rem;
  align-items: start;
}

.match-demo .ctml-window { grid-column: 1 / -1; }

.ctml-window {
  background: #06253b;
  border: 1px solid #1d4966;
  border-radius: 8px;
  box-shadow: 0 30px 60px -30px rgba(0, 0, 0, 0.6);
}

.ctml-bar {
  display: flex;
  justify-content: space-between;
  padding: 0.6rem 1rem;
  border-bottom: 1px solid #1d4966;
  font-family: "JetBrains Mono", monospace;
  font-size: 0.75rem;
  color: #7fa3bb;
}

.ctml-lang { color: var(--mm-light); }

.ctml-code {
  margin: 0;
  padding: 1rem 0 4rem;
  background: transparent;
  border: 0;
  color: #9fb9cb;
  font-size: 0.76rem;
  line-height: 1.7;
  overflow-x: auto;
}

.ctml-code code {
  display: block;
  padding: 0 1rem;
  color: inherit;
  background: transparent;
  white-space: pre;
  font-variant-ligatures: none;
}

.ctml-code .k { color: #8fd3f0; }
.ctml-code .s { color: #e8eef2; }

.ctml-code .hit {
  color: #9fb9cb;
  display: inline-block;
  min-width: calc(100% + 2rem);
  margin: 0 -1rem;
  padding: 0 1rem;
  border-left: 3px solid var(--mm-orange);
  background: rgba(255, 163, 0, 0.16);
  animation: hit-in 0.5s ease-out both;
  animation-delay: calc(0.5s + var(--i) * 0.28s);
}

@keyframes hit-in {
  from { border-left-color: transparent; background: transparent; }
}

.patient-card {
  grid-column: 2;
  grid-row: 2;
  margin: -3.25rem -0.75rem 0 0;
  position: relative;
  background: #fff;
  color: var(--mm-ink);
  border-radius: 8px;
  padding: 1rem 1.15rem;
  box-shadow: 0 24px 48px -20px rgba(0, 20, 40, 0.55);
  font-size: 0.85rem;
}

.patient-label {
  margin: 0 0 0.5rem;
  color: var(--mm-gray);
  font-size: 0.78rem;
}

.patient-card dl { margin: 0; }
.patient-card dl > div {
  display: grid;
  grid-template-columns: 5.2rem 1fr;
  padding: 0.3rem 0;
  border-top: 1px solid var(--mm-rule);
}
.patient-card dt { font-weight: 600; color: var(--mm-deep); }
.patient-card dd { margin: 0; }

.chip {
  display: inline-block;
  font-family: "JetBrains Mono", monospace;
  font-size: 0.72rem;
  padding: 0.05rem 0.4rem;
  border-radius: 3px;
  background: var(--mm-mist);
  white-space: nowrap;
}
.chip-hit { background: #fff1d6; box-shadow: inset 0 0 0 1px var(--mm-orange); }

.patient-result {
  margin: 0.6rem 0 0;
  padding-top: 0.6rem;
  border-top: 1px solid var(--mm-rule);
  font-weight: 650;
  color: var(--mm-deep);
}
.demo-panel {
  background: var(--mm-deep);
  border-radius: 8px;
  padding: 2rem 2rem 1.25rem;
  margin: 2rem 0 1rem;
}

.match-demo figcaption {
  grid-column: 1;
  grid-row: 2;
  padding-top: 1rem;
  font-size: 0.8rem;
  line-height: 1.45;
  color: #8eaec4;
}

/* ---------- Impact figures (Genomics page) ---------- */

.impact {
  grid-column: 1 / -1;
  border-top: 2px solid var(--mm-deep);
  padding-top: 1.25rem;
}

.impact-caption {
  color: var(--mm-gray);
  font-size: 0.9rem;
  margin-bottom: 1rem;
}

.impact-list {
  display: grid;
  grid-template-columns: repeat(3, 1fr);
  gap: 2rem;
  margin: 0;
}

.impact-list dt {
  font-size: 3rem;
  font-weight: 700;
  font-stretch: 75%;
  line-height: 1;
  color: var(--mm-blue);
  margin-bottom: 0.4rem;
}

.impact-list dd { margin: 0; max-width: 16rem; }

/* ---------- Steps (a real sequence, so they are numbered) ---------- */

.steps {
  counter-reset: step;
  display: grid;
  grid-template-columns: repeat(4, 1fr);
  gap: 2rem;
  margin-top: 2.5rem;
}

.step {
  counter-increment: step;
  position: relative;
  padding-top: 3rem;
  border-top: 1px solid #b9c9d4;
}

.step::before {
  content: counter(step);
  position: absolute;
  top: -1rem;
  left: 0;
  width: 2rem;
  height: 2rem;
  display: grid;
  place-items: center;
  border-radius: 50%;
  background: var(--mm-deep);
  color: #fff;
  font-weight: 700;
  font-size: 0.9rem;
}

.step h3 { margin-top: 0; }
.step p { font-size: 0.95rem; }
.step p:last-child a { font-weight: 600; }


/* ---------- Modes ---------- */

.modes {
  display: grid;
  grid-template-columns: repeat(3, 1fr);
  gap: 2.5rem;
  margin-top: 2rem;
}

.mode {
  border-left: 3px solid var(--mm-light);
  padding-left: 1.25rem;
}

.mode h3 { margin-top: 0; }

/* ---------- Suite: problem statement and three equal pillars ---------- */

.suite-intro {
  display: grid;
  grid-template-columns: minmax(0, 1.15fr) minmax(0, 1fr);
  gap: 4rem;
  align-items: center;
}
.intro-copy p { color: #3c4a55; font-size: 1.08rem; }

/* Two headline figures beside the intro */
.gap-stats dl { margin: 0; display: grid; gap: 1.5rem; }
.gap-stats dl > div { border-top: 2px solid var(--mm-deep); padding-top: 1rem; }
.gap-stats dt {
  font-size: 3.4rem;
  font-weight: 700;
  font-stretch: 75%;
  line-height: 1;
  color: var(--mm-blue);
  margin-bottom: 0.4rem;
}
.gap-stats dd { margin: 0; color: #3c4a55; max-width: 26rem; }

.todo {
  display: inline-block;
  padding: 0.1rem 0.4rem;
  border: 1px dashed #b3261e;
  color: #b3261e;
  font-size: 0.9rem;
}

/* Each pillar is a subgrid spanning six shared rows (kind, title, problem,
   body, status, link), so those parts line up across the three columns. */
.pillars {
  display: grid;
  grid-template-columns: repeat(3, minmax(0, 1fr));
  grid-template-rows: repeat(6, auto);
  column-gap: 2rem;
  row-gap: 0;
  margin-top: 3rem;
}

.pillar {
  display: grid;
  grid-row: span 6;
  grid-template-rows: subgrid;
  border-top: 3px solid var(--mm-deep);
  padding-top: 1.25rem;
}
.pillar p { margin-bottom: 0.9rem; }
.pillar h3 { margin: 0.2rem 0 0.8rem; font-size: 1.45rem; }
.pillar-kind { color: var(--mm-blue); font-weight: 600; font-size: 0.95rem; }
.pillar-status { color: var(--mm-gray); font-size: 0.92rem; }
/* Pandoc wraps the h3 and what follows it in a <section>; flatten it so its
   children join the subgrid. */
.pillar > section { display: contents; }
.pillar section > p:last-child { margin-bottom: 0; }
.pillar section > p:last-child a { font-weight: 600; }

/* ---------- Open source band ---------- */

.open-grid, .evidence-grid {
  display: grid;
  grid-template-columns: minmax(0, 1.2fr) minmax(0, 1fr);
  gap: 4rem;
  align-items: start;
}
.open-grid p, .evidence-grid p { max-width: 36rem; }

.open-link, .evidence-item {
  padding: 1.1rem 0;
  border-top: 1px solid var(--mm-rule);
}
.open-link:last-child { border-bottom: 1px solid var(--mm-rule); }
.open-link p { margin: 0; }
.open-venue { font-size: 0.85rem; color: var(--mm-gray); }
.open-link a { font-weight: 600; font-size: 1.05rem; }

/* ---------- Evidence band (deep blue) ---------- */

.evidence-item { border-top-color: #1d4966; }
.evidence-item:first-child { padding-top: 0; border-top: 0; }
.evidence-item p { margin: 0 0 0.5rem; }
.evidence-when { font-size: 0.85rem; color: #8eaec4; }
.evidence-item a { font-weight: 600; }

/* ---------- News (home page and News page) ---------- */

/* Both render news/news.yml through the templates in news/ */
.news-item {
  display: grid;
  grid-template-columns: 9rem minmax(0, 1fr);
  column-gap: 1.5rem;
  padding: 1.1rem 0;
  border-top: 1px solid var(--mm-rule);
}
.news-date { margin: 0; font-weight: 600; color: var(--mm-gray); font-variant-numeric: tabular-nums; }
.news-title { margin: 0 0 0.3rem; font-size: 1.15rem; font-weight: 650; color: var(--mm-deep); line-height: 1.3; }
.news-list h2.news-title { font-size: 1.2rem; border: 0; padding: 0; }
.news-summary { margin: 0; color: #3c4a55; }
.news-body p { margin: 0 0 0.6rem; }
.news-body p:last-child { margin-bottom: 0; }

/* ---------- Publications ---------- */

.pub-list { margin-top: 1.5rem; }

.pub {
  display: grid;
  grid-template-columns: 5rem 1fr;
  grid-template-rows: auto auto;
  column-gap: 1.5rem;
  padding: 1.1rem 0;
  border-top: 1px solid var(--mm-rule);
}
.pub p { margin: 0; }
.pub > p:first-child { grid-row: span 2; }
.pub-year { font-weight: 700; color: var(--mm-gray); font-variant-numeric: tabular-nums; }
.pub a { font-weight: 600; font-size: 1.08rem; line-height: 1.35; }
.pub-venue { color: var(--mm-gray); font-size: 0.92rem; }

.more-link { display: inline-block; margin-top: 1.25rem; font-weight: 600; }

/* ---------- Adopt CTA ---------- */

.adopt-grid {
  display: grid;
  grid-template-columns: 1.4fr 1fr;
  gap: 3rem;
  align-items: center;
}
.adopt-grid p { max-width: 36rem; }
.adopt-actions { display: flex; flex-wrap: wrap; gap: 0.75rem; justify-content: flex-end; }

/* ---------- Interior pages ---------- */

.quarto-title-banner {
  background: var(--mm-deep) !important;
  padding: 3.5rem 0 3rem;
}
.quarto-title-banner .title {
  color: #fff;
  font-size: clamp(2rem, 4vw, 2.9rem);
  font-weight: 700;
  font-stretch: 80%;
}
.quarto-title-banner .subtitle,
.quarto-title-banner .description p {
  color: #cfe0ec;
  font-size: 1.15rem;
  max-width: 40rem;
}

#quarto-content main section.level2 > h2 {
  margin-top: 3rem;
  font-size: 1.6rem;
}

.req-table table { font-size: 0.95rem; }

/* FAQ */
.faq h3 { font-size: 1.12rem; margin-top: 2rem; }

/* Team */
.team-grid {
  display: grid;
  grid-template-columns: repeat(auto-fill, minmax(9.5rem, 1fr));
  gap: 2rem 1.5rem;
  margin: 2rem 0 1rem;
}
.person { text-align: center; }
.avatar {
  position: relative;
  width: 100%;
  aspect-ratio: 1;
  border-radius: 50%;
  background: var(--mm-mist);
  display: grid;
  place-items: center;
  overflow: hidden;
  font-size: 2rem;
  font-weight: 700;
  font-stretch: 80%;
  color: var(--mm-blue);
}
.avatar img {
  position: absolute;
  inset: 0;
  width: 100%;
  height: 100%;
  object-fit: cover;
}
.person-name { margin: 0.6rem 0 0; font-weight: 600; color: var(--mm-deep); line-height: 1.3; }
.person-role { margin: 0; font-size: 0.88rem; color: var(--mm-gray); }

/* Team page: former members, names only */
.alumni ul { columns: 3; column-gap: 2rem; padding-left: 1.1rem; }
.alumni li { break-inside: avoid; }
@media (max-width: 680px) { .alumni ul { columns: 2; } }

/* Research page */
.talks ul { list-style: none; padding: 0; }
.talks li {
  display: grid;
  grid-template-columns: 9.5rem 1fr;
  gap: 1rem;
  padding: 0.8rem 0;
  border-top: 1px solid var(--mm-rule);
}
.talk-event { color: var(--mm-gray); font-size: 0.92rem; font-variant-numeric: tabular-nums; }

/* Contact */
.contact-options {
  display: grid;
  grid-template-columns: repeat(auto-fit, minmax(15rem, 1fr));
  gap: 1.5rem;
  margin: 1.5rem 0;
}
.contact-option {
  border-top: 3px solid var(--mm-blue);
  background: var(--mm-mist);
  padding: 1.25rem 1.25rem 0.5rem;
  border-radius: 0 0 6px 6px;
}
.contact-option h3 { margin-top: 0; font-size: 1.15rem; }

/* ---------- Footer ---------- */

.site-footer {
  grid-column: screen-start / screen-end;  /* full-bleed inside Quarto's page grid */
  margin-top: 4rem;
  background: var(--mm-deep);
  color: #b8cddb;
  padding: 3.5rem 0 3rem;
  font-size: 0.92rem;
}
.footer-grid {
  display: grid;
  grid-template-columns: 2fr 1fr 1fr 1fr;
  gap: 2.5rem;
}
.footer-org p { max-width: 28rem; }
.footer-funding { font-size: 0.85rem; color: #93afc2; }
.site-footer h2 {
  border: 0;
  padding: 0;
  color: #fff;
  font-size: 0.95rem;
  font-weight: 650;
  margin: 0 0 0.75rem;
}
.site-footer ul { list-style: none; padding: 0; margin: 0; }
.site-footer li { margin-bottom: 0.4rem; }
.site-footer a { color: #e3eef5; }

/* Quarto puts its own footer margin in; the custom footer replaces it */
.nav-footer { display: none; }

/* ---------- Responsive ---------- */

@media (max-width: 991px) {
  .hero-grid, .open-grid, .evidence-grid, .adopt-grid { grid-template-columns: minmax(0, 1fr); gap: 2.5rem; }
  .pillars, .suite-intro { grid-template-columns: minmax(0, 1fr); gap: 2.5rem; }
  .pillars { grid-template-rows: none; }
  .pillar { display: block; grid-row: auto; }
  .footer-grid { grid-template-columns: 1fr 1fr 1fr; }
  .footer-org { grid-column: 1 / -1; }
  .steps { grid-template-columns: 1fr 1fr; row-gap: 3rem; }
  .adopt-actions { justify-content: flex-start; }
}

@media (max-width: 680px) {
  #quarto-content > .band { padding: 3.5rem 0; }
  .modes, .steps, .impact-list, .footer-grid { grid-template-columns: 1fr; }
  figure.suite-demo { grid-template-columns: minmax(0, 1fr); }
  .sd-genomics, .sd-ai, .sd-dash { grid-column: auto; grid-row: auto; }
  .demo-panel { padding: 1.25rem 1rem 1rem; }
  .news-item { grid-template-columns: minmax(0, 1fr); row-gap: 0.25rem; }
  .impact-list { gap: 1.25rem; }
  figure.match-demo { grid-template-columns: minmax(0, 1fr); }
  .patient-card { grid-column: 1; margin: -2.5rem 0 0 1rem; }
  .match-demo figcaption { grid-column: 1; grid-row: 3; }
  .ctml-code { font-size: 0.7rem; padding-bottom: 3rem; }
  .pub { grid-template-columns: 1fr; }
  .pub > p:first-child { grid-row: auto; }
  .talks li { grid-template-columns: 1fr; gap: 0.2rem; }
}

@media (prefers-reduced-motion: reduce) {
  .ctml-code .hit, .sd-card { animation: none; }
}

/* Home page ends on a colored band, so the footer butts up against it */
.page-layout-custom > .site-footer { margin-top: 0; }
#quarto-content > .site-footer { padding-top: 3.5rem; }

.navbar-brand .navbar-logo { height: 28px; width: 28px; max-height: none; }

/* The navbar collapses below 1200px (collapse-below: xl), but Quarto's
   collapsed-header layout is hardcoded to 992px. Between the two, keep the
   search button top right as it is on tablets. */
@media (min-width: 992px) and (max-width: 1199.98px) {
  .navbar .quarto-navbar-tools { order: 3; }
  .navbar #quarto-search { order: 4; margin-left: auto; }
}

/* Open source page: keep repo names and licenses on one line; scroll on small screens */
.repo-table { overflow-x: auto; }
.repo-table table { font-size: 0.95rem; }
.repo-table td:first-child, .repo-table td:last-child { white-space: nowrap; }

/* ---------- Product screenshots ---------- */

/* Quarto puts the class on the <img> and wraps it in its own figure */
.quarto-figure:has(img.screenshot) { margin: 2.5rem 0 2rem; }
img.screenshot {
  border: 1px solid var(--mm-rule);
  border-radius: 8px;
  box-shadow: 0 24px 48px -28px rgba(0, 30, 60, 0.35);
}
img.screenshot-narrow { max-width: min(34rem, 100%); }
.screenshot figcaption, .quarto-figure figcaption { font-size: 0.85rem; color: var(--mm-gray); margin-top: 0.75rem; }

/* Cited problem statements on the home page */
.cite { font-size: 0.7em; line-height: 0; margin-left: 0.1em; }
.cite a { font-weight: 600; text-decoration: none; }
.pillar-problem {
  display: block;
  padding-left: 0.85rem;
  border-left: 3px solid var(--mm-light);
  color: var(--mm-deep);
  font-weight: 600;
  line-height: 1.45;
}
.sources {
  margin: 3rem 0 0;
  padding: 1rem 0 0 1.2rem;
  border-top: 1px solid var(--mm-rule);
  font-size: 0.8rem;
  line-height: 1.45;
  color: var(--mm-gray);
}
.sources li { margin-bottom: 0.35rem; padding-left: 0.2rem; }
.sources li:target { background: #fff6e0; }
.sources a { word-break: break-word; }