/* ==========================================================================
   Data Submission section components (docs/data/submission/**)
   Classes are prefixed "sub-" to avoid collisions with Bootstrap 3, which is
   loaded site-wide. Colors come from Material theme variables.
   ========================================================================== */

:root {
  --sub-accent: var(--md-primary-fg-color);
  --sub-border: var(--md-default-fg-color--lightest);
  --sub-muted: var(--md-default-fg-color--light);
  --sub-surface: var(--md-code-bg-color);
  --sub-ok: #2e7d32;
  --sub-warn: #b26a00;
  --sub-radius: 8px;
}

/* ---------- Swimlane journey (overview page) ---------- */
.sub-lanes {
  display: grid;
  grid-template-columns: 4.5rem repeat(5, minmax(0, 1fr));
  grid-template-rows: auto auto auto auto auto;
  column-gap: 0.6rem;
  row-gap: 0.75rem;
  margin: 1rem 0 1.8rem;
  font-size: 0.72rem;
}
.md-typeset .sub-lanes > ol { display: contents; }
.md-typeset .sub-lanes > ol > li {
  display: grid;
  grid-template-rows: subgrid;
  grid-row: 1 / span 4;
  margin: 0;
  padding: 0;
  list-style: none;
  position: relative;
}
.sub-lanes > ol > li:nth-child(1) { grid-column: 2; }
.sub-lanes > ol > li:nth-child(2) { grid-column: 3; }
.sub-lanes > ol > li:nth-child(3) { grid-column: 4; }
.sub-lanes > ol > li:nth-child(4) { grid-column: 5; }
.sub-lanes > ol > li:nth-child(5) { grid-column: 6; }
.sub-lanes > ol { counter-reset: sub-lane; }

/* Column grading: indigo deepens as the submission matures (steps 1-4,
   private), then turns green when the study goes public (step 5). */
.sub-lanes {
  --sub-lane-1: color-mix(in oklab, var(--sub-accent) 78%, white);
  --sub-lane-2: var(--sub-accent);
  --sub-lane-3: color-mix(in oklab, var(--sub-accent) 84%, black);
  --sub-lane-4: color-mix(in oklab, var(--sub-accent) 68%, black);
  --sub-lane-5: var(--sub-ok);
}
.sub-lanes > ol > li:nth-child(1) { --lane: var(--sub-lane-1); --lane-next: var(--sub-lane-2); }
.sub-lanes > ol > li:nth-child(2) { --lane: var(--sub-lane-2); --lane-next: var(--sub-lane-3); }
.sub-lanes > ol > li:nth-child(3) { --lane: var(--sub-lane-3); --lane-next: var(--sub-lane-4); }
.sub-lanes > ol > li:nth-child(4) { --lane: var(--sub-lane-4); --lane-next: var(--sub-lane-5); }
.sub-lanes > ol > li:nth-child(5) { --lane: var(--sub-lane-5); }
.sub-lanes > ol > li { counter-increment: sub-lane; }

.sub-lane-label {
  grid-column: 1;
  align-self: center;
  font-size: 0.62rem;
  font-weight: 700;
  letter-spacing: 0.06em;
  text-transform: uppercase;
  color: var(--sub-muted);
}
.sub-lane-label:nth-child(1) { grid-row: 1; }
.sub-lane-label:nth-child(2) { grid-row: 2; }
.sub-lane-label:nth-child(3) { grid-row: 3; }
.sub-lane-label:nth-child(4) { grid-row: 4; }

/* Step header: numbered circle, title, connector to the next step */
.md-typeset .sub-lane-step {
  display: block;
  position: relative;
  padding: 2.4rem 0 0.3rem;
  font-weight: 700;
  font-size: 0.8rem;
  line-height: 1.3;
  color: var(--lane);
}
.md-typeset .sub-lane-step:hover { color: var(--lane); text-decoration: underline; }
.sub-lane-step::before {
  content: counter(sub-lane);
  position: absolute;
  top: 0;
  left: 0;
  width: 1.9rem;
  height: 1.9rem;
  line-height: 1.9rem;
  text-align: center;
  border-radius: 50%;
  background: var(--lane);
  box-shadow: 0 0 0 3px color-mix(in srgb, var(--lane) 18%, transparent);
  color: var(--md-primary-bg-color);
  font-weight: 700;
}
.sub-lanes > ol > li:not(:last-child) .sub-lane-step::after {
  content: "";
  position: absolute;
  top: 0.95rem;
  left: 2.3rem;
  right: -0.6rem;
  height: 3px;
  border-radius: 2px;
  background: linear-gradient(90deg, var(--lane), var(--lane-next));
  opacity: 0.55;
}

.sub-lane-cell {
  border-radius: 6px;
  padding: 0.55rem 0.65rem;
  line-height: 1.4;
  position: relative;
}
.sub-lane-you {
  background: color-mix(in srgb, var(--lane) 11%, transparent);
  border: 1px solid color-mix(in srgb, var(--lane) 30%, transparent);
  border-top: 3px solid var(--lane);
}
.sub-lane-immport {
  background: var(--sub-surface);
  border: 1px solid var(--sub-border);
  border-top: 3px solid color-mix(in srgb, var(--lane) 40%, var(--sub-border));
}
/* hand-off arrow from your action to ImmPort's response */
.sub-lane-you::after {
  content: "\2193";
  position: absolute;
  left: 50%;
  bottom: -0.72rem;
  transform: translateX(-50%);
  font-size: 0.7rem;
  line-height: 1;
  color: var(--sub-muted);
  z-index: 1;
}
.sub-lane-result {
  align-self: start;
  font-weight: 700;
  color: var(--lane);
  padding-left: 1.2rem;
}
.sub-lane-result::before {
  content: "\2714";
  position: absolute;
  left: 0.2rem;
}
.sub-lane-you::before,
.sub-lane-immport::before {
  content: attr(data-label);
  display: none;
  font-size: 0.6rem;
  font-weight: 700;
  letter-spacing: 0.06em;
  text-transform: uppercase;
  color: var(--sub-muted);
  margin-bottom: 0.15rem;
}

/* Privacy bar under the lanes, in the same colors */
.sub-lane-privacy {
  grid-column: 2 / -1;
  grid-row: 5;
  display: flex;
  justify-content: space-between;
  padding-top: 0.55rem;
  position: relative;
  font-size: 0.62rem;
  font-weight: 700;
  letter-spacing: 0.04em;
  text-transform: uppercase;
}
.sub-lane-privacy::before {
  content: "";
  position: absolute;
  top: 0;
  left: 0;
  right: 0;
  height: 5px;
  border-radius: 3px;
  background: linear-gradient(90deg,
    var(--sub-lane-1) 0%, var(--sub-lane-2) 20%, var(--sub-lane-3) 40%,
    var(--sub-lane-4) 76%, var(--sub-lane-5) 84%);
}
.sub-lane-privacy span:first-child { color: var(--sub-lane-3); }
.sub-lane-privacy span:last-child { color: var(--sub-lane-5); }

@media (max-width: 900px) {
  .sub-lanes { display: block; }
  .sub-lane-privacy { display: none; }
  .md-typeset .sub-lanes > ol > li { border-left: 3px solid var(--lane); padding-left: 0.8rem !important; }
  .sub-lane-step::before { left: -0.15rem; }
  .sub-lane-label { display: none; }
  .md-typeset .sub-lanes > ol { display: block; margin: 0; padding: 0; }
  .md-typeset .sub-lanes > ol > li {
    display: block;
    margin: 0 0 1.2rem;
    padding-left: 0;
  }
  .sub-lane-cell { margin-top: 0.75rem; }
  .sub-lane-you::before,
  .sub-lane-immport::before { display: block; }
  .sub-lanes > ol > li .sub-lane-step::after { display: none; }
  .md-typeset .sub-lane-step { padding: 0.35rem 0 0 2.6rem; min-height: 1.9rem; }
}

/* ---------- Badges, IDs ---------- */
.md-typeset .sub-badge {
  display: inline-block;
  font-size: 0.68rem;
  font-weight: 600;
  line-height: 1.5;
  padding: 0 0.45rem;
  border-radius: 1rem;
  border: 1px solid var(--sub-border);
  color: var(--sub-muted);
  white-space: nowrap;
  vertical-align: middle;
}
.md-typeset .sub-badge--required { border-color: var(--sub-ok); color: var(--sub-ok); }
.md-typeset .sub-badge--optional { border-style: dashed; }
.md-typeset .sub-badge--legacy { border-color: var(--sub-warn); color: var(--sub-warn); }
.md-typeset .sub-id {
  font-family: var(--md-code-font-family);
  font-size: 0.72rem;
  font-weight: 700;
  color: var(--sub-accent);
  white-space: nowrap;
}

/* ---------- Filter toolbar (catalog, errors) ---------- */
.sub-toolbar {
  display: flex;
  flex-wrap: wrap;
  align-items: center;
  gap: 0.5rem;
  margin: 1rem 0 0.6rem;
}
.md-typeset .sub-toolbar input[type="search"] {
  flex: 1 1 16rem;
  min-width: 0;
  font: inherit;
  font-size: 0.7rem;
  padding: 0.45rem 0.7rem;
  border: 1px solid var(--sub-border);
  border-radius: var(--sub-radius);
  background: var(--md-default-bg-color);
  color: var(--md-default-fg-color);
}
.md-typeset .sub-toolbar select {
  font: inherit;
  font-size: 0.75rem;
  padding: 0.35rem 0.5rem;
  border: 1px solid var(--sub-border);
  border-radius: var(--sub-radius);
  background: var(--md-default-bg-color);
  color: var(--md-default-fg-color);
}
.md-typeset .sub-toolbar input[type="search"]:focus {
  outline: 2px solid var(--sub-accent);
  outline-offset: -1px;
}
.md-typeset .sub-chip {
  font: inherit;
  font-size: 0.64rem;
  padding: 0.25rem 0.7rem;
  border: 1px solid var(--sub-border);
  border-radius: 1rem;
  background: var(--md-default-bg-color);
  color: var(--md-default-fg-color);
  cursor: pointer;
}
.md-typeset .sub-chip:hover { border-color: var(--sub-accent); }
.md-typeset .sub-chip[aria-pressed="true"] {
  background: var(--sub-accent);
  border-color: var(--sub-accent);
  color: var(--md-primary-bg-color);
}
.sub-count {
  font-size: 0.72rem;
  color: var(--sub-muted);
  margin-left: auto;
}
/* Material only styles class-less tables, so mirror its look here */
.md-typeset table.sub-table {
  display: table;
  width: 100%;
  font-size: 0.64rem;
  border: 1px solid var(--sub-border);
  border-radius: 0.1rem;
  border-collapse: separate;
  border-spacing: 0;
  background: var(--md-default-bg-color);
}
.md-typeset table.sub-table th {
  font-weight: 700;
  text-align: left;
  padding: 0.9em 1em;
  background: var(--sub-surface);
}
.md-typeset table.sub-table td {
  padding: 0.75em 1em;
  border-top: 1px solid var(--sub-border);
}
.md-typeset table.sub-table tbody tr:hover { background: color-mix(in srgb, var(--sub-accent) 4%, transparent); }
.md-typeset table.sub-table td,
.md-typeset table.sub-table th { vertical-align: top; }
.md-typeset #error-table td:first-child,
.md-typeset #rules-table td:first-child { width: 3.5rem; }
.md-typeset #error-table td:nth-child(2) { width: 24%; }
.md-typeset #template-catalog td:first-child { width: 28%; }
.md-typeset #template-catalog td:nth-child(3) { width: 12%; }
.md-typeset #template-catalog td:nth-child(4) { width: 9rem; }
.md-typeset table.sub-table code { white-space: nowrap; }
.md-typeset .sub-dl a {
  display: inline-block;
  margin: 0 0.35rem 0.2rem 0;
  font-size: 0.72rem;
  font-weight: 600;
}

/* ---------- Assay workflows ---------- */
.sub-assay-picker {
  display: flex;
  flex-wrap: wrap;
  gap: 0.4rem;
  margin: 0.8rem 0 1.2rem;
}
.md-typeset .sub-assay-picker a {
  font-size: 0.72rem;
  padding: 0.2rem 0.65rem;
  border: 1px solid var(--sub-border);
  border-radius: 1rem;
  color: var(--md-default-fg-color);
}
.md-typeset .sub-assay-picker a:hover { border-color: var(--sub-accent); color: var(--sub-accent); }

.md-typeset details.sub-assay {
  border: 1px solid var(--sub-border);
  border-radius: var(--sub-radius);
  margin: 0.6rem 0;
  padding: 0;
  background: var(--md-default-bg-color);
  box-shadow: none;
  font-size: inherit;
}
.md-typeset details.sub-assay > summary {
  cursor: pointer;
  padding: 0.65rem 1rem;
  font-weight: 700;
  list-style: none;
  background: none;
  display: flex;
  flex-wrap: wrap;
  align-items: center;
  gap: 0.5rem;
}
.md-typeset details.sub-assay > summary::-webkit-details-marker { display: none; }
.md-typeset details.sub-assay > summary::before {
  content: "\25B8";
  color: var(--sub-accent);
  transition: transform 0.15s ease;
  position: static;
  width: auto;
  height: auto;
  background: none;
  mask: none;
  -webkit-mask: none;
}
.md-typeset details.sub-assay[open] > summary::before { transform: rotate(90deg); }
.md-typeset details.sub-assay > summary::after { display: none; }
.sub-assay-body { padding: 0.2rem 1rem 0.8rem; }
.md-typeset .sub-assay-body p { margin: 0.6rem 0 0; font-size: 0.78rem; }

/* Flow: vertical sequence of steps */
.sub-flow {
  display: flex;
  flex-direction: column;
  align-items: flex-start;
  gap: 0;
  margin: 0.6rem 0 0.2rem;
}
.sub-flow > *:not(:last-child),
.sub-flow-package > .sub-step:not(:last-child) {
  position: relative;
  margin-bottom: 1.1rem;
}
.sub-flow > *:not(:last-child)::after,
.sub-flow-package > .sub-step:not(:last-child)::after {
  content: "\2193";
  position: absolute;
  left: 1.1rem;
  bottom: -1.15rem;
  color: var(--sub-muted);
  font-size: 0.8rem;
  line-height: 1.1rem;
}
/* Two consecutive conditional steps inside a package are alternatives */
.sub-flow-package > .sub-step[data-when]:has(+ .sub-step[data-when])::after {
  content: "or";
  font-size: 0.68rem;
  font-weight: 700;
  color: var(--sub-warn);
}
.sub-flow-package {
  display: flex;
  flex-direction: column;
  align-items: flex-start;
  border: 2px dashed var(--sub-accent);
  border-radius: var(--sub-radius);
  padding: 1.4rem 0.8rem 0.8rem;
  position: relative;
}
.sub-flow-package::before {
  content: "Upload these together in one package";
  position: absolute;
  top: 0.25rem;
  left: 0.8rem;
  font-size: 0.65rem;
  font-weight: 700;
  letter-spacing: 0.04em;
  text-transform: uppercase;
  color: var(--sub-accent);
}
.sub-step {
  border: 1px solid var(--sub-border);
  border-left: 4px solid var(--sub-accent);
  border-radius: 6px;
  padding: 0.35rem 0.75rem;
  font-size: 0.78rem;
  background: var(--md-default-bg-color);
  max-width: 100%;
}
.sub-step[data-kind="file"] { border-left-color: var(--sub-muted); }
.sub-step[data-when] { border-style: dashed; border-left-style: solid; border-left-color: var(--sub-warn); }
.sub-step[data-when]::before {
  content: "If: " attr(data-when);
  display: block;
  font-size: 0.68rem;
  color: var(--sub-warn);
  font-weight: 600;
}

/* ---------- Template Finder ---------- */
.sub-finder {
  display: grid;
  grid-template-columns: minmax(0, 1.25fr) minmax(0, 1fr);
  gap: 1.5rem;
  align-items: start;
  border: 1px solid var(--sub-border);
  border-radius: var(--sub-radius);
  padding: 1rem 1.2rem;
  margin: 1rem 0 1.5rem;
}
.sub-finder fieldset {
  border: 0;
  margin: 0 0 1rem;
  padding: 0;
}
.sub-finder legend {
  font-weight: 700;
  font-size: 0.85rem;
  margin-bottom: 0.4rem;
  padding: 0;
}
.sub-finder .sub-hint {
  display: block;
  font-size: 0.72rem;
  color: var(--sub-muted);
  margin: -0.2rem 0 0.4rem;
}
.sub-options {
  display: flex;
  flex-wrap: wrap;
  gap: 0.4rem;
}
.sub-options label {
  display: inline-flex;
  align-items: center;
  gap: 0.35rem;
  font-size: 0.78rem;
  padding: 0.25rem 0.7rem;
  border: 1px solid var(--sub-border);
  border-radius: 1rem;
  cursor: pointer;
  user-select: none;
}
.sub-options label:hover { border-color: var(--sub-accent); }
.sub-options input { margin: 0; accent-color: var(--sub-accent); }
.sub-options label:has(input:checked) {
  border-color: var(--sub-accent);
  background: color-mix(in srgb, var(--sub-accent) 10%, transparent);
}
/* Checklist column stays in view while the questions scroll */
.sub-finder-result {
  position: sticky;
  top: 3.4rem;
  max-height: calc(100vh - 4.4rem);
  overflow-y: auto;
  padding: 0.2rem 0.2rem 0.2rem 1.2rem;
  border-left: 1px solid var(--sub-border);
}
@media (max-width: 960px) {
  .sub-finder { display: block; }
  .sub-finder-result {
    position: static;
    max-height: none;
    overflow: visible;
    margin-top: 1.4rem;
    padding: 1rem 0 0;
    border-left: 0;
    border-top: 1px solid var(--sub-border);
  }
}
.md-typeset .sub-finder-result h3 { margin-top: 0; }
.sub-package {
  border: 1px solid var(--sub-border);
  border-left: 4px solid var(--sub-accent);
  border-radius: var(--sub-radius);
  padding: 0.6rem 0.9rem;
  margin: 0 0 0.8rem;
}
.md-typeset .sub-package h4 {
  margin: 0 0 0.3rem;
  font-size: 0.85rem;
}
.md-typeset .sub-package ol { margin: 0.2rem 0 0.2rem 1.2rem; }
.md-typeset .sub-package li { margin: 0.15rem 0; font-size: 0.78rem; }
.md-typeset .sub-package .sub-when { color: var(--sub-warn); font-size: 0.72rem; }
.sub-package-note { font-size: 0.72rem; color: var(--sub-muted); }
.sub-actions { display: flex; gap: 0.5rem; flex-wrap: wrap; margin-top: 0.6rem; }
.md-typeset .sub-button {
  font: inherit;
  font-size: 0.75rem;
  font-weight: 600;
  padding: 0.35rem 0.9rem;
  border-radius: var(--sub-radius);
  border: 1px solid var(--sub-accent);
  background: var(--sub-accent);
  color: var(--md-primary-bg-color);
  cursor: pointer;
}
.md-typeset .sub-button--ghost { background: transparent; color: var(--sub-accent); }