/* Atlas Brand Identity & Design System v1.0 — token layer. Dark is this console's default surface (an operations instrument meant to be watched for long stretches — the brand's own "Mission Control" personality reference). Anyone whose OS/browser prefers light gets the real light theme below, not a degraded version of the dark one. */ :root { --bg: #0e161f; --bg-grid: repeating-linear-gradient(0deg, rgba(124, 169, 209, 0.05) 0 1px, transparent 1px 88px), repeating-linear-gradient(90deg, rgba(124, 169, 209, 0.05) 0 1px, transparent 1px 88px); --panel: #141f2b; --panel-strong: #1b2836; --panel-elevated: #101923; --card-bg: #101923; --chip-bg: #182430; --text: #e4eaf0; --muted: #7c8ca0; --border: #263444; --border-strong: #33455a; --shadow: 0 1px 2px rgba(0, 0, 0, 0.4), 0 6px 20px rgba(0, 0, 0, 0.28); --primary: #7ca9d1; --primary-dark: #b9d3e8; --primary-fill: #1f4e79; --teal: #2dd4c4; --danger: #f2879a; --danger-fill: #dc2626; --success: #6fd79b; --success-fill: #22c55e; --warning: #f5c177; --warning-fill: #f59e0b; --info: #7fa8f0; --info-fill: #2563eb; --label: #93a9c4; --success-text: #a8ecc7; --success-bg: #16332a; --success-bg-subtle: #122922; --success-border: rgba(111, 215, 155, 0.4); --warning-text: #fbd9a6; --warning-bg: #3a2e1b; --warning-bg-subtle: #2c2416; --warning-border: rgba(245, 193, 119, 0.4); --danger-text: #fac3ce; --danger-bg: #3a1b22; --danger-bg-subtle: #2c161b; --danger-border: rgba(242, 135, 154, 0.4); --info-text: #c6d8fa; --info-bg: #1b2740; --info-bg-subtle: #182234; --info-border: rgba(127, 168, 240, 0.4); --neutral-chip-bg: #182430; --neutral-chip-text: #c7d6e6; } @media (prefers-color-scheme: light) { :root { --bg: #f8fafc; --bg-grid: repeating-linear-gradient(0deg, rgba(31, 78, 121, 0.05) 0 1px, transparent 1px 88px), repeating-linear-gradient(90deg, rgba(31, 78, 121, 0.05) 0 1px, transparent 1px 88px); --panel: #ffffff; --panel-strong: #eef2f6; --panel-elevated: #f1f5f9; --card-bg: #ffffff; --chip-bg: #eef2f6; --text: #334155; --muted: #64748b; --border: #dce3ea; --border-strong: #c3ceda; --shadow: 0 1px 2px rgba(31, 78, 121, 0.06), 0 1px 1px rgba(31, 78, 121, 0.04); --primary: #1f4e79; --primary-dark: #2f6394; --primary-fill: #1f4e79; --teal: #14b8a6; --danger: #dc2626; --danger-fill: #dc2626; --success: #16a34a; --success-fill: #22c55e; --warning: #b45309; --warning-fill: #f59e0b; --info: #2563eb; --info-fill: #2563eb; --label: #47607f; --success-text: #15803d; --success-bg: #dcfce7; --success-bg-subtle: #eafbf0; --success-border: rgba(21, 128, 61, 0.3); --warning-text: #b45309; --warning-bg: #fef3c7; --warning-bg-subtle: #fff8e6; --warning-border: rgba(180, 83, 9, 0.3); --danger-text: #b91c1c; --danger-bg: #fee2e2; --danger-bg-subtle: #fef0f0; --danger-border: rgba(185, 28, 28, 0.3); --info-text: #1d4ed8; --info-bg: #dbeafe; --info-bg-subtle: #eaf2fe; --info-border: rgba(29, 78, 216, 0.3); --neutral-chip-bg: #eef2f6; --neutral-chip-text: #334155; } } /* Manual override via the theme-toggle button (atlas-os.js sets data-theme on and persists the choice to localStorage). Higher specificity than the bare :root rules above, so it wins in both directions regardless of the OS/browser's prefers-color-scheme. */ :root[data-theme="dark"] { --bg: #0e161f; --bg-grid: repeating-linear-gradient(0deg, rgba(124, 169, 209, 0.05) 0 1px, transparent 1px 88px), repeating-linear-gradient(90deg, rgba(124, 169, 209, 0.05) 0 1px, transparent 1px 88px); --panel: #141f2b; --panel-strong: #1b2836; --panel-elevated: #101923; --card-bg: #101923; --chip-bg: #182430; --text: #e4eaf0; --muted: #7c8ca0; --border: #263444; --border-strong: #33455a; --shadow: 0 1px 2px rgba(0, 0, 0, 0.4), 0 6px 20px rgba(0, 0, 0, 0.28); --primary: #7ca9d1; --primary-dark: #b9d3e8; --primary-fill: #1f4e79; --teal: #2dd4c4; --danger: #f2879a; --danger-fill: #dc2626; --success: #6fd79b; --success-fill: #22c55e; --warning: #f5c177; --warning-fill: #f59e0b; --info: #7fa8f0; --info-fill: #2563eb; --label: #93a9c4; --success-text: #a8ecc7; --success-bg: #16332a; --success-bg-subtle: #122922; --success-border: rgba(111, 215, 155, 0.4); --warning-text: #fbd9a6; --warning-bg: #3a2e1b; --warning-bg-subtle: #2c2416; --warning-border: rgba(245, 193, 119, 0.4); --danger-text: #fac3ce; --danger-bg: #3a1b22; --danger-bg-subtle: #2c161b; --danger-border: rgba(242, 135, 154, 0.4); --info-text: #c6d8fa; --info-bg: #1b2740; --info-bg-subtle: #182234; --info-border: rgba(127, 168, 240, 0.4); --neutral-chip-bg: #182430; --neutral-chip-text: #c7d6e6; } :root[data-theme="light"] { --bg: #f8fafc; --bg-grid: repeating-linear-gradient(0deg, rgba(31, 78, 121, 0.05) 0 1px, transparent 1px 88px), repeating-linear-gradient(90deg, rgba(31, 78, 121, 0.05) 0 1px, transparent 1px 88px); --panel: #ffffff; --panel-strong: #eef2f6; --panel-elevated: #f1f5f9; --card-bg: #ffffff; --chip-bg: #eef2f6; --text: #334155; --muted: #64748b; --border: #dce3ea; --border-strong: #c3ceda; --shadow: 0 1px 2px rgba(31, 78, 121, 0.06), 0 1px 1px rgba(31, 78, 121, 0.04); --primary: #1f4e79; --primary-dark: #2f6394; --primary-fill: #1f4e79; --teal: #14b8a6; --danger: #dc2626; --danger-fill: #dc2626; --success: #16a34a; --success-fill: #22c55e; --warning: #b45309; --warning-fill: #f59e0b; --info: #2563eb; --info-fill: #2563eb; --label: #47607f; --success-text: #15803d; --success-bg: #dcfce7; --success-bg-subtle: #eafbf0; --success-border: rgba(21, 128, 61, 0.3); --warning-text: #b45309; --warning-bg: #fef3c7; --warning-bg-subtle: #fff8e6; --warning-border: rgba(180, 83, 9, 0.3); --danger-text: #b91c1c; --danger-bg: #fee2e2; --danger-bg-subtle: #fef0f0; --danger-border: rgba(185, 28, 28, 0.3); --info-text: #1d4ed8; --info-bg: #dbeafe; --info-bg-subtle: #eaf2fe; --info-border: rgba(29, 78, 216, 0.3); --neutral-chip-bg: #eef2f6; --neutral-chip-text: #334155; } * { box-sizing: border-box; } html, body { margin: 0; min-height: 100%; } body { background: var(--bg-grid), var(--bg); color: var(--text); font-family: "Inter", "Segoe UI", -apple-system, BlinkMacSystemFont, sans-serif; } h1, h2, h3, p { margin-top: 0; } h1, h2, .assist-title, .health-status, .card-title { font-family: "IBM Plex Sans", "Segoe UI", sans-serif; } code, .mono, .explanation-json { font-family: "IBM Plex Mono", ui-monospace, SFMono-Regular, Menlo, Consolas, monospace; font-variant-numeric: tabular-nums; } .atlas-shell { display: grid; gap: 20px; grid-template-columns: 240px minmax(0, 1fr) 300px; min-height: 100vh; padding: 18px; } .atlas-sidebar, .legacy-context-panel, .command-bar, .panel, .stat-card, .command-palette .palette-shell { background: var(--panel); border: 1px solid var(--border); border-radius: 6px; box-shadow: var(--shadow); } .atlas-sidebar { display: grid; gap: 22px; grid-template-rows: auto 1fr; padding: 20px; position: sticky; top: 18px; height: calc(100vh - 36px); } .brand-lockup { align-items: center; display: flex; gap: 10px; margin-bottom: 6px; } .brand-mark { color: var(--primary-fill); flex-shrink: 0; height: 30px; width: 30px; } .auth-gate-card .brand-lockup { margin-bottom: 4px; } .auth-gate-card .brand-mark { height: 34px; width: 34px; } .brand h1 { font-size: 1.4rem; letter-spacing: 0.02em; margin: 0; } .eyebrow { color: var(--teal); font-size: 0.64rem; font-weight: 700; letter-spacing: 0.14em; margin-bottom: 2px; text-transform: uppercase; } .subhead { color: var(--muted); font-size: 0.92rem; line-height: 1.45; margin-bottom: 0; } .brand-descriptor { color: var(--muted); font-family: "IBM Plex Mono", monospace; font-size: 0.6rem; letter-spacing: 0.1em; margin: 3px 0 0; text-transform: uppercase; } .brand-tagline { color: var(--primary-dark); font-family: "IBM Plex Mono", monospace; font-size: 0.76rem; line-height: 1.5; } .auth-gate-card .brand-tagline { font-size: 0.86rem; margin: 10px 0 14px; } .atlas-nav { display: grid; gap: 4px; min-height: 0; overflow-y: auto; } .nav-category { background: transparent; border: 1px solid transparent; border-left: 2px solid transparent; border-radius: 3px; color: var(--muted); cursor: pointer; font-size: 0.92rem; font-weight: 700; letter-spacing: 0.01em; padding: 10px 12px; text-align: left; transition: background 120ms ease, color 120ms ease, border-color 120ms ease; } .nav-category:hover { background: var(--chip-bg); color: var(--text); } .nav-category.active { background: var(--chip-bg); border-left-color: var(--primary-fill); color: var(--text); } .tiny-button { font-size: 0.72rem; padding: 6px 8px; } .child-tabs { background: var(--panel); border: 1px solid var(--border); border-radius: 6px; box-shadow: var(--shadow); padding: 6px; } .child-tab-group { display: none; flex-wrap: wrap; gap: 4px; } .child-tab-group.active { display: flex; } .nav-item { background: transparent; border: 1px solid transparent; border-bottom: 2px solid transparent; border-radius: 3px; color: var(--muted); cursor: pointer; font-size: 0.86rem; font-weight: 600; padding: 8px 12px; text-align: left; transition: background 120ms ease, color 120ms ease, border-color 120ms ease; } .nav-item:hover { background: var(--chip-bg); color: var(--text); } .nav-item.active { background: var(--chip-bg); border-bottom-color: var(--primary-fill); color: var(--text); } .atlas-main { display: grid; gap: 16px; grid-template-rows: auto minmax(0, 1fr); min-width: 0; } .command-bar { align-items: center; display: flex; justify-content: space-between; padding: 14px; } .command-trigger { background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 4px; color: var(--muted); cursor: pointer; font-size: 0.9rem; font-weight: 600; padding: 10px 14px; width: min(450px, 100%); } .command-bar-right { align-items: center; display: flex; gap: 10px; } .theme-toggle { align-items: center; background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 999px; color: var(--muted); display: inline-flex; font-family: "IBM Plex Mono", monospace; font-size: 0.7rem; font-weight: 600; gap: 6px; letter-spacing: 0.04em; padding: 7px 12px; text-transform: uppercase; } .theme-toggle:hover { border-color: var(--border-strong); color: var(--text); } .theme-toggle svg { height: 14px; width: 14px; } .status-pill { background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 999px; color: var(--muted); font-family: "IBM Plex Mono", monospace; font-size: 0.7rem; font-weight: 600; letter-spacing: 0.06em; padding: 7px 12px; text-transform: uppercase; } .status-pill.ok { border-color: color-mix(in srgb, var(--teal) 40%, var(--border)); color: var(--teal); } .status-pill.bad { border-color: color-mix(in srgb, var(--danger-fill) 40%, var(--border)); color: var(--danger); } .status-banner { background: var(--warning-bg); border: 1px solid var(--warning-border); border-radius: 4px; color: var(--text); font-size: 0.85rem; font-weight: 600; margin: 0 24px 12px; padding: 10px 16px; } .status-banner.hidden { display: none; } .workspace { overflow: auto; padding-right: 2px; } .view { display: none; animation: fade-in 200ms ease; } .view.active { display: grid; gap: 16px; } @keyframes fade-in { from { opacity: 0; transform: translateY(4px); } to { opacity: 1; transform: translateY(0); } } .panel { padding: 18px; } .panel-secondary { background: var(--panel-elevated); border-color: var(--border); box-shadow: none; padding: 14px; } .panel-secondary .section-title { font-size: 0.66rem; opacity: 0.85; } .panel-header { align-items: flex-start; display: flex; gap: 14px; justify-content: space-between; } h2 { margin-bottom: 8px; } .stat-grid, .dual-grid, .triple-grid, .chart-grid, .card-grid { display: grid; gap: 12px; } .stat-grid { grid-template-columns: repeat(4, minmax(0, 1fr)); } .reference-photo-thumb { width: 100%; height: 160px; object-fit: cover; border-radius: 6px; background: var(--panel-elevated); } .dual-grid, .triple-grid, .chart-grid { align-items: start; } .dual-grid { grid-template-columns: repeat(2, minmax(0, 1fr)); } .triple-grid { grid-template-columns: repeat(3, minmax(0, 1fr)); } .chart-grid { grid-template-columns: repeat(2, minmax(0, 1fr)); } .card-grid { grid-template-columns: repeat(auto-fill, minmax(220px, 1fr)); } .stat-card { border-radius: 6px; padding: 16px; } .stat-card p { color: var(--muted); font-size: 0.8rem; font-weight: 600; letter-spacing: 0.06em; margin-bottom: 8px; text-transform: uppercase; } .stat-card strong { color: var(--text); font-size: 1.62rem; } .chart-card { display: grid; gap: 10px; } .chart-card strong { color: var(--primary-dark); font-size: 1.4rem; } .insight-list, .timeline { display: grid; gap: 10px; } .list-pagination { align-items: center; display: flex; flex-wrap: wrap; gap: 10px; grid-column: 1 / -1; justify-content: space-between; padding-top: 4px; } .list-pagination .button-row { align-items: center; gap: 8px; } .insight-item, .timeline-item, .bird-card { background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; padding: 12px; } .insight-item { display: grid; gap: 8px; } .advisor-card, .advisor-feed-item, .task-card, .project-card, .knowledge-card { transition: transform 140ms ease, box-shadow 140ms ease; } .advisor-card:hover, .advisor-feed-item:hover, .task-card:hover, .project-card:hover, .knowledge-card:hover { border-color: var(--border-strong); } .advisor-card.priority-high { border-color: var(--danger-border); } .advisor-card.priority-medium { border-color: var(--warning-border); } .advisor-card.priority-low { border-color: var(--success-border); } .reason-list { color: var(--muted); margin: 8px 0 0; padding-left: 18px; } .insight-header { align-items: center; display: flex; justify-content: space-between; } .insight-high { border-color: var(--danger-border); } .insight-medium { border-color: var(--warning-border); } .insight-low { border-color: var(--success-border); } .timeline-item { border-left: 3px solid var(--border-strong); } .timeline-item.unread { border-left-color: var(--primary-fill); } .explanation-json { white-space: pre-wrap; word-break: break-word; font-size: 0.82rem; background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 4px; padding: 10px; margin: 6px 0 0; } .notification-item { display: grid; gap: 8px; } .metric-bar { background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 999px; height: 8px; overflow: hidden; } .metric-bar span { background: var(--primary-fill); display: block; height: 100%; } .mini-area { width: 100%; height: 74px; } .mini-area-fill { fill: color-mix(in srgb, var(--primary-fill) 16%, transparent); } .mini-area-line { fill: none; stroke: var(--primary-fill); stroke-width: 2; stroke-linecap: round; stroke-linejoin: round; } .legacy-context-panel { padding: 18px; position: sticky; top: 18px; height: calc(100vh - 36px); overflow: auto; } .context-tabs { display: flex; flex-wrap: wrap; gap: 6px; margin-bottom: 12px; } .context-tab { background: var(--chip-bg); border: 1px solid transparent; border-radius: 3px; color: var(--muted); font-size: 0.72rem; padding: 7px 8px; } .context-tab.active { border-color: var(--primary-fill); color: var(--text); } .evidence-subnav { display: flex; flex-wrap: wrap; gap: 8px; } .chip { background: var(--chip-bg); border: 1px solid var(--border); border-radius: 999px; color: var(--muted); font-size: 0.74rem; font-weight: 600; padding: 6px 10px; } .chip.active { border-color: var(--primary-fill); color: var(--text); } .chip-link { cursor: pointer; font-family: inherit; } .quick-nav { background: var(--panel); border-bottom: 1px solid var(--border); display: flex; flex-wrap: wrap; gap: 6px; margin: 0 0 16px; padding: 10px 0; position: sticky; top: 0; z-index: 1; } /* Keeps a jump target from landing directly under the sticky .quick-nav bar. */ .anchor-marker { display: block; } .anchor-marker, .panel { scroll-margin-top: 56px; } .chip-link:hover { border-color: var(--primary-fill); color: var(--text); } .layout { display: grid; gap: 12px; grid-template-columns: minmax(260px, 340px) minmax(300px, 1fr) minmax(320px, 560px); } .graph-shell { background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; margin-top: 8px; overflow: hidden; } #relationshipGraph, #graphExplorerCanvas, #researcherWorkspaceDecisionGraphCanvas, #geneticsRelationshipMap, #populationAncestryTree { display: block; height: auto; user-select: none; width: 100%; } #graphExplorerCanvas, #researcherWorkspaceDecisionGraphCanvas, #geneticsRelationshipMap, #populationAncestryTree { background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 4px; margin-bottom: 12px; } .graph-edge { opacity: 0.35; stroke: var(--border-strong); stroke-width: 1.3; } .graph-edge.edge-active { opacity: 0.9; stroke: var(--primary); stroke-width: 2; } .graph-node { cursor: pointer; } .graph-node text { fill: var(--muted); font-family: "IBM Plex Sans", sans-serif; font-size: 10px; pointer-events: none; } .graph-node-dot { fill: var(--panel-elevated); stroke: var(--primary); stroke-width: 1.6; } .graph-node-dot.type-bird { fill: var(--success-bg); stroke: var(--success); } .graph-node-dot.type-evidence { fill: var(--info-bg); stroke: var(--info); } .graph-node-dot.type-trait { fill: var(--warning-bg); stroke: var(--warning); } .graph-node-dot.type-gene { fill: var(--panel-strong); stroke: var(--teal); } .graph-node-dot.type-validation-job { fill: var(--danger-bg); stroke: var(--danger); } .graph-node-dot.type-project { fill: var(--info-bg-subtle); stroke: var(--primary); } .graph-node-dot.type-knowledge { fill: var(--warning-bg-subtle); stroke: var(--warning-text); } .graph-node-dot.type-staff { fill: var(--success-bg); stroke: var(--success); } .graph-node-dot.type-role { fill: var(--panel-strong); stroke: var(--teal); } .graph-node-dot.type-work-product { fill: var(--info-bg); stroke: var(--info); } .graph-node-dot.type-review-step { fill: var(--warning-bg); stroke: var(--warning); } .graph-node-dot.type-escalation { fill: var(--danger-bg); stroke: var(--danger); } .graph-node-dot.type-locus { fill: var(--info-bg-subtle); stroke: var(--primary); } .graph-node-dot.type-allele { fill: var(--panel-strong); stroke: var(--teal); } .graph-node-dot.type-genotype { fill: var(--success-bg); stroke: var(--success); } .graph-node-dot.type-phenotype { fill: var(--warning-bg); stroke: var(--warning); } .graph-node-dot.type-inheritance-rule { fill: var(--danger-bg); stroke: var(--danger); } .graph-node.node-unmodeled .graph-node-dot { opacity: 0.5; stroke-dasharray: 3 2; } .graph-node:hover .graph-node-dot, .graph-node.node-hover-related .graph-node-dot { stroke-width: 2.4; } .graph-node.node-selected .graph-node-dot { stroke-width: 3; } .graph-node.node-related .graph-node-dot { opacity: 1; } .workflow-builder { background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 4px; display: grid; gap: 10px; margin-top: 10px; min-height: 240px; padding: 12px; } .workflow-node { align-items: center; background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; display: grid; gap: 8px; justify-items: center; padding: 10px; } .workflow-arrow { color: var(--muted); font-weight: 700; } label { color: var(--muted); display: grid; font-size: 0.76rem; font-weight: 700; gap: 6px; letter-spacing: 0.06em; margin-bottom: 12px; text-transform: uppercase; } input, textarea, select { background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 4px; color: var(--text); font: inherit; min-width: 0; padding: 10px; width: 100%; } input:focus, textarea:focus, select:focus { outline: 2px solid var(--primary-fill); outline-offset: 1px; } textarea { resize: vertical; } button { border: 1px solid transparent; border-radius: 4px; color: inherit; cursor: pointer; font-family: inherit; font-size: 0.84rem; font-weight: 600; padding: 10px 12px; transition: background 120ms ease, border-color 120ms ease, color 120ms ease; } .primary { background: var(--primary-fill); color: #ffffff; } .primary:hover { background: color-mix(in srgb, var(--primary-fill) 88%, black); } .secondary { background: transparent; border-color: var(--primary); color: var(--primary); } .secondary:hover { background: var(--chip-bg); } .danger { background: transparent; border-color: var(--danger); color: var(--danger); } .danger:hover { background: var(--danger-bg-subtle); } .ghost { background: transparent; border-color: transparent; color: var(--muted); } .ghost:hover { background: var(--chip-bg); color: var(--text); } .button-row, .review-actions { display: flex; flex-wrap: wrap; gap: 8px; } .live-query-row { display: flex; flex-wrap: wrap; align-items: flex-end; gap: 12px; margin-bottom: 16px; } .live-query-row label { display: flex; flex-direction: column; gap: 4px; font-size: 12px; color: var(--muted); min-width: 220px; } .live-query-row input { padding: 8px 10px; border-radius: 4px; border: 1px solid var(--border); background: var(--panel-elevated); color: var(--text); font-size: 14px; } .live-status-error { color: var(--danger); } .live-status-ok { color: var(--success); } .link-button { background: none; border: none; padding: 0; color: var(--primary); cursor: pointer; font-size: inherit; text-decoration: underline; } .link-button:hover { color: var(--primary-dark); } .compact button { padding: 8px 10px; } .note, .muted, .meta { color: var(--muted); line-height: 1.5; } .note { font-size: 0.87rem; } .empty, .empty-state { border: 1px dashed var(--border-strong); border-radius: 4px; color: var(--muted); padding: 14px; } .workflow-tools { background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 4px; margin: 14px 0; padding: 12px; } .filter-chips { display: flex; flex-wrap: wrap; gap: 8px; } .filter-chip { background: var(--chip-bg); border: 1px solid transparent; color: var(--muted); } .filter-chip.active { background: var(--primary-fill); border-color: var(--primary-fill); color: #ffffff; } .submission-list { display: grid; gap: 10px; max-height: 68vh; overflow: auto; } .submission-card { background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; cursor: pointer; padding: 12px; text-align: left; } .submission-card:hover, .submission-card.active { border-color: var(--primary); } .card-title { color: var(--text); margin-bottom: 6px; } .badges { display: flex; flex-wrap: wrap; gap: 6px; margin-top: 8px; } .badge { background: var(--neutral-chip-bg); border: 1px solid var(--border-strong); border-radius: 999px; color: var(--neutral-chip-text); font-family: "IBM Plex Mono", monospace; font-size: 0.68rem; font-weight: 600; padding: 4px 8px; } .recent-activity { border-top: 1px solid var(--border); margin-top: 16px; padding-top: 14px; } .activity-list { display: grid; gap: 8px; } .activity-item { background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; color: var(--text); padding: 10px; text-align: left; } .detail-grid { display: grid; gap: 8px; margin-bottom: 14px; } .detail-row { border-bottom: 1px solid var(--border); display: grid; gap: 3px; padding-bottom: 8px; } .detail-key { color: var(--label); font-size: 0.7rem; font-weight: 700; letter-spacing: 0.1em; text-transform: uppercase; } .detail-value { color: var(--text); overflow-wrap: anywhere; white-space: pre-wrap; } .rule-health-panel, .evidence-summary-panel, .last-review, .segregation-panel { background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; margin-bottom: 14px; padding: 14px; } .segregation-count-list { display: grid; gap: 6px; margin: 10px 0; } .segregation-count-row { align-items: center; background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 4px; display: flex; font-size: 0.86rem; gap: 8px; justify-content: space-between; padding: 8px 10px; } .segregation-count-row strong { color: var(--text); } .segregation-count-row .meta { font-family: "IBM Plex Mono", monospace; font-size: 0.76rem; } .segregation-add-row { align-items: end; display: flex; flex-wrap: wrap; gap: 8px; margin-top: 10px; } .segregation-add-row input { width: auto; } .segregation-add-row input[data-segregation-field="phenotypeLabel"] { flex: 1 1 180px; } .segregation-add-row input[data-segregation-field="count"] { flex: 0 1 90px; } .segregation-totals { font-size: 0.8rem; margin-top: 8px; } .segregation-totals.match { color: var(--success); } .segregation-totals.mismatch { color: var(--warning); } .section-title { color: var(--label); font-size: 0.68rem; font-weight: 700; letter-spacing: 0.12em; margin-bottom: 7px; text-transform: uppercase; } /* Collapsible sections — every .panel > .section-title is a toggle (wired in atlas-os.js's wireCollapsiblePanels); collapsing hides everything in the panel except its own title bar. */ .panel > .section-title { align-items: center; border-radius: 4px; cursor: pointer; display: flex; gap: 8px; justify-content: space-between; margin: -4px -4px 7px; padding: 4px; } .panel > .section-title:hover { color: var(--text); } .panel > .section-title:focus-visible { outline: 2px solid var(--primary-fill); outline-offset: 1px; } .panel > .section-title::after { border: solid currentColor; border-width: 0 2px 2px 0; content: ""; display: inline-block; flex-shrink: 0; height: 6px; transform: rotate(45deg); transition: transform 0.15s ease; width: 6px; } .panel.collapsed > .section-title::after { transform: rotate(-45deg); } .panel.collapsed > *:not(.section-title) { display: none; } @media (prefers-reduced-motion: reduce) { .panel > .section-title::after { transition: none; } } .section-subtitle { color: var(--muted); font-size: 0.62rem; font-weight: 700; letter-spacing: 0.1em; margin-bottom: 6px; text-transform: uppercase; } .health-status { color: var(--primary-dark); font-size: 1.1rem; margin-bottom: 8px; } .mini-grid { display: grid; gap: 8px; grid-template-columns: repeat(4, minmax(0, 1fr)); margin: 10px 0; } .mini-grid div { background: var(--panel-strong); border: 1px solid var(--border-strong); border-radius: 4px; display: grid; gap: 2px; padding: 8px; } .mini-grid span { color: var(--muted); font-size: 0.68rem; font-weight: 600; text-transform: uppercase; } .promotion-note { border-left: 3px solid var(--primary); color: var(--primary-dark); font-weight: 600; padding-left: 8px; } .rule-supported { border-color: var(--success-border); } .rule-watch, .rule-caution { border-color: var(--warning-border); } .rule-critical { border-color: var(--danger-border); } .last-review { border-color: var(--success-border); } .bird-card { display: grid; gap: 8px; cursor: pointer; text-align: left; width: 100%; } .bird-card .meta { font-size: 0.76rem; } .bird-head { align-items: center; display: flex; gap: 10px; } .bird-avatar { align-items: center; background: var(--panel-strong); border: 1px solid var(--border-strong); border-radius: 4px; color: var(--primary); display: grid; font-weight: 700; height: 44px; justify-content: center; width: 44px; } .hidden { display: none !important; } .checkbox-row { display: flex; align-items: center; gap: 8px; flex-direction: row; } .checkbox-row input[type="checkbox"] { width: auto; } .evidence-select-checkbox { position: absolute; top: 12px; right: 12px; width: 18px; height: 18px; } .queue-card { position: relative; } .command-palette { background: transparent; border: 0; inset: 0; margin: auto; max-width: 760px; padding: 0; width: calc(100vw - 32px); } .command-palette::backdrop { background: rgba(3, 8, 17, 0.6); } .palette-shell { border-radius: 6px; display: grid; gap: 10px; padding: 14px; } .palette-results { max-height: 50vh; overflow: auto; } .palette-result { background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; cursor: pointer; display: grid; gap: 4px; margin-bottom: 8px; padding: 10px; text-align: left; } .palette-result:hover { border-color: var(--border-strong); } .palette-result-selected { border-color: var(--primary); } .result-head { align-items: center; display: flex; gap: 8px; } .entity-icon { align-items: center; background: var(--panel-strong); border: 1px solid var(--border-strong); border-radius: 3px; color: var(--primary-dark); display: inline-flex; font-size: 0.68rem; font-weight: 700; height: 18px; justify-content: center; width: 18px; } .matrix { display: grid; gap: 8px; } .matrix-row { align-items: center; background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; display: grid; gap: 8px; grid-template-columns: repeat(4, minmax(0, 1fr)); padding: 10px; } .matrix-row span { color: var(--muted); font-size: 0.76rem; font-weight: 700; text-transform: uppercase; } .matrix-row strong { color: var(--primary-dark); font-size: 1.08rem; } .reasoning-header { align-items: center; display: flex; justify-content: space-between; margin-bottom: 10px; } .reasoning-stages { display: grid; gap: 8px; } .reasoning-stage { background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; display: grid; gap: 6px; padding: 8px; } .reasoning-stage > div:first-child { align-items: center; display: flex; justify-content: space-between; } .reasoning-stage.active { border-color: var(--teal); } .knowledge-card { cursor: pointer; text-align: left; } .project-card { cursor: pointer; text-align: left; } .task-card, .advisor-card, .project-card, .knowledge-card, .notification-item { text-align: left; } .pedigree-tree { align-items: center; display: grid; gap: 10px; grid-template-columns: 1fr 36px 1fr 36px 1fr; } .pedigree-node { background: var(--card-bg); border: 1px solid var(--border); border-radius: 4px; display: grid; gap: 4px; padding: 10px; text-align: center; } .pedigree-node strong { color: var(--primary-dark); font-size: 0.9rem; } .pedigree-node span { color: var(--muted); font-size: 0.72rem; } .pedigree-node.offspring { border-color: var(--success-border); } .pedigree-link { background: var(--border-strong); height: 2px; } .toast { background: var(--panel-strong); border: 1px solid var(--border-strong); border-radius: 4px; bottom: 18px; color: var(--text); max-width: min(400px, calc(100vw - 36px)); padding: 12px; position: fixed; right: 18px; z-index: 30; box-shadow: var(--shadow); } .toast.bad { background: var(--danger-bg); border-color: var(--danger-border); color: var(--danger-text); } .toast.ok { background: var(--success-bg); border-color: var(--success-border); color: var(--success-text); } .wrap { flex-wrap: wrap; } .review-center-layout { align-items: start; } .artifact-card, .queue-card { cursor: pointer; text-align: left; } .active-artifact, .pair-card-selected, .bird-card-selected { border-color: var(--primary); } .bird-card-actions { margin-top: 8px; } .pair-card, .project-card { cursor: pointer; text-align: left; width: 100%; display: grid; gap: 8px; } .artifact-card-header, .artifact-review-header, .artifact-viewer-hero { align-items: center; display: flex; gap: 12px; justify-content: space-between; } .artifact-viewer-hero { align-items: flex-start; justify-content: flex-start; margin-bottom: 14px; } .artifact-image { align-items: center; background: var(--panel-strong); border: 1px solid var(--border-strong); border-radius: 4px; color: var(--primary-dark); display: inline-flex; font-family: "IBM Plex Sans", "Segoe UI", sans-serif; font-size: 1.2rem; font-weight: 700; height: 64px; justify-content: center; min-width: 64px; } .artifact-image-large { font-size: 1.8rem; height: 104px; min-width: 104px; } .artifact-detail-grid { margin-top: 12px; } .badge-success { background: var(--success-bg-subtle); border-color: var(--success-border); color: var(--success-text); } .badge-warning { background: var(--warning-bg-subtle); border-color: var(--warning-border); color: var(--warning-text); } .badge-danger { background: var(--danger-bg-subtle); border-color: var(--danger-border); color: var(--danger-text); } .badge-info { background: var(--info-bg-subtle); border-color: var(--info-border); color: var(--info-text); } .artifact-review-header { margin-bottom: 12px; } .artifact-review-header .tiny-button { width: auto; } @media (max-width: 1400px) { .atlas-shell { grid-template-columns: 220px minmax(0, 1fr); } .legacy-context-panel { display: none; } } @media (max-width: 1100px) { .layout, .triple-grid, .dual-grid, .chart-grid, .stat-grid { grid-template-columns: 1fr; } .submission-list { max-height: none; } } @media (max-width: 860px) { .atlas-shell { grid-template-columns: 1fr; padding: 12px; } .atlas-sidebar { height: auto; position: static; } .atlas-nav { display: flex; flex-wrap: wrap; gap: 6px; } .nav-category { border-left: none; border-bottom: 2px solid transparent; } .nav-category.active { border-bottom-color: var(--primary-fill); border-left-color: transparent; } } @media (max-width: 620px) { .child-tab-group { gap: 3px; } .button-row, .review-actions { flex-direction: column; } button { width: 100%; } .mini-grid { grid-template-columns: repeat(2, minmax(0, 1fr)); } .pedigree-tree { grid-template-columns: 1fr; } .pedigree-link { height: 20px; justify-self: center; width: 2px; } .artifact-card-header, .artifact-review-header, .artifact-viewer-hero { align-items: flex-start; flex-direction: column; } } /* Phase XXI.1: full-app login gate — shown instead of .atlas-shell until a real operator session exists (or is confirmed still valid on return). */ .auth-gate { align-items: center; background: var(--bg-grid), var(--bg); display: flex; inset: 0; justify-content: center; min-height: 100vh; padding: 24px; position: fixed; z-index: 40; } .auth-gate-card { background: var(--panel); border: 1px solid var(--border); border-radius: 6px; box-shadow: var(--shadow); padding: 32px; width: 100%; max-width: 420px; } .auth-gate-card .eyebrow { color: var(--primary); } .auth-gate-card h1 { margin: 4px 0 6px; } .auth-gate-tabs { border-bottom: 1px solid var(--border); display: flex; gap: 4px; margin: 20px 0 16px; } .auth-gate-tab { background: transparent; border: 0; border-bottom: 2px solid transparent; color: var(--muted); cursor: pointer; font-weight: 600; padding: 8px 4px 10px; } .auth-gate-tab.active { border-bottom-color: var(--primary); color: var(--text); } .auth-gate-form { display: grid; gap: 12px; } .auth-gate-form button[type="submit"] { margin-top: 4px; } /* Phase XXV: the universal Context Panel + Context Card. One slide-out, reused for every object type (researcher/investigation/publication/ executive) — see Context Card Specification for the contract every card follows regardless of which entity it's showing. */ .context-panel-backdrop { background: rgba(3, 8, 17, 0.55); inset: 0; position: fixed; z-index: 44; } .context-panel { background: var(--panel); border-left: 1px solid var(--border); box-shadow: var(--shadow); display: flex; flex-direction: column; inset: 0 0 0 auto; max-width: 92vw; overflow-y: auto; position: fixed; transform: translateX(100%); transition: transform 220ms ease; width: 440px; z-index: 45; } .context-panel.open { transform: translateX(0); } .context-panel-header { align-items: center; border-bottom: 1px solid var(--border); display: flex; justify-content: space-between; padding: 18px 20px; position: sticky; top: 0; background: var(--panel); } .context-panel-header h3 { margin: 0; } .context-panel-body { display: grid; gap: 16px; padding: 20px; } .context-card-identity { align-items: center; display: flex; gap: 10px; justify-content: space-between; } .context-card-identity h4 { margin: 0; } .context-card-section { display: grid; gap: 6px; } .context-card-section-label { color: var(--muted); font-size: 0.72rem; letter-spacing: 0.06em; text-transform: uppercase; } .context-card-summary { background: var(--panel-elevated); border: 1px solid var(--border); border-radius: 4px; line-height: 1.5; padding: 12px 14px; } .context-card-meta-row { color: var(--muted); display: flex; font-size: 0.85rem; gap: 6px; justify-content: space-between; } .context-card-related-list { display: grid; gap: 8px; } .context-card-actions { display: flex; gap: 8px; } .context-ask-form { display: flex; gap: 8px; } .context-manuscript-form { display: grid; gap: 12px; } .context-form-field { display: grid; gap: 4px; } .context-form-field span { font-size: 0.72rem; letter-spacing: 0.06em; text-transform: uppercase; } .context-form-field textarea { font-family: inherit; resize: vertical; width: 100%; } .context-ask-form input { flex: 1; } .context-ask-log { display: grid; gap: 10px; max-height: 260px; overflow-y: auto; } .context-ask-turn { border-radius: 4px; padding: 10px 12px; } .context-ask-turn.question { background: var(--panel-elevated); border: 1px solid var(--border); } .context-ask-turn.answer { border: 1px solid var(--primary); background: var(--info-bg-subtle); } /* A clickable object that opens the Context Panel — used on Institute page investigation/publication list entries and elsewhere. Purely a cursor + subtle hover affordance; no layout change from a plain .timeline-item. */ [data-context-type] { cursor: pointer; } [data-context-type]:hover { border-color: var(--primary); } @media (max-width: 640px) { .context-panel { width: 100%; } } @media (prefers-reduced-motion: reduce) { *, *::before, *::after { animation-duration: 0.01ms !important; animation-iteration-count: 1 !important; transition-duration: 0.01ms !important; scroll-behavior: auto !important; } }