johan
/
inou
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity
inou/.claude/worktrees/vibrant-nash/journal.md

11 KiB
Raw Permalink Blame History

DICOM Project Journal

Transcripts are stored in /mnt/transcripts/ (Claude's computer filesystem).

Sessions

2025-12-12 - Version Management & Auto-Update System

What was built:

  • Installation portal at http://inou.com:8000 (PIN-protected)
  • Download pages for Windows/Mac with architecture options
  • Auto-update system: bridge checks version on connect, blocks if outdated
  • Semver comparison (1.0.10 > 1.0.2), allows ahead-of-release versions
  • Dynamic update instructions using os.Executable() for actual path
  • Server /version?os=darwin&arch=arm64 returns download_url

Version check flow:

  1. Bridge connects → calls GET /version?os={os}&arch={arch}
  2. Server returns latest_bridge_version + download_url
  3. Bridge compares versions (semver, not string)
  4. If outdated: blocks all tool calls, returns curl command with exact path
  5. User runs command via Desktop Commander, restarts Claude Desktop

Key implementation details:

  • VERSION in Makefile controls all builds via ldflags
  • Bridge knows platform (runtime.GOOS/GOARCH) and its own path (os.Executable)
  • Server maps darwin→mac for URL paths
  • Only blocks tools/call method, not initialization
  • Returns success (not error) so Claude sees the message

Files modified:

  • /Volumes/dev/inou/mcp-client/main.go - semver, auto-update blocking
  • /home/johan/dev/inou/mcp/main.go - /version endpoint with download_url
  • /Volumes/dev/inou/portal/main.go - installation portal

Binary filenames standardized:

  • Windows: inou_bridge_win_{amd64,arm64,386}.exe
  • Mac: inou_bridge_darwin_{arm64,amd64}

2025-12-11 - Multi-tenant & Session Persistence

What was built:

  • Multi-frame DICOM support with per-frame position extraction
  • Account/profile authentication system (accounts, account_profiles tables)
  • Session persistence to SQLite (survives server restarts)
  • Rich fetch_image metadata (patient, study, series, position, TR/TE)
  • Walter Scott III patient added with full-body MRI (35 series, 3,371 slices)

Files modified:

  • /home/johan/dev/inou/mcp/main.go - session persistence, account auth
  • /Volumes/dev/inou/convert/main.go - multi-frame DICOM support

2025-12-07 - Zoom/Pan Implementation

What was built:

  • Zoom feature with 5 levels (1x, 1.5x, 2x, 3x, 4x)
  • Zoom to cursor position using Shift+scroll
  • +/- keys for zoom in/out on hovered panel
  • Pan with Shift+drag (only effective when zoomed)
  • Double-click to reset zoom/pan
  • Zoom/pan syncs by orientation type (all AX panels share state, etc.)
  • Help modal (?) button showing all controls
  • Request logging now includes IP address

Key implementation details:

  • zoomState object tracks {level, panX, panY} per orientation (AX, SAG, COR)
  • Transform: translate() scale() with origin at top-left
  • Crosshairs and rectangles adjusted for zoom (divide out zoom from getBoundingClientRect)
  • CSS transition disabled during pan for smooth movement
  • Shift modifier used for both zoom and pan to avoid conflicts

Files modified:

  • ~/dev/inou/viewer/main.go - zoom/pan state, event handlers, help modal, IP logging

2025-12-06 - 3D Crosshair View & API Improvements

Transcript: 2025-12-06-08-25-09-dicom-3d-crosshair-api-text-format.txt

What was built:

  • 3D crosshair view at /3d endpoint with SAG|AX|COR synchronized panels
  • Vector-based crosshair positioning using ImageOrientationPatient math
  • Fixed wheel scroll to work on any hovered panel
  • API documentation at /api endpoint
  • &format=text parameter returning HTML tables for AI model compatibility
  • Request logging with timestamps
  • Pixel spacing added to MCP fetch_image output

Key learnings:

  • Crosshairs need to use slice CENTER (corner + half-dimensions along orientation vectors), not corner position
  • Project 3D target onto 2D panel using dot product with row/col vectors
  • Gemini's "browsing" = Google Search index, can't reach private servers
  • Grok makes real HTTP requests but hallucinates results

Files modified:

  • ~/dev/inou/viewer/main.go - 3D view, API endpoints, HTML format
  • ~/dev/inou/mcp/main.go - Added pixel spacing to fetch_image output

Earlier Sessions (various dates)

  • Initial DICOM converter and viewer
  • Rectangle coordinate system for pointing at findings
  • Deep linking with URL parameters
  • MCP server implementation
  • X-ray pixel data offset fix
  • Study import workflow

2025-12-17 - Phase 2: Bridge REST Migration & Schema Fixes

Transcript: 2025-12-17-09-45-12-phase2-bridge-rest-migration-complete.txt

What was built:

  1. Bridge migrated from SSE/MCP to pure REST API

    • Removed SSE connection, now makes direct HTTPS calls to viewer API
    • All 8 tools working: list_profiles, list_studies, list_series, list_slices, fetch_image, query_anatomy, list_lab_tests, get_lab_results, get_version
    • Uses --account=GUID parameter (account can have multiple profiles)
    • Connects via https://inou.com/api/ (port 443, hospital-friendly)

  2. Account schema fixed

    • accounts.id is now GUID (was email hash)
    • accounts.email_hash added for portal login lookup
    • account_profiles.account_id references account GUID
    • Portal login flow updated to use new schema

  3. Portal routing fixed

    • GET /api/profiles now proxies to viewer (was POST-only for creating profiles)
    • All /api/* routes properly forwarded to viewer backend

  4. Convert improvements

    • insertSlice() now takes instanceNumber directly (was computing incorrectly)
    • Passes frameCounter (sequential across series) instead of frameIdx (per-file)
    • isLocalizer() enhanced to detect orientation mismatches:
      • AX series: filters slices where rowX < 0.8 (should be ~1)
      • SAG series: filters slices where rowX > 0.5 (should be ~0)
    • Fixes instance_number always being 1
    • Filters scout/localizer images automatically

  5. Database reset for re-import

    • Dropped studies, series, slices tables
    • Cleaned /tank/inou/objects/
    • Ready for fresh convert with fixed instance numbers

Services architecture:

Claude Desktop -> inou_bridge (stdio/REST) -> https://inou.com:443/api/* 
                                                    | (portal proxy)
                                             viewer:8765/api/*

Files modified:

  • ~/dev/inou/mcp-client/main.go - Complete rewrite to REST client
  • ~/dev/inou/portal/main.go - Schema fixes, GET /api/profiles routing
  • ~/dev/inou/viewer/main.go - handleProfiles query fix
  • ~/dev/inou/convert/main.go - instanceNumber fix, isLocalizer enhancement

Binaries rebuilt:

  • /tank/inou/bin/convert
  • /tank/inou/bin/inou_bridge_darwin_arm64
  • /tank/inou/bin/inou-portal
  • /tank/inou/bin/inou-viewer

Still TODO:

  • Date formatting with locale awareness (bridge should detect OS locale)
  • Add slice_index to API response
  • Return viewer URL with fetch_image
  • Re-run convert to populate database with correct instance numbers

Command to run convert:

cd /tank/inou && ./bin/convert

2025-12-18 - Verification & Image URL Enhancement

What was done:

  1. Verified fresh convert worked

    • 3167 slices imported successfully
    • instance_number now sequential (1-25 for AX T2, etc.)
    • Scout/localizer filtering working

  2. Tested all MCP tools with fresh data

    • list_profiles ✓
    • list_studies ✓ (15 studies)
    • list_series ✓ (MRI Brain: 10 series including T1, T2, FLAIR, SWAN, DTI)
    • list_slices ✓ (returns full metadata)
    • fetch_image ✓ (returns base64 PNG)
    • query_anatomy ✓ (pons/medulla position ranges working)
    • get_version ✓

  3. Added image_url to list_slices response

    • Each slice now includes: "image_url": "https://inou.com/image/{slice_guid}"
    • Allows Claude to provide direct clickable links to images
    • Change in viewer/main.go handleSlices()

  4. Reviewed and closed TODO items

    • Date format (YYYYMMDD): non-issue, Claude understands it fine
    • slice_index: obsolete, instance_number now works correctly
    • image_url: ✓ implemented

Files modified:

  • ~/dev/inou/viewer/main.go - Added image_url field to handleSlices()

Binaries rebuilt:

  • /tank/inou/bin/inou-viewer

2025-12-19: Design Reference - andrewmccalip.com/space-datacenters

Inspiration for future UI patterns:

Horizontal bar charts

  • Label left, bar middle, value right
  • Different colors per category (blue vs amber)
  • Could use for: lab result ranges, storage usage, progress indicators

Sliders with labeled ranges

  • Clean min/max labels below
  • Marker dots at key positions
  • Could use for: date range selection, threshold settings

Label-value pairs

  • Muted left label, bold right value
  • Great for metadata display

Colored left borders on cards

  • Blue = one category, amber = another
  • Section headers: (small caps, letter-spacing)

Two-column comparison layout

  • Side by side for A vs B comparisons

2025-12-19: Design Reference - andrewmccalip.com/space-datacenters

Inspiration for future UI patterns:

Horizontal bar charts

  • Label left, bar middle, value right
  • Different colors per category (blue vs amber)
  • Could use for: lab result ranges, storage usage, progress indicators

Sliders with labeled ranges

  • Clean min/max labels below
  • Marker dots at key positions
  • Could use for: date range selection, threshold settings

Label-value pairs

  • Muted left label, bold right value
  • Example: "Cost per Watt" (grey) ... "$51.10/W" (bold)
  • Great for metadata display

Colored left borders on cards

  • Blue = one category, amber = another
  • Section headers: small caps with letter-spacing and dot separator

Two-column comparison layout

  • Side by side for A vs B comparisons

2025-12-19: AI Instructions (OUTDATED)

DO NOT USE sed for editing files.

Update 2026-01-10: This was written when running Claude on Mac via SSH to Linux, causing quote escaping issues. Now running Claude natively on Linux — sed works fine again.

Mobile App - Input Parsing (Dec 21, 2024)

Goal

Parse natural language input into structured health/wellness observations. The journal captures the whole story of a person's life, not just medical symptoms.

Why

The pattern matters for healthcare:

  • Dec 15: mother hospitalized
  • Dec 16: can't sleep
  • Dec 17: headache, took Tylenol
  • Dec 18: BP 145/92

A doctor seeing just "BP 145/92" misses the context. The comprehensive journal shows the story.

Categories to extract

  • symptom - physical complaints
  • medication - drugs, supplements
  • activity - exercise, yard work, physical activity
  • vital - measurable (BP, weight, temp)
  • bodily - digestion, sleep, menstruation
  • mood - emotional state
  • life_event - stress, family, work, relationships
  • medical_event - doctor visits, procedures, diagnoses

Accept vs Reject

Accept (interpret through user's lens):

  • "I worked in the yard" → activity
  • "I got fired" → life_event (stress)
  • "my wife wants to leave" → life_event (stress)
  • "my mother is injured" → life_event (user's stress/worry, NOT medical record for mother)

Reject (not about the person's life):

  • "what is the capital of Denmark"
  • "write me a poem"
  • trivia, requests to create things

Dossier assignment

Only create structured records for people with dossiers. Everything else is context about the user's own state.

TODO

  • Improve genetic import progress communication