codequill 0.8.1-beta.4 → 0.9.0

package/README.md

@@ -1,121 +1,368 @@
-CodeQuill CLI
+# CodeQuill CLI
 
-CodeQuill CLI lets you authenticate, claim repositories, create on-chain snapshots, and push backups via the CodeQuill backend. The CLI makes only HTTP requests; all on-chain activity and backup processing happen on the backend.
+> Secure snapshots, authorship, and code preservation
+
+Command-line interface for CodeQuill — memory infrastructure for software. Create snapshots, claim repositories, publish releases, attest artifacts, and preserve source code with zero-custody encryption.
+
+## Installation
+
+### From npm
+
+```bash
+npm install -g codequill
+```
+
+### From source
+
+```bash
+git clone https://github.com/codequill/codequill-cli.git
+cd codequill-cli
+npm install
+npm run build
+npm link
+```
+
+## Requirements
 
-Requirements
 - Node.js 18+
-- TypeScript 5+
-
-Install (from source)
-- npm install
-- npm run build
-- npm link (optional, to get the `codequill` binary on PATH)
-
-Configuration
-- API base URL: set environment variable `CODEQUILL_API_BASE_URL` (defaults to `https://api.staging.codequill.dev`).
-- Tokens are stored at `~/.config/codequill/config.json` with 0600 permissions.
-- For testing or sandboxing, you can override the config directory with `CODEQUILL_CONFIG_DIR` (mainly used by unit tests).
-
-Session duration and auto-refresh
-- The CLI automatically refreshes your access token using the stored `refresh_token` when it expires.
-- As long as your refresh token remains valid (typically around 30 days), you will stay signed in and won’t be prompted to log in again.
-- If your access token is expired and no valid `refresh_token` is present, the CLI will ask you to run `codequill login` again.
-
-Usage
-- Show help
-  - `codequill --help`
-  - `codequill <command> --help`
-
-Commands
-- codequill login
-  - Authenticates via device-code flow.
-  - Behavior:
-    - POST `/api/v1/cli/device-code` with `{ client_name: "codequill-cli", client_version }`.
-    - Prints a `verification_url` — open it in your browser.
-    - Prerequisite: make sure you are already signed in to the CodeQuill web app in that browser session.
-    - Polls POST `/api/v1/cli/device-token` until approved.
-    - Saves tokens with a small expiry margin. Subsequent commands auto-refresh access tokens using the stored `refresh_token`.
-
-- codequill whoami
-  - Displays the current authenticated user and repos.
-  - GET `/api/v1/cli/me` with `Authorization: Bearer <access_token>`.
-
-- codequill quota
-  - Shows your subscription plan and quota usage details.
-  - GET `/v1/cli/quota` with `Authorization: Bearer <access_token>`.
-  - Displays:
-    - Plan code
-    - Claimed repos (public/private used vs limit)
-    - Snapshots used this month vs limit
-    - Backups used this month vs limit
-    - GitHub Actions used vs limit
-    - Plagiarism scans used this month vs limit
-
-- codequill claim [--repo <name>] [--path <path>]
-  - Claims authorship of a repository via the backend.
-  - If run inside a git repo, auto-detects repo name from `origin` remote or folder name.
-  - POST `/api/v1/cli/claim` with `{ repo_name, path, git_remote }`.
-
-- codequill snapshot [--repo <name>] [--commit <hash>] [--path <path>] [--dry-run]
-  - Creates a new on-chain snapshot for a repo+commit (backend performs on-chain work).
-  - If inside git, defaults to `HEAD` commit and derives repo name from remote.
-  - `--dry-run` prints resolved parameters without calling the API.
-  - POST `/api/v1/cli/snapshot` with `{ repo_name, commit_hash, path, git: { is_repo, remote } }`.
-
-- codequill push [--repo <name>] [--path <path>] [--snapshot-id <id>] [--dry-run]
-  - Backs up the latest (or a specified) snapshot.
-  - Important: the backend performs zipping, encryption, and IPFS upload. The CLI only sends intent and metadata.
-  - `--dry-run` prints resolved parameters without calling the API.
-  - POST `/api/v1/cli/push` with `{ repo_name, path, snapshot_id }`.
-
-Git-aware vs explicit mode
-- When run inside a git repository, the CLI tries to determine:
-  - repo root (`git rev-parse --show-toplevel`)
-  - `HEAD` commit hash
-  - `origin` remote URL to derive `user/name`
-- When run outside git, pass `--repo` and optionally `--commit` and `--path`.
-
-Environment variables
-- `CODEQUILL_API_BASE_URL` — base HTTP URL for backend (default: staging placeholder).
-- `CODEQUILL_CONFIG_DIR` — override tokens/config directory (used by tests).
-
-Development
-- Build: `npm run build`
-- Watch: `npm run dev`
-- Tests: `npm test`
-- Coverage: `npm run coverage`
-
-Project Structure
-- src/index.ts — Commander entrypoint
-- src/version.ts — CLI version via package.json
-- src/commands/login.ts — device-code login
-- src/commands/whoami.ts — prints current user
-- src/commands/claim.ts — claim authorship
-- src/commands/snapshot.ts — create snapshots
-- src/commands/push.ts — request backups (backend handles zip/encrypt/upload)
-- src/services/apiClient.ts — HTTP wrapper with auth header injection
-- src/services/authStore.ts — token persistence (0600)
-- src/services/config.ts — config dir/file paths
-- src/services/errors.ts — ApiError type
-- src/services/ui.ts — colors, spinner, open browser helper
-- src/services/git.ts — git detection (root/head/remote) and repo name derivation
-- src/services/paths.ts — path helpers
-- src/services/zip.ts — zip helper (currently unused in `push` since backend handles it)
-- src/services/ipfs.ts — placeholder IPFS helper (currently unused)
-- src/types/api.ts — API types
-- test/*.test.ts — unit tests (Vitest)
-
-Testing
-- The test suite is API-free and uses mocks; it verifies:
-  - Token storage and permissions
-  - API client behavior and error handling
-  - Git remote parsing logic
-  - Command flows for `login`, `whoami`, `claim`, `snapshot` (incl. dry-run), and `push` (incl. dry-run)
-- Run: `npm test`
-
-Notes & assumptions
-- The CLI relies on the backend for all on-chain actions and, for backups, for zipping/encryption/IPFS upload.
-- Token refresh is not yet implemented; if expired, the CLI asks you to re-login.
-
-License
-MIT © CodeQuill
+- Git (for repository detection)
+
+## Quick Start
+
+```bash
+# Authenticate with CodeQuill
+codequill login
+
+# Claim authorship of current repository
+codequill claim
+
+# Create a snapshot of your latest commit
+codequill snapshot
+
+# Publish a release
+codequill publish
+
+# Create an encrypted preservation
+codequill preserve <snapshot-id>
+```
+
+## Commands
+
+### Authentication
+
+#### `codequill login`
+
+Authenticate via device-code flow. Opens your browser to authorize the CLI.
+
+```bash
+codequill login
+```
+
+#### `codequill who`
+
+Show the current authenticated user.
+
+```bash
+codequill who
+```
+
+#### `codequill quota`
+
+Display your subscription plan and usage:
+- Claimed repositories
+- Snapshots created
+- Preservations stored
+- Attestations made
+
+```bash
+codequill quota
+```
+
+### Repository Management
+
+#### `codequill claim`
+
+Claim authorship of a repository on-chain.
+
+```bash
+# Auto-detect from current git repository
+codequill claim
+
+# Skip confirmation prompt
+codequill claim --no-confirm
+```
+
+**Options:**
+- `--no-confirm` - Skip interactive confirmation
+- `--confirmations <n>` - Wait for N confirmations (default: 1)
+- `--timeout <ms>` - Timeout for confirmation
+- `--no-wait` - Submit transaction and return immediately
+- `--json` - Output in JSON format
+
+#### `codequill status`
+
+Show repository status and recent snapshots.
+
+```bash
+codequill status
+```
+
+#### `codequill log`
+
+View snapshot history for the current repository.
+
+```bash
+codequill log
+```
+
+### Snapshots
+
+#### `codequill snapshot`
+
+Create a deterministic snapshot (Merkle tree) of the repository at a specific commit.
+
+```bash
+# Snapshot current HEAD
+codequill snapshot
+
+# Snapshot specific commit
+codequill snapshot --commit abc123
+
+# Custom concurrency
+codequill snapshot --concurrency 16
+```
+
+**Options:**
+- `--commit <hash>` - Commit hash to snapshot (default: HEAD)
+- `--concurrency <n>` - Number of concurrent file reads (default: 8)
+- `--salt <hex>` - Custom salt for path hashing (64 hex chars)
+- `--print-salt` - Display the salt in output
+
+#### `codequill pull`
+
+Download all published snapshot manifests for the current repository.
+
+```bash
+codequill pull
+```
+
+Manifests are stored in `.codequill/snapshots/`.
+
+### Publishing
+
+#### `codequill publish`
+
+Publish a snapshot by anchoring its Merkle root on-chain and storing the manifest on IPFS.
+
+```bash
+# Publish latest snapshot
+codequill publish
+
+# Publish specific commit
+codequill publish <commit-hash>
+```
+
+**Options:**
+- `--no-confirm` - Skip confirmation prompt
+- `--confirmations <n>` - Wait for N confirmations (default: 1)
+- `--timeout <ms>` - Timeout for confirmation
+- `--no-wait` - Submit and return immediately
+- `--json` - Output in JSON format
+
+**Note:** Releases (named, governed versions) are created in the web app at app.codequill.xyz. The CLI publishes snapshots.
+
+#### `codequill wait`
+
+Wait for a transaction to confirm.
+
+```bash
+codequill wait <tx-hash>
+```
+
+### Attestations
+
+#### `codequill attest`
+
+Create an attestation linking a build artifact to a published release.
+
+```bash
+codequill attest <artifact> <release-id>
+```
+
+**Arguments:**
+- `<artifact>` - Path to the build artifact
+- `<release-id>` - Release ID to attest against
+
+**Options:**
+- `--subject-name <name>` - Artifact name
+- `--subject-version <ver>` - Artifact version
+- `--upstream <purl>` - Upstream dependency (repeatable)
+- `--no-confirm` - Skip confirmation
+- `--confirmations <n>` - Wait for N confirmations
+- `--json` - Output in JSON format
+
+**Note:** Attestations require an **accepted release**. The release must pass governance approval before attestation.
+
+#### `codequill verify-attestation`
+
+Verify an attestation (offline operation).
+
+```bash
+codequill verify-attestation <attestation-file>
+```
+
+### Proofs
+
+#### `codequill prove`
+
+Generate a Merkle proof that a specific file was included in a snapshot.
+
+```bash
+codequill prove <file> <snapshot-id>
+
+# Include plaintext path in proof
+codequill prove <file> <snapshot-id> --disclose
+
+# Custom output path
+codequill prove LICENSE <snapshot-id> --out evidence/license-proof.json
+```
+
+**Arguments:**
+- `<file>` - Path to file to prove inclusion for
+- `<snapshot-id>` - Snapshot ID to prove against
+
+**Options:**
+- `--disclose` - Include plaintext path in proof (privacy tradeoff)
+- `--out <file>` - Output path for proof file
+
+#### `codequill verify-proof`
+
+Verify a proof of inclusion (offline operation).
+
+```bash
+codequill verify-proof <proof-file>
+```
+
+### Preservations
+
+#### `codequill preserve`
+
+Create an encrypted preservation (backup) of source code tied to a published snapshot.
+
+```bash
+codequill preserve <snapshot-id>
+```
+
+**Arguments:**
+- `<snapshot-id>` - Published snapshot ID to preserve
+
+**Options:**
+- `--no-confirm` - Skip confirmation
+- `--confirmations <n>` - Wait for N confirmations
+- `--timeout <ms>` - Timeout for confirmation
+- `--no-wait` - Submit and return immediately
+- `--json` - Output in JSON format
+
+**Encryption:** Uses AES-256-GCM with passkey-derived keys (zero-custody). CodeQuill never sees plaintext source code.
+
+### Learning
+
+#### `codequill why`
+
+Learn about CodeQuill concepts.
+
+```bash
+# Overview
+codequill why
+
+# Specific topics
+codequill why claim
+codequill why snapshot
+codequill why publish
+codequill why prove
+codequill why attest
+codequill why preserve
+```
+
+**Options:**
+- `--short` - Brief explanation
+- `--ci` - CI-friendly explanation
+
+## Configuration
+
+### API Endpoint
+
+Set the CodeQuill API base URL:
+
+```bash
+export CODEQUILL_API_BASE_URL=https://api.codequill.xyz
+```
+
+Default: `https://api.codequill.xyz`
+
+### Config Directory
+
+Authentication tokens are stored at `~/.config/codequill/config.json` with `0600` permissions.
+
+Override for testing:
+
+```bash
+export CODEQUILL_CONFIG_DIR=/custom/path
+```
+
+### Session Management
+
+- Access tokens auto-refresh using your refresh token
+- Refresh tokens valid for ~30 days
+- Run `codequill login` to re-authenticate when expired
+
+## How It Works
+
+The CLI is a lightweight client that communicates with the CodeQuill backend:
+
+1. **Snapshots** - Created locally by hashing files and building a Merkle tree. No source code is uploaded.
+2. **Privacy** - File paths are salted before hashing (passkey-derived salt). Enables selective disclosure.
+3. **Publishing** - Anchors snapshot Merkle roots on Ethereum and stores manifests on IPFS.
+4. **Releases** - Created in the web app. Named, governed versions that group snapshots and enable attestations.
+5. **Attestations** - Links build artifacts to accepted releases. Records who, what, and when on-chain.
+6. **Preservations** - Encrypts full source archives client-side. Zero-custody (passkey-derived encryption).
+7. **Proofs** - Merkle proofs of file inclusion. Verifiable by anyone, created with authority.
+
+## Architecture
+
+- **CLI** - Evidence production (snapshots, attestations, proofs)
+- **Web App** - Configuration and governance (app.codequill.xyz)
+- **Smart Contracts** - Immutable on-chain records (Ethereum)
+- **IPFS** - Decentralized storage (manifests, preservations)
+
+Even if CodeQuill servers are compromised, the evidence layer remains independently verifiable.
+
+## Development
+
+### Build
+
+```bash
+npm run build
+```
+
+### Watch mode
+
+```bash
+npm run dev
+```
+
+### Testing
+
+```bash
+npm test
+npm run test:watch
+npm run coverage
+```
+
+## Documentation
+
+Full documentation: [docs.codequill.xyz](https://docs.codequill.xyz)
+
+## License
+
+MIT © CodeQuill

package/dist/commands/backup.js

@@ -336,7 +336,7 @@ async function wrapDekForWorkspace(publicKeyB64, dek) {
 async function gitArchiveToTarGz(args) {
     await new Promise((resolve, reject) => {
         const git = spawn('git', ['archive', '--format=tar', args.commitHash], { cwd: args.repoRoot });
-        const gzip = spawn('gzip', ['-9'], { cwd: args.repoRoot });
+        const gzip = spawn('gzip', ['-9', '-n'], { cwd: args.repoRoot });
         const out = createWriteStream(args.outTarGzAbs);
         let err = '';
         git.stderr.on('data', (d) => (err += d.toString()));

package/dist/commands/backup.js.map

@@ -1 +1 @@
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package/dist/commands/why.js

@@ -16,15 +16,15 @@ function printWhyAttest(opts) {
         console.log('A SHA256 hash proves integrity of an artifact.');
         console.log('A CodeQuill attestation preserves a verifiable *claim* about it:');
         console.log('  • who asserted it (authority wallet)');
-        console.log('  • which snapshot it references (source state)');
+        console.log('  • which release it references (accepted governance state)');
         console.log('  • when it was recorded (timestamped anchor)');
         console.log('');
-        console.log('Use it to make releases easier to audit over time.');
+        console.log('Attestations require an accepted release as evidence.');
         return;
     }
     if (opts.ci) {
         console.log('This workflow uses CodeQuill attestations to:');
-        console.log('- record a lineage claim from an artifact digest to a published snapshot');
+        console.log('- record a lineage claim from an artifact digest to an accepted release');
         console.log('- preserve who made the claim and when it was recorded');
         console.log('- enable downstream checks to require attestations as evidence');
         console.log('');
@@ -41,13 +41,13 @@ function printWhyAttest(opts) {
     console.log('');
     console.log('1) Authority — Who is making the claim?');
     console.log(indent('A raw hash can be copied anywhere.\n' +
-        'A CodeQuill attestation is issued under a repository’s recorded authority\n' +
+        'A CodeQuill attestation is issued under a repository\'s recorded authority\n' +
         'and anchored so the claim is inspectable later.\n\n' +
         '→ You can verify who asserted it.'));
     console.log('');
     console.log('2) Reference — What source state is it pointing to?');
-    console.log(indent('An attestation references a specific published snapshot.\n' +
-        'Others can verify that the referenced snapshot exists, is anchored,\n' +
+    console.log(indent('An attestation references a specific accepted release.\n' +
+        'Others can verify that the release exists, was accepted,\n' +
         'and is associated with the same repository authority.\n\n' +
         '→ You can verify what source state the claim refers to.'));
     console.log('');
@@ -56,27 +56,26 @@ function printWhyAttest(opts) {
         'Anchored records are append-only.\n\n' +
         '→ You can verify when the claim was recorded.'));
     console.log('');
-    console.log('4) Automation — Can tools require evidence?');
-    console.log(indent('Attestations are machine-readable and queryable.\n' +
-        'Pipelines and security tooling can require attestations before promotion\n' +
-        'or distribution.\n\n' +
-        '→ You reduce ambiguity with enforceable evidence checks.'));
+    console.log('4) Governance — Was the release approved?');
+    console.log(indent('Attestations require an accepted release.\n' +
+        'This means governance approval happened before attestation.\n\n' +
+        '→ You can verify the release passed its governance process.'));
     console.log('');
     hr();
     console.log('');
     console.log('Example:');
-    console.log(indent('codequill snapshot\ncodequill publish\ncodequill attest dist/myapp.tar.gz --type file'));
+    console.log(indent('codequill attest dist/myapp.tar.gz <release-id>'));
     console.log('');
     console.log('Others can later verify:');
     console.log(indent('- the artifact digest referenced by the attestation\n' +
-        '- the published snapshot it points to\n' +
+        '- the accepted release it points to\n' +
         '- the repository authority that made the claim\n' +
         '- the on-chain timestamp of the record'));
     console.log('');
     console.log('This helps with:');
     console.log(indent('• incident response and audits\n' +
         '• provenance transparency for releases\n' +
-        '• reducing “trust me” distribution\n\n' +
+        '• reducing "trust me" distribution\n\n' +
         'Note: attestations do not prove how a build occurred.'));
 }
 function printWhyProve(opts) {
@@ -133,29 +132,35 @@ function printWhyOverview() {
     console.log('');
     console.log(colors.bold('Why CodeQuill?'));
     console.log('');
-    console.log('CodeQuill preserves verifiable evidence of what source code existed at a given point in time.\n' +
-        'It provides a stable reference for artifact attestations — without relying on CI logs or registries\n' +
-        'as the sole sources of truth.');
+    console.log('CodeQuill is memory infrastructure for software.\n' +
+        'It preserves verifiable, immutable evidence of what source code existed at a given\n' +
+        'point in time -- and under whose authority.');
     hr();
     console.log('');
     console.log(colors.bold('The gap CodeQuill addresses'));
-    console.log(indent('The ecosystem evolved faster than its ability to preserve evidence.\n\n' +
-        'Modern distribution relies on layers of platforms and automation.\n' +
-        'Over time, durable answers to simple questions became harder:\n' +
-        '• What source state existed?\n' +
-        '• When was it recorded?\n' +
-        '• Under whose authority?\n' +
-        '• What artifact claims lineage from it?'));
+    console.log(indent('The software ecosystem evolved faster than its ability to preserve evidence.\n\n' +
+        'Code can now be generated, modified, and assembled at machine speed.\n' +
+        'Shipping is easier than ever. But answering simple questions later is harder:\n' +
+        '• What source code actually existed at a given moment?\n' +
+        '• Who was authorized to publish it?\n' +
+        '• Which release was intended?\n' +
+        '• What artifacts were claimed to originate from it?'));
+    console.log('');
+    console.log(indent('When incidents occur, when audits are performed, when legal questions arise --\n' +
+        'the answers depend on evidence that often no longer exists.\n' +
+        'Logs rotate. CI systems are ephemeral. Platforms change ownership.'));
+    console.log('');
+    console.log(indent(colors.bold('CodeQuill exists to preserve facts, not narratives.')));
     console.log('');
     hr();
     console.log('');
     console.log(colors.bold('The evidence chain'));
     console.log(indent('0) Claim     → record repository authority\n' +
-        '1) Snapshot  → derive a reproducible source reference\n' +
-        '2) Publish   → anchor that reference on-chain\n' +
+        '1) Snapshot  → derive a Merkle root from source state\n' +
+        '2) Publish   → anchor snapshot on-chain (timestamped)\n' +
         '3) Prove     → prove specific content was included\n' +
         '4) Attest    → record artifact lineage claims\n' +
-        '5) Backup    → preserve encrypted source bound to a snapshot'));
+        '5) Preserve  → store encrypted source (zero-custody)'));
     console.log('');
     console.log('Each step preserves evidence. None of them prove build causality.');
     console.log('');
@@ -164,95 +169,97 @@ function printWhyOverview() {
     console.log(colors.bold('Why commands'));
     console.log(indent('Learn why each step exists:\n\n' +
         '• codequill why claim     – why authority matters\n' +
-        '• codequill why snapshot  – why source references matter\n' +
-        '• codequill why publish   – why anchoring matters\n' +
+        '• codequill why snapshot  – why Merkle roots matter\n' +
+        '• codequill why publish   – why anchoring snapshots matters\n' +
         '• codequill why prove     – why inclusion proofs matter\n' +
         '• codequill why attest    – why attestations are useful\n' +
-        '• codequill why backup    – why encrypted backups exist'));
+        '• codequill why preserve  – why encrypted preservations exist'));
     console.log('');
     hr();
     console.log('');
     console.log(colors.bold('What CodeQuill enables'));
-    console.log(indent('• incident response and audit evidence\n' +
-        '• provenance transparency for releases\n' +
-        '• long-lived, inspectable records under hostile assumptions\n' +
-        '• privacy-preserving proof sharing (no structure disclosure)\n' +
-        '• long-term source preservation without custody'));
+    console.log(indent('• Incident response and audit evidence\n' +
+        '• Provenance transparency for releases\n' +
+        '• Long-lived, inspectable records that outlive any platform\n' +
+        '• Privacy-preserving proof sharing (selective disclosure)\n' +
+        '• Long-term source preservation with zero-custody encryption\n' +
+        '• Platform-independent authority records'));
     console.log('');
     console.log(colors.dim('Start with:'));
     console.log(indent('codequill why claim'));
 }
-function printWhyBackup(opts) {
+function printWhyPreserve(opts) {
     if (opts.short) {
-        console.log(colors.bold('Why CodeQuill backup?'));
+        console.log(colors.bold('Why CodeQuill preserve?'));
         console.log('');
-        console.log('Backups preserve an encrypted copy of source code,\n' +
-            'cryptographically bound to a snapshot, without giving CodeQuill custody.');
+        console.log('Preservations are encrypted archives of source code,\n' +
+            'tied to a published snapshot, with zero-custody encryption.');
         return;
     }
     if (opts.ci) {
-        console.log('This workflow uses CodeQuill backups to:');
+        console.log('This workflow uses CodeQuill preservations to:');
         console.log('- preserve source code for a published snapshot');
-        console.log('- ensure backups are cryptographically bound to preserved evidence');
-        console.log('- store only encrypted data in external storage');
+        console.log('- ensure preservations are cryptographically bound to preserved evidence');
+        console.log('- store only encrypted data in decentralized storage (IPFS)');
         console.log('');
-        console.log('Backups are optional and do not prove build outputs.');
+        console.log('Preservations are optional and do not prove build outputs.');
         return;
     }
     console.log('');
-    console.log(colors.bold('Why create an encrypted backup?'));
+    console.log(colors.bold('Why create an encrypted preservation?'));
     console.log('');
-    console.log('Publishing a snapshot preserves evidence *about* source code.\n' +
-        'Sometimes, preserving the source itself is also required.');
+    console.log('Snapshots record hashes of source files, not the files themselves.\n' +
+        'Preservations store the actual source code, encrypted, for long-term survival.');
     hr();
     console.log('');
-    console.log('What CodeQuill backups are for:');
+    console.log('What CodeQuill preservations are for:');
     console.log(indent('• long-term source preservation\n' +
         '• disaster recovery\n' +
         '• private audit records\n' +
         '• compliance or legal archiving'));
     console.log('');
-    console.log('How backups work (at a high level):');
+    console.log('How preservations work:');
     console.log(indent('• Source is reconstructed and verified locally\n' +
-        '• Snapshot integrity is checked before backup\n' +
-        '• The archive is encrypted client-side\n' +
-        '• Only encrypted bytes are uploaded\n' +
-        '• Decryption requires the workspace authority'));
+        '• Snapshot integrity is checked before preservation\n' +
+        '• The archive is encrypted client-side (AES-256-GCM)\n' +
+        '• Only encrypted bytes are uploaded to IPFS\n' +
+        '• Decryption requires workspace authority and passkey'));
     console.log('');
-    console.log('What backups do *not* do:');
-    console.log(indent('• They do not prove how software was built\n' +
-        '• They do not assert artifact correctness\n' +
-        '• They do not expose source code publicly'));
+    console.log('Zero-custody model:');
+    console.log(indent('• CodeQuill never sees plaintext source code\n' +
+        '• Encryption keys are passkey-derived (WebAuthn PRF)\n' +
+        '• No admin backdoor or recovery mechanism\n' +
+        '• Losing the passkey means losing access permanently'));
     console.log('');
     console.log('Why this matters:');
     console.log(indent('Many systems either store plaintext source\n' +
         'or rely on internal storage that may not survive over time.\n\n' +
-        'CodeQuill backups preserve source without expanding trust,\n' +
-        'custody, or liability.'));
+        'CodeQuill preservations ensure long-term survival\n' +
+        'without expanding trust, custody, or liability.'));
     console.log('');
     hr();
     console.log('');
     console.log('Example:');
-    console.log(indent('codequill backup'));
+    console.log(indent('codequill preserve <snapshot-id>'));
     console.log('');
     console.log('Later, you can verify:');
-    console.log(indent('• the backup is bound to a specific snapshot\n' +
+    console.log(indent('• the preservation is bound to a specific snapshot\n' +
         '• the snapshot was published and anchored\n' +
         '• the encrypted archive has not been tampered with'));
     console.log('');
-    console.log(colors.dim('Note: losing access to the authority means losing access to the backup.'));
+    console.log(colors.dim('Note: losing access to the passkey means losing access to the preservation.'));
 }
 function printWhySnapshot(opts) {
     if (opts.short) {
         console.log(colors.bold('Why CodeQuill snapshot?'));
         console.log('');
-        console.log('A snapshot derives a deterministic source reference from a repository state.');
-        console.log('It is reproducible and created locally, without sending source code to CodeQuill.');
+        console.log('A snapshot derives a deterministic Merkle root from a repository state.');
+        console.log('It is reproducible, created locally, and never sends source code to CodeQuill.');
         return;
     }
     if (opts.ci) {
         console.log('This workflow creates a CodeQuill snapshot to:');
-        console.log('- derive a reproducible reference for the current source state');
+        console.log('- derive a reproducible Merkle root for the current source state');
         console.log('- support later publish / prove / attest steps');
         console.log('');
         console.log('Snapshots are created locally and do not require server-side computation.');
@@ -261,20 +268,27 @@ function printWhySnapshot(opts) {
     console.log('');
     console.log(colors.bold('Why create a snapshot?'));
     console.log('');
-    console.log('A snapshot preserves a specific source state as evidence.');
-    console.log('It produces a deterministic reference that can be reproduced from the same source state.');
+    console.log('A snapshot is a deterministic cryptographic fingerprint of a repository at a specific commit.');
+    console.log('It produces a Merkle root that represents the entire file tree.');
     console.log('');
     hr();
     console.log('');
-    console.log('Privacy note:');
-    console.log(indent('CodeQuill is designed to preserve evidence without revealing repository structure.\n' +
-        'Path information is encrypted/obfuscated in the snapshot model, while public verification\n' +
-        'focuses on content inclusion and anchored identifiers.'));
+    console.log('How it works:');
+    console.log(indent('• Reads every tracked file in the repository\n' +
+        '• Computes keccak256 hash of each file\'s contents\n' +
+        '• Computes salted hash of each file\'s path (for privacy)\n' +
+        '• Builds a Merkle tree from leaf hashes\n' +
+        '• Writes manifest to .codequill/snapshots/'));
+    console.log('');
+    console.log('Privacy model:');
+    console.log(indent('File paths are salted before hashing.\n' +
+        'The salt is passkey-derived, ensuring paths remain private.\n' +
+        'This enables selective disclosure via proofs without revealing directory structure.'));
     console.log('');
     console.log('What you get:');
     console.log(indent('• A local manifest representing the source state\n' +
-        '• A snapshot identifier/root that can be anchored\n' +
-        '• The basis for inclusion proofs and attestations'));
+        '• A Merkle root that can be anchored on-chain\n' +
+        '• The basis for inclusion proofs and release attestations'));
     console.log('');
     hr();
     console.log('');
@@ -322,15 +336,15 @@ function printWhyPublish(opts) {
     if (opts.short) {
         console.log(colors.bold('Why CodeQuill publish?'));
         console.log('');
-        console.log('Publishing anchors a snapshot reference on-chain and makes it durable over time.');
-        console.log('It turns a local reference into an inspectable record others can verify.');
+        console.log('Publishing anchors a snapshot on-chain and stores the manifest on IPFS.');
+        console.log('It makes the snapshot durable, timestamped, and publicly verifiable.');
         return;
     }
     if (opts.ci) {
         console.log('This workflow publishes a snapshot to:');
-        console.log('- anchor the snapshot identifier/root on-chain');
-        console.log('- persist the snapshot manifest off-chain (IPFS-compatible storage)');
-        console.log('- enable later proofs and attestations to reference a stable record');
+        console.log('- anchor the Merkle root on-chain (immutable timestamp)');
+        console.log('- persist the snapshot manifest off-chain (IPFS via Lighthouse)');
+        console.log('- create a durable reference for proofs and preservations');
         console.log('');
         console.log('Publishing preserves evidence; it does not prove how builds occurred.');
         return;
@@ -339,19 +353,25 @@ function printWhyPublish(opts) {
     console.log(colors.bold('Why publish a snapshot?'));
     console.log('');
     console.log('A local snapshot is useful, but it is still just local state.');
-    console.log('Publishing turns it into a durable, timestamped record by anchoring it on-chain.');
+    console.log('Publishing anchors it on-chain, creating a durable, timestamped record.');
     console.log('');
     hr();
     console.log('');
     console.log('Publishing gives you:');
-    console.log(indent('• Public timestamp (when)\n' +
-        '• Recorded authority context (who)\n' +
-        '• Immutable reference to a specific source state (what)\n' +
-        '• A stable target for proofs and attestations'));
+    console.log(indent('• Public timestamp (when it was published)\n' +
+        '• Recorded authority context (who published it)\n' +
+        '• Immutable Merkle root (what source state)\n' +
+        '• IPFS-stored manifest (decentralized storage)\n' +
+        '• A stable reference for proofs and preservations'));
     console.log('');
     console.log('What happens to the data:');
-    console.log(indent('• On-chain: minimal identifiers and metadata (claims, snapshot anchors, attestations)\n' +
-        '• Off-chain: manifests and optional encrypted backups (IPFS-compatible; e.g., Lighthouse/Filecoin)'));
+    console.log(indent('• On-chain: Merkle root, commit hash, repository ID, timestamp\n' +
+        '• Off-chain: Full snapshot manifest with file hashes (IPFS via Lighthouse)'));
+    console.log('');
+    console.log('Note on releases:');
+    console.log(indent('Releases are created in the web app as a coordination layer.\n' +
+        'They group snapshots with governance and enable attestations.\n' +
+        'The CLI publishes snapshots. The webapp coordinates releases.'));
     console.log('');
     hr();
     console.log('');
@@ -359,7 +379,7 @@ function printWhyPublish(opts) {
     console.log(indent('codequill snapshot\ncodequill publish'));
     console.log('');
     console.log('Then:');
-    console.log(indent('codequill prove <file>\ncodequill attest <artifact> --type file'));
+    console.log(indent('codequill prove <file> <snapshot-id>\ncodequill preserve <snapshot-id>'));
 }
 export async function handleWhy(topic, opts = {}) {
     const options = {
@@ -389,8 +409,8 @@ export async function handleWhy(topic, opts = {}) {
         case 'prove':
             printWhyProve(options);
             return;
-        case 'backup':
-            printWhyBackup(options);
+        case 'preserve':
+            printWhyPreserve(options);
             return;
         default:
             throw new Error(`Unknown topic: ${topic}`);

package/dist/commands/why.js.map

@@ -1 +1 @@
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package/dist/services/ui.js

@@ -12,27 +12,28 @@ export const colors = {
     blue: (s) => kleur.blue(s),
 };
 const LOGO = String.raw `
-8""""8 8"""88 8""""8 8""""    8""""8 8   8 8  8     8    
-8    " 8    8 8    8 8        8    8 8   8 8  8     8    
-8e     8    8 8e   8 8eeee    8    8 8e  8 8e 8e    8e   
-88     8    8 88   8 88       8    8 88  8 88 88    88   
-88   e 8    8 88   8 88       8 ___8 88  8 88 88    88   
-88eee8 8eeee8 88eee8 88eee    8e8888 88ee8 88 88eee 88eee
+   ____          _       ___        _ _ _
+  / ___|___   __| | ___ / _ \ _   _(_) | |
+ | |   / _ \ / _\` |/ _ \ | | | | | | | | |
+ | |__| (_) | (_| |  __/ |_| | |_| | | | |
+  \____\___/ \__,_|\___|\__\_\\__,_|_|_|_|
 `;
 export function printLogo() {
-    const lines = LOGO.split('\n');
+    const lines = LOGO.split('\n').filter(line => line.trim());
     for (let i = 0; i < lines.length; i++) {
         const line = lines[i];
-        if (!line.trim())
-            continue;
-        // Simple gradient approximation: Magenta -> Blue -> Magenta
-        if (i < lines.length / 3 || i > (2 * lines.length) / 3) {
+        // Gradient from magenta to blue
+        if (i < 2) {
             console.log(kleur.magenta(line));
         }
+        else if (i === 2) {
+            console.log(kleur.cyan(line));
+        }
         else {
             console.log(kleur.blue(line));
         }
     }
+    console.log('');
     console.log(colors.dim('  Secure snapshots, authorship, and code preservation.'));
     console.log('');
 }

package/dist/services/ui.js.map

@@ -1 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
     "name": "codequill",
-    "version": "0.8.1-beta.4",
+    "version": "0.9.0",
     "description": "CodeQuill CLI — claim authorship, create snapshots, attest artifact and push preservations",
     "type": "module",
     "bin": {