add REPO_POLICIES.md, rename CLAUDE.md to AGENTS.md, deduplicate

- Add REPO_POLICIES.md from the standard template (sneak/prompts)
- Rename CLAUDE.md to AGENTS.md with agent-specific workflow instructions
- Move policy-like rules (git add, make targets, etc.) to REPO_POLICIES.md
- Add reference to REPO_POLICIES.md in README Participation section
- Run make fmt (prettier formatting on markdown files)

.drone.yml

@@ -1,23 +0,0 @@
-kind: pipeline
-name: test-docker-build
-
-steps:
-- name: test-docker-build
-  image: plugins/docker
-  network_mode: bridge
-  settings:
-    repo: sneak/mfer
-    build_args_from_env: [ DRONE_COMMIT_SHA ]
-    dry_run: true
-    custom_dns: [ 116.202.204.30 ]
-    tags:
-      - ${DRONE_COMMIT_SHA:0:7}
-      - ${DRONE_BRANCH}
-      - latest
-- name: notify
-  image: plugins/slack
-  settings:
-    webhook:
-      from_secret: SLACK_WEBHOOK_URL
-  when:
-    event: pull_request

.gitignore

@@ -3,3 +3,8 @@
 *.tmp
 *.dockerimage
 /vendor
+vendor.tzst
+modcache.tzst
+
+# Stale files
+.drone.yml

AGENTS.md

@@ -0,0 +1,29 @@
+# Agent Instructions
+
+Read `REPO_POLICIES.md` before making any changes. It is the authoritative
+source for coding standards, formatting, linting, and workflow rules.
+
+## Workflow
+
+- When fixing a bug, write a failing test FIRST. Only after the test fails,
+  write the code to fix the bug. Then ensure the test passes. Leave the test in
+  place and commit it with the bugfix. Don't run shell commands to test bugfixes
+  or reproduce bugs. Write tests!
+
+- After each change, run `make fmt`, then `make test`, then `make lint`. Fix any
+  failures before committing.
+
+- After each change, commit only the files you've changed. Push after committing.
+
+## Attribution
+
+- Never mention Claude, Anthropic, or any AI/LLM tooling in commit messages. Do
+  not use attribution.
+
+## Repository-Specific Notes
+
+- This is a Go library + CLI tool for generating `.mf` manifest files.
+- The proto definition is in `mfer/mf.proto`; generated `.pb.go` files are
+  committed (required for `go get` compatibility).
+- The format specification is in `FORMAT.md`.
+- See `TODO.md` for the 1.0 implementation plan and open design questions.

CLAUDE.md

@@ -1,20 +0,0 @@
-# Important Rules
-
-- when fixing a bug, write a failing test FIRST. only after the test fails, write
-  the code to fix the bug. then ensure the test passes. leave the test in
-  place and commit it with the bugfix. don't run shell commands to test
-  bugfixes or reproduce bugs. write tests!
-
-- never, ever mention claude or anthropic in commit messages. do not use attribution
-
-- after each change, run "make fmt".
-
-- after each change, run "make test" and ensure all tests pass.
-
-- after each change, run "make lint" and ensure no linting errors. fix any
-  you find, one by one.
-
-- after each change, commit the files you've changed. push after
-  committing.
-
-- NEVER use `git add -A`. always add only individual files that you've changed.

Dockerfile

@@ -1,37 +1,38 @@
-################################################################################
+# Lint stage — fast feedback on formatting and lint issues
-#2345678911234567892123456789312345678941234567895123456789612345678971234567898
+# golangci/golangci-lint:v2.0.2 (2026-03-14)
-################################################################################
+FROM golangci/golangci-lint@sha256:d55581f7797e7a0877a7c3aaa399b01bdc57d2874d6412601a046cc4062cb62e AS lint
-FROM sneak/builder:2022-12-08 AS builder
+
-ENV DEBIAN_FRONTEND noninteractive
+WORKDIR /src
-WORKDIR /build
+COPY go.mod go.sum ./
-COPY ./Makefile ./.golangci.yml ./go.mod ./go.sum /build/
+RUN go mod download
-COPY ./vendor.tzst /build/vendor.tzst
+
-COPY ./modcache.tzst /build/modcache.tzst
+COPY . .
-COPY ./internal ./internal
+
-COPY ./bin/gitrev.sh ./bin/gitrev.sh
+# Touch .pb.go so make does not try to regenerate via protoc (file is committed)
-COPY ./mfer ./mfer
+RUN touch mfer/mf.pb.go
-COPY ./cmd ./cmd
+
-ARG GITREV unknown
+RUN make fmt-check
-ARG DRONE_COMMIT_SHA unknown
+RUN make lint
+
+# Build stage — tests and compilation
+# golang:1.23 (2026-03-14)
+FROM golang@sha256:60deed95d3888cc5e4d9ff8a10c54e5edc008c6ae3fba6187be6fb592e19e8c0 AS builder
+
+# Force BuildKit to run the lint stage by creating a stage dependency
+COPY --from=lint /src/go.sum /dev/null
+
+WORKDIR /src
+COPY go.mod go.sum ./
+RUN go mod download
+
+COPY . .
+
+# Touch .pb.go so make does not try to regenerate via protoc (file is committed)
+RUN touch mfer/mf.pb.go
+
+RUN make test
+RUN cd cmd/mfer && go build -tags urfave_cli_no_docs -o /mfer .
 
-RUN mkdir -p "$(go env GOMODCACHE)" && cd "$(go env GOMODCACHE)" && \
-    zstdmt -d --stdout /build/modcache.tzst | tar xf - && \
-    rm /build/modcache.tzst && cd /build
-RUN \
-    cd mfer && go generate . && cd .. && \
-    GOPACKAGESDEBUG=true golangci-lint run ./... && \
-    mkdir vendor && cd vendor && \
-    zstdmt -d --stdout /build/vendor.tzst | tar xf - && rm /build/vendor.tzst && \
-    cd .. && \
-    make mfer.cmd
-RUN rm -rf /build/vendor && go mod vendor && tar -c . | zstdmt -19 > /src.tzst
-################################################################################
-#2345678911234567892123456789312345678941234567895123456789612345678971234567898
-################################################################################
-## final image
-################################################################################
 FROM scratch
-# we put all the source into the final image for posterity, it's small
+COPY --from=builder /mfer /mfer
-COPY --from=builder /src.tzst /src.tzst
-COPY --from=builder /build/mfer.cmd /mfer
 ENTRYPOINT ["/mfer"]

FORMAT.md

@@ -0,0 +1,143 @@
+# .mf File Format Specification
+
+Version 1.0
+
+## Overview
+
+An `.mf` file is a binary manifest that describes a directory tree of files,
+including their paths, sizes, and cryptographic checksums. It supports
+optional GPG signatures for integrity verification and optional timestamps
+for metadata preservation.
+
+## File Structure
+
+An `.mf` file consists of two parts, concatenated:
+
+1. **Magic bytes** (8 bytes): the ASCII string `ZNAVSRFG`
+2. **Outer message**: a Protocol Buffers serialized `MFFileOuter` message
+
+There is no length prefix or version byte between the magic and the protobuf
+message. The protobuf message extends to the end of the file.
+
+See [`mfer/mf.proto`](mfer/mf.proto) for exact field numbers and types.
+
+## Outer Message (`MFFileOuter`)
+
+The outer message contains:
+
+| Field             | Number | Type             | Description                                                              |
+| ----------------- | ------ | ---------------- | ------------------------------------------------------------------------ |
+| `version`         | 101    | enum             | Must be `VERSION_ONE` (1)                                                |
+| `compressionType` | 102    | enum             | Compression of `innerMessage`; must be `COMPRESSION_ZSTD` (1)            |
+| `size`            | 103    | int64            | Uncompressed size of `innerMessage` (corruption detection)               |
+| `sha256`          | 104    | bytes            | SHA-256 hash of the **compressed** `innerMessage` (corruption detection) |
+| `uuid`            | 105    | bytes            | Random v4 UUID; must match the inner message UUID                        |
+| `innerMessage`    | 199    | bytes            | Zstd-compressed serialized `MFFile` message                              |
+| `signature`       | 201    | bytes (optional) | GPG signature (ASCII-armored or binary)                                  |
+| `signer`          | 202    | bytes (optional) | Full GPG key ID of the signer                                            |
+| `signingPubKey`   | 203    | bytes (optional) | Full GPG signing public key                                              |
+
+### SHA-256 Hash
+
+The `sha256` field (104) covers the **compressed** `innerMessage` bytes.
+This allows verifying data integrity before decompression.
+
+## Compression
+
+The `innerMessage` field is compressed with [Zstandard (zstd)](https://facebook.github.io/zstd/).
+Implementations must enforce a decompression size limit to prevent
+decompression bombs. The reference implementation limits decompressed size to
+256 MB.
+
+## Inner Message (`MFFile`)
+
+After decompressing `innerMessage`, the result is a serialized `MFFile`
+(referred to as the manifest):
+
+| Field       | Number | Type                  | Description                           |
+| ----------- | ------ | --------------------- | ------------------------------------- |
+| `version`   | 100    | enum                  | Must be `VERSION_ONE` (1)             |
+| `files`     | 101    | repeated `MFFilePath` | List of files in the manifest         |
+| `uuid`      | 102    | bytes                 | Random v4 UUID; must match outer UUID |
+| `createdAt` | 201    | Timestamp (optional)  | When the manifest was created         |
+
+## File Entries (`MFFilePath`)
+
+Each file entry contains:
+
+| Field      | Number | Type                      | Description                         |
+| ---------- | ------ | ------------------------- | ----------------------------------- |
+| `path`     | 1      | string                    | Relative file path (see Path Rules) |
+| `size`     | 2      | int64                     | File size in bytes                  |
+| `hashes`   | 3      | repeated `MFFileChecksum` | At least one hash required          |
+| `mimeType` | 301    | string (optional)         | MIME type                           |
+| `mtime`    | 302    | Timestamp (optional)      | Modification time                   |
+| `ctime`    | 303    | Timestamp (optional)      | Change time (inode metadata change) |
+
+Field 304 (`atime`) has been removed from the specification. Access time is
+volatile and non-deterministic; it is not useful for integrity verification.
+
+## Path Rules
+
+All `path` values must satisfy these invariants:
+
+- **UTF-8**: paths must be valid UTF-8
+- **Forward slashes**: use `/` as the path separator (never `\`)
+- **Relative only**: no leading `/`
+- **No parent traversal**: no `..` path segments
+- **No empty segments**: no `//` sequences
+- **No trailing slash**: paths refer to files, not directories
+
+Implementations must validate these invariants when reading and writing
+manifests. Paths that violate these rules must be rejected.
+
+## Hash Format (`MFFileChecksum`)
+
+Each checksum is a single `bytes multiHash` field containing a
+[multihash](https://multiformats.io/multihash/)-encoded value. Multihash is
+self-describing: the encoded bytes include a varint algorithm identifier
+followed by a varint digest length followed by the digest itself.
+
+The 1.0 implementation writes SHA-256 multihashes (`0x12` algorithm code).
+Implementations must be able to verify SHA-256 multihashes at minimum.
+
+## Signature Scheme
+
+Signing is optional. When present, the signature covers a canonical string
+constructed as:
+
+```
+ZNAVSRFG-<UUID>-<SHA256>
+```
+
+Where:
+
+- `ZNAVSRFG` is the magic bytes string (literal ASCII)
+- `<UUID>` is the hex-encoded UUID from the outer message
+- `<SHA256>` is the hex-encoded SHA-256 hash from the outer message (covering compressed data)
+
+Components are separated by hyphens. The signature is produced by GPG over
+this canonical string and stored in the `signature` field of the outer
+message.
+
+## Deterministic Serialization
+
+By default, manifests are generated deterministically:
+
+- File entries are sorted by `path` in **lexicographic byte order**
+- `createdAt` is omitted unless explicitly requested
+- `atime` is never included (field removed from schema)
+
+This ensures that two independent runs over the same directory tree produce
+byte-identical `.mf` files (assuming file contents and metadata have not
+changed).
+
+## MIME Type
+
+The recommended MIME type for `.mf` files is `application/octet-stream`.
+The `.mf` file extension is the canonical identifier.
+
+## Reference
+
+- Proto definition: [`mfer/mf.proto`](mfer/mf.proto)
+- Reference implementation: [git.eeqj.de/sneak/mfer](https://git.eeqj.de/sneak/mfer)

Makefile

@@ -5,7 +5,7 @@ export PATH := $(PATH):$(GOPATH)/bin
 PROTOC_GEN_GO := $(GOPATH)/bin/protoc-gen-go
 SOURCEFILES := mfer/*.go mfer/*.proto internal/*/*.go cmd/*/*.go go.mod go.sum
 ARCH := $(shell uname -m)
-GITREV_BUILD := $(shell bash $(PWD)/bin/gitrev.sh)
+GITREV_BUILD := $(shell bash $(PWD)/bin/gitrev.sh 2>/dev/null || echo unknown)
 APPNAME := mfer
 VERSION := 0.1.0
 export DOCKER_IMAGE_CACHE_DIR := $(HOME)/Library/Caches/Docker/$(APPNAME)-$(ARCH)
@@ -13,7 +13,7 @@ GOLDFLAGS += -X main.Version=$(VERSION)
 GOLDFLAGS += -X main.Gitrev=$(GITREV_BUILD)
 GOFLAGS := -ldflags "$(GOLDFLAGS)"
 
-.PHONY: docker default run ci test fixme
+.PHONY: docker default run ci test check lint fmt fmt-check hooks fixme
 
 default: fmt test
 
@@ -32,8 +32,17 @@ $(PROTOC_GEN_GO):
 fixme:
 	@grep -nir fixme . | grep -v Makefile
 
+check: test lint fmt-check
+
+fmt-check: mfer/mf.pb.go
+	sh -c 'test -z "$$(gofmt -l .)"'
+
+hooks:
+	echo '#!/bin/sh\nmake check' > .git/hooks/pre-commit
+	chmod +x .git/hooks/pre-commit
+
 devprereqs:
-	which golangci-lint || go install -v github.com/golangci/golangci-lint/cmd/golangci-lint@latest
+	which golangci-lint || go install -v github.com/golangci/golangci-lint/cmd/golangci-lint@v2.0.2
 
 mfer/mf.pb.go: mfer/mf.proto
 	cd mfer && go generate .

README.md

@@ -23,35 +23,6 @@ itch in 2022 and is currently a one-person effort, though the goal is for
 this to emerge as a de-facto standard and be incorporated into other
 software. A compatible javascript library is planned.
 
-# Phases
-
-Manifest generation happens in two distinct phases:
-
-## Phase 1: Enumeration
-
-Walking directories and calling `stat()` on files to collect metadata (path, size, mtime, ctime). This builds the list of files to be scanned. Relatively fast as it only reads filesystem metadata, not file contents.
-
-**Progress:** `EnumerateStatus` with `FilesFound` and `BytesFound`
-
-## Phase 2: Scan (ToManifest)
-
-Reading file contents and computing cryptographic hashes for manifest generation. This is the expensive phase that reads all file data from disk.
-
-**Progress:** `ScanStatus` with `TotalFiles`, `ScannedFiles`, `TotalBytes`, `ScannedBytes`, `BytesPerSec`
-
-# Code Conventions
-
-- **Logging:** Never use `fmt.Printf` or write to stdout/stderr directly in normal code. Use the `internal/log` package for all output (`log.Info`, `log.Infof`, `log.Debug`, `log.Debugf`, `log.Progressf`, `log.ProgressDone`).
-- **Filesystem abstraction:** Use `github.com/spf13/afero` for filesystem operations to enable testing and flexibility.
-- **CLI framework:** Use `github.com/urfave/cli/v2` for command-line interface.
-- **Serialization:** Use Protocol Buffers for manifest file format.
-- **Internal packages:** Non-exported implementation details go in `internal/` subdirectories.
-- **Concurrency:** Use `sync.RWMutex` for protecting shared state; prefer channels for progress reporting.
-- **Progress channels:** Use buffered channels (size 1) with non-blocking sends to avoid blocking the main operation if the consumer is slow.
-- **Context support:** Long-running operations should accept `context.Context` for cancellation.
-- **NO_COLOR:** Respect the `NO_COLOR` environment variable for disabling colored output.
-- **Options pattern:** Use `NewWithOptions(opts *Options)` constructor pattern for configurable types.
-
 # Build Status
 
 [![Build Status](https://drone.datavi.be/api/badges/sneak/mfer/status.svg)](https://drone.datavi.be/sneak/mfer)
@@ -71,6 +42,9 @@ requests](https://git.eeqj.de/sneak/mfer/pulls) and pass CI to be merged.
 Any changes submitted to this project must also be
 [WTFPL-licensed](https://wtfpl.net) to be considered.
 
+See [`REPO_POLICIES.md`](REPO_POLICIES.md) for detailed coding standards,
+tooling requirements, and workflow conventions.
+
 # Problem Statement
 
 Given a plain URL, there is no standard way to safely and programmatically
@@ -148,14 +122,9 @@ The manifest file would do several important things:
   - metadata size should not be used as an excuse to sacrifice utility (such
     as providing checksums over each chunk of a large file)
 
-# Limitations
-
-- **Manifest size:** Manifests must fit entirely in system memory during reading and writing.
-
 # Open Questions
 
 - Should the manifest file include checksums of individual file chunks, or just for the whole assembled file?
-
   - If so, should the chunksize be fixed or dynamic?
 
 - Should the manifest signature format be GnuPG signatures, or those from
@@ -239,6 +208,15 @@ regardless of filesystem format.
 Please email [`sneak@sneak.berlin`](mailto:sneak@sneak.berlin) with your
 desired username for an account on this Gitea instance.
 
+# See Also
+
+## Prior Art: Metalink
+
+- [Metalink - Mozilla Wiki](https://wiki.mozilla.org/Metalink)
+- [Metalink - Wikipedia](https://en.wikipedia.org/wiki/Metalink)
+- [RFC 5854 - The Metalink Download Description Format](https://datatracker.ietf.org/doc/html/rfc5854)
+- [RFC 6249 - Metalink/HTTP: Mirrors and Hashes](https://www.rfc-editor.org/rfc/rfc6249.html)
+
 ## Links
 
 - Repo: [https://git.eeqj.de/sneak/mfer](https://git.eeqj.de/sneak/mfer)

REPO_POLICIES.md

@@ -0,0 +1,255 @@
+---
+title: Repository Policies
+last_modified: 2026-03-10
+---
+
+This document covers repository structure, tooling, and workflow standards. Code
+style conventions are in separate documents:
+
+- [Code Styleguide](https://git.eeqj.de/sneak/prompts/raw/branch/main/prompts/CODE_STYLEGUIDE.md)
+  (general, bash, Docker)
+- [Go](https://git.eeqj.de/sneak/prompts/raw/branch/main/prompts/CODE_STYLEGUIDE_GO.md)
+- [JavaScript](https://git.eeqj.de/sneak/prompts/raw/branch/main/prompts/CODE_STYLEGUIDE_JS.md)
+- [Python](https://git.eeqj.de/sneak/prompts/raw/branch/main/prompts/CODE_STYLEGUIDE_PYTHON.md)
+- [Go HTTP Server Conventions](https://git.eeqj.de/sneak/prompts/raw/branch/main/prompts/GO_HTTP_SERVER_CONVENTIONS.md)
+
+---
+
+- Cross-project documentation (such as this file) must include
+  `last_modified: YYYY-MM-DD` in the YAML front matter so it can be kept in sync
+  with the authoritative source as policies evolve.
+
+- **ALL external references must be pinned by cryptographic hash.** This
+  includes Docker base images, Go modules, npm packages, GitHub Actions, and
+  anything else fetched from a remote source. Version tags (`@v4`, `@latest`,
+  `:3.21`, etc.) are server-mutable and therefore remote code execution
+  vulnerabilities. The ONLY acceptable way to reference an external dependency
+  is by its content hash (Docker `@sha256:...`, Go module hash in `go.sum`, npm
+  integrity hash in lockfile, GitHub Actions `@<commit-sha>`). No exceptions.
+  This also means never `curl | bash` to install tools like pyenv, nvm, rustup,
+  etc. Instead, download a specific release archive from GitHub, verify its hash
+  (hardcoded in the Dockerfile or script), and only then install. Unverified
+  install scripts are arbitrary remote code execution. This is the single most
+  important rule in this document. Double-check every external reference in
+  every file before committing. There are zero exceptions to this rule.
+
+- Every repo with software must have a root `Makefile` with these targets:
+  `make test`, `make lint`, `make fmt` (writes), `make fmt-check` (read-only),
+  `make check` (prereqs: `test`, `lint`, `fmt-check`), `make docker`, and
+  `make hooks` (installs pre-commit hook). A model Makefile is at
+  `https://git.eeqj.de/sneak/prompts/raw/branch/main/Makefile`.
+
+- Always use Makefile targets (`make fmt`, `make test`, `make lint`, etc.)
+  instead of invoking the underlying tools directly. The Makefile is the single
+  source of truth for how these operations are run.
+
+- The Makefile is authoritative documentation for how the repo is used. Beyond
+  the required targets above, it should have targets for every common operation:
+  running a local development server (`make run`, `make dev`), re-initializing
+  or migrating the database (`make db-reset`, `make migrate`), building
+  artifacts (`make build`), generating code, seeding data, or anything else a
+  developer would do regularly. If someone checks out the repo and types
+  `make<tab>`, they should see every meaningful operation available. A new
+  contributor should be able to understand the entire development workflow by
+  reading the Makefile.
+
+- Every repo should have a `Dockerfile`. All Dockerfiles must run `make check`
+  as a build step so the build fails if the branch is not green. For non-server
+  repos, the Dockerfile should bring up a development environment and run
+  `make check`. For server repos, `make check` should run as an early build
+  stage before the final image is assembled.
+
+- Every repo should have a Gitea Actions workflow (`.gitea/workflows/`) that
+  runs `docker build .` on push. Since the Dockerfile already runs `make check`,
+  a successful build implies all checks pass.
+
+- Use platform-standard formatters: `black` for Python, `prettier` for
+  JS/CSS/Markdown/HTML, `go fmt` for Go. Always use default configuration with
+  two exceptions: four-space indents (except Go), and `proseWrap: always` for
+  Markdown (hard-wrap at 80 columns). Documentation and writing repos (Markdown,
+  HTML, CSS) should also have `.prettierrc` and `.prettierignore`.
+
+- Pre-commit hook: `make check` if local testing is possible, otherwise
+  `make lint && make fmt-check`. The Makefile should provide a `make hooks`
+  target to install the pre-commit hook.
+
+- All repos with software must have tests that run via the platform-standard
+  test framework (`go test`, `pytest`, `jest`/`vitest`, etc.). If no meaningful
+  tests exist yet, add the most minimal test possible — e.g. importing the
+  module under test to verify it compiles/parses. There is no excuse for
+  `make test` to be a no-op.
+
+- `make test` must complete in under 20 seconds. Add a 30-second timeout in the
+  Makefile.
+
+- Docker builds must complete in under 5 minutes.
+
+- `make check` must not modify any files in the repo. Tests may use temporary
+  directories.
+
+- `main` must always pass `make check`, no exceptions.
+
+- Never commit secrets. `.env` files, credentials, API keys, and private keys
+  must be in `.gitignore`. No exceptions.
+
+- `.gitignore` should be comprehensive from the start: OS files (`.DS_Store`),
+  editor files (`.swp`, `*~`), language build artifacts, and `node_modules/`.
+  Fetch the standard `.gitignore` from
+  `https://git.eeqj.de/sneak/prompts/raw/branch/main/.gitignore` when setting up
+  a new repo.
+
+- **No build artifacts in version control.** Code-derived data (compiled
+  bundles, minified output, generated assets) must never be committed to the
+  repository if it can be avoided. The build process (e.g. Dockerfile, Makefile)
+  should generate these at build time. Notable exception: Go protobuf generated
+  files (`.pb.go`) ARE committed because repos need to work with `go get`, which
+  downloads code but does not execute code generation.
+
+- Never use `git add -A` or `git add .`. Always stage files explicitly by name.
+
+- Never force-push to `main`.
+
+- Make all changes on a feature branch. You can do whatever you want on a
+  feature branch.
+
+- `.golangci.yml` is standardized and must _NEVER_ be modified by an agent, only
+  manually by the user. Fetch from
+  `https://git.eeqj.de/sneak/prompts/raw/branch/main/.golangci.yml`.
+
+- When pinning images or packages by hash, add a comment above the reference
+  with the version and date (YYYY-MM-DD).
+
+- Use `yarn`, not `npm`.
+
+- Write all dates as YYYY-MM-DD (ISO 8601).
+
+- Simple projects should be configured with environment variables.
+
+- Dockerized web services listen on port 8080 by default, overridable with
+  `PORT`.
+
+- **HTTP/web services must be hardened for production internet exposure before
+  tagging 1.0.** This means full compliance with security best practices
+  including, without limitation, all of the following:
+  - **Security headers** on every response:
+    - `Strict-Transport-Security` (HSTS) with `max-age` of at least one year
+      and `includeSubDomains`.
+    - `Content-Security-Policy` (CSP) with a restrictive default policy
+      (`default-src 'self'` as a baseline, tightened per-resource as
+      needed). Never use `unsafe-inline` or `unsafe-eval` unless
+      unavoidable, and document the reason.
+    - `X-Frame-Options: DENY` (or `SAMEORIGIN` if framing is required).
+      Prefer the `frame-ancestors` CSP directive as the primary control.
+    - `X-Content-Type-Options: nosniff`.
+    - `Referrer-Policy: strict-origin-when-cross-origin` (or stricter).
+    - `Permissions-Policy` restricting access to browser features the
+      application does not use (camera, microphone, geolocation, etc.).
+  - **Request and response limits:**
+    - Maximum request body size enforced on all endpoints (e.g. Go
+      `http.MaxBytesReader`). Choose a sane default per-route; never accept
+      unbounded input.
+    - Maximum response body size where applicable (e.g. paginated APIs).
+    - `ReadTimeout` and `ReadHeaderTimeout` on the `http.Server` to defend
+      against slowloris attacks.
+    - `WriteTimeout` on the `http.Server`.
+    - `IdleTimeout` on the `http.Server`.
+    - Per-handler execution time limits via `context.WithTimeout` or
+      chi/stdlib `middleware.Timeout`.
+  - **Authentication and session security:**
+    - Rate limiting on password-based authentication endpoints. API keys are
+      high-entropy and not susceptible to brute force, so they are exempt.
+    - CSRF tokens on all state-mutating HTML forms. API endpoints
+      authenticated via `Authorization` header (Bearer token, API key) are
+      exempt because the browser does not attach these automatically.
+    - Passwords stored using bcrypt, scrypt, or argon2 — never plain-text,
+      MD5, or SHA.
+    - Session cookies set with `HttpOnly`, `Secure`, and `SameSite=Lax` (or
+      `Strict`) attributes.
+  - **Reverse proxy awareness:**
+    - True client IP detection when behind a reverse proxy
+      (`X-Forwarded-For`, `X-Real-IP`). The application must accept
+      forwarded headers only from a configured set of trusted proxy
+      addresses — never trust `X-Forwarded-For` unconditionally.
+  - **CORS:**
+    - Authenticated endpoints must restrict `Access-Control-Allow-Origin` to
+      an explicit allowlist of known origins. Wildcard (`*`) is acceptable
+      only for public, unauthenticated read-only APIs.
+  - **Error handling:**
+    - Internal errors must never leak stack traces, SQL queries, file paths,
+      or other implementation details to the client. Return generic error
+      messages in production; detailed errors only when `DEBUG` is enabled.
+  - **TLS:**
+    - Services never terminate TLS directly. They are always deployed behind
+      a TLS-terminating reverse proxy. The service itself listens on plain
+      HTTP. However, HSTS headers and `Secure` cookie flags must still be
+      set by the application so that the browser enforces HTTPS end-to-end.
+
+  This list is non-exhaustive. Apply defense-in-depth: if a standard security
+  hardening measure exists for HTTP services and is not listed here, it is
+  still expected. When in doubt, harden.
+
+- `README.md` is the primary documentation. Required sections:
+  - **Description**: First line must include the project name, purpose,
+    category (web server, SPA, CLI tool, etc.), license, and author. Example:
+    "µPaaS is an MIT-licensed Go web application by @sneak that receives
+    git-frontend webhooks and deploys applications via Docker in realtime."
+  - **Getting Started**: Copy-pasteable install/usage code block.
+  - **Rationale**: Why does this exist?
+  - **Design**: How is the program structured?
+  - **TODO**: Update meticulously, even between commits. When planning, put
+    the todo list in the README so a new agent can pick up where the last one
+    left off.
+  - **License**: MIT, GPL, or WTFPL. Ask the user for new projects. Include a
+    `LICENSE` file in the repo root and a License section in the README.
+  - **Author**: [@sneak](https://sneak.berlin).
+
+- First commit of a new repo should contain only `README.md`.
+
+- Go module root: `sneak.berlin/go/<name>`. Always run `go mod tidy` before
+  committing.
+
+- Use SemVer.
+
+- Database migrations live in `internal/db/migrations/` and must be embedded in
+  the binary.
+  - `000_migration.sql` — contains ONLY the creation of the migrations
+    tracking table itself. Nothing else.
+  - `001_schema.sql` — the full application schema.
+  - **Pre-1.0.0:** never add additional migration files (002, 003, etc.).
+    There is no installed base to migrate. Edit `001_schema.sql` directly.
+  - **Post-1.0.0:** add new numbered migration files for each schema change.
+    Never edit existing migrations after release.
+
+- All repos should have an `.editorconfig` enforcing the project's indentation
+  settings.
+
+- Avoid putting files in the repo root unless necessary. Root should contain
+  only project-level config files (`README.md`, `Makefile`, `Dockerfile`,
+  `LICENSE`, `.gitignore`, `.editorconfig`, `REPO_POLICIES.md`, and
+  language-specific config). Everything else goes in a subdirectory. Canonical
+  subdirectory names:
+  - `bin/` — executable scripts and tools
+  - `cmd/` — Go command entrypoints
+  - `configs/` — configuration templates and examples
+  - `deploy/` — deployment manifests (k8s, compose, terraform)
+  - `docs/` — documentation and markdown (README.md stays in root)
+  - `internal/` — Go internal packages
+  - `internal/db/migrations/` — database migrations
+  - `pkg/` — Go library packages
+  - `share/` — systemd units, data files
+  - `static/` — static assets (images, fonts, etc.)
+  - `web/` — web frontend source
+
+- When setting up a new repo, files from the `prompts` repo may be used as
+  templates. Fetch them from
+  `https://git.eeqj.de/sneak/prompts/raw/branch/main/<path>`.
+
+- New repos must contain at minimum:
+  - `README.md`, `.git`, `.gitignore`, `.editorconfig`
+  - `LICENSE`, `REPO_POLICIES.md` (copy from the `prompts` repo)
+  - `Makefile`
+  - `Dockerfile`, `.dockerignore`
+  - `.gitea/workflows/check.yml`
+  - Go: `go.mod`, `go.sum`, `.golangci.yml`
+  - JS: `package.json`, `yarn.lock`, `.prettierrc`, `.prettierignore`
+  - Python: `pyproject.toml`

TODO.md

@@ -2,83 +2,83 @@
 
 ## Design Questions
 
-*sneak: please answer inline below each question. These are preserved for posterity.*
+_sneak: please answer inline below each question. These are preserved for posterity._
 
 ### Format Design
 
 **1. Should `MFFileChecksum` be simplified?**
 Currently it's a separate message wrapping a single `bytes multiHash` field. Since multihash already self-describes the algorithm, `repeated bytes hashes` directly on `MFFilePath` would be simpler and reduce per-file protobuf overhead. Is the extra message layer intentional (e.g. planning to add per-hash metadata like `verified_at`)?
 
-> *answer:*
+> _answer:_
 
 **2. Should file permissions/mode be stored?**
 The format stores mtime/ctime but not Unix file permissions. For archival use (ExFAT, filesystem-independent checksums) this may not matter, but for software distribution or filesystem restoration it's a gap. Should we reserve a field now (e.g. `optional uint32 mode = 305`) even if we don't populate it yet?
 
-> *answer:*
+> _answer:_
 
 **3. Should `atime` be removed from the schema?**
 Access time is volatile, non-deterministic, and often disabled (`noatime`). Including it means two manifests of the same directory at different times will differ, which conflicts with the determinism goal. Remove it, or document it as "never set by default"?
 
-> *answer:*
+> _answer:_
 
 **4. What are the path normalization rules?**
 The proto has `string path` with no specification about: always forward-slash? Must be relative? No `..` components allowed? UTF-8 NFC vs NFD normalization (macOS vs Linux)? Max path length? This is a security issue (path traversal) and a cross-platform compatibility issue. What rules should the spec mandate?
 
-> *answer:*
+> _answer:_
 
 **5. Should we add a version byte after the magic?**
 Currently `ZNAVSRFG` is followed immediately by protobuf. Adding a version byte (`ZNAVSRFG\x01`) would allow future framing changes without requiring protobuf parsing to detect the version. `MFFileOuter.Version` serves this purpose but requires successful deserialization to read. Worth the extra byte?
 
-> *answer:*
+> _answer:_
 
 **6. Should we add a length-prefix after the magic?**
 Protobuf is not self-delimiting. If we ever want to concatenate manifests or append data after the protobuf, the current framing is insufficient. Add a varint or fixed-width length-prefix?
 
-> *answer:*
+> _answer:_
 
 ### Signature Design
 
 **7. What does the outer SHA-256 hash cover — compressed or uncompressed data?**
 The review notes it currently hashes compressed data (good for verifying before decompression), but this should be explicitly documented. Which is the intended behavior?
 
-> *answer:*
+> _answer:_
 
 **8. Should `signatureString()` sign raw bytes instead of a hex-encoded string?**
 Currently the canonical string is `MAGIC-UUID-MULTIHASH` with hex encoding, which adds a transformation layer. Signing the raw `sha256` bytes (or compressed `innerMessage` directly) would be simpler. Keep the string format or switch to raw bytes?
 
-> *answer:*
+> _answer:_
 
 **9. Should we support detached signature files (`.mf.sig`)?**
 Embedded signatures are better for single-file distribution. Detached `.mf.sig` files follow the familiar `SHASUMS`/`SHASUMS.asc` pattern and are simpler for HTTP serving. Support both modes?
 
-> *answer:*
+> _answer:_
 
 **10. GPG vs pure-Go crypto for signatures?**
 Shelling out to `gpg` is fragile (may not be installed, version-dependent output). `github.com/ProtonMail/go-crypto` provides pure-Go OpenPGP, or we could go Ed25519/signify (simpler, no key management). Which direction?
 
-> *answer:*
+> _answer:_
 
 ### Implementation Design
 
 **11. Should manifests be deterministic by default?**
 This means: sort file entries by path, omit `createdAt` timestamp (or make it opt-in), no `atime`. Should determinism be the default, with a `--include-timestamps` flag to opt in?
 
-> *answer:*
+> _answer:_
 
 **12. Should we consolidate or keep both scanner/checker implementations?**
 There are two parallel implementations: `mfer/scanner.go` + `mfer/checker.go` (typed with `FileSize`, `RelFilePath`) and `internal/scanner/` + `internal/checker/` (raw `int64`, `string`). The `mfer/` versions are superior. Delete the `internal/` versions?
 
-> *answer:*
+> _answer:_
 
 **13. Should the `manifest` type be exported?**
 Currently unexported with exported constructors (`New`, `NewFromPaths`, etc.). Consumers can't declare `var m *mfer.manifest`. Export the type, or define an interface?
 
-> *answer:*
+> _answer:_
 
 **14. What should the Go module path be for 1.0?**
 Currently mixed between `sneak.berlin/go/mfer` and `git.eeqj.de/sneak/mfer`. Which is canonical?
 
-> *answer:*
+> _answer:_
 
 ---
 

internal/cli/check.go

@@ -3,6 +3,7 @@ package cli
 import (
 	"encoding/hex"
 	"fmt"
+	"io"
 	"path/filepath"
 	"strings"
 	"time"
@@ -34,29 +35,32 @@ func findManifest(fs afero.Fs, dir string) (string, error) {
 func (mfa *CLIApp) checkManifestOperation(ctx *cli.Context) error {
 	log.Debug("checkManifestOperation()")
 
-	var manifestPath string
+	manifestPath, err := mfa.resolveManifestArg(ctx)
-	var err error
+	if err != nil {
+		return fmt.Errorf("check: %w", err)
+	}
 
-	if ctx.Args().Len() > 0 {
+	// URL manifests need to be downloaded to a temp file for the checker
-		arg := ctx.Args().Get(0)
+	if isHTTPURL(manifestPath) {
-		// Check if arg is a directory or a file
+		rc, fetchErr := mfa.openManifestReader(manifestPath)
-		info, statErr := mfa.Fs.Stat(arg)
+		if fetchErr != nil {
-		if statErr == nil && info.IsDir() {
+			return fmt.Errorf("check: %w", fetchErr)
-			// It's a directory, look for manifest inside
-			manifestPath, err = findManifest(mfa.Fs, arg)
-			if err != nil {
-				return err
-			}
-		} else {
-			// Treat as a file path
-			manifestPath = arg
 		}
-	} else {
+		tmpFile, tmpErr := afero.TempFile(mfa.Fs, "", "mfer-manifest-*.mf")
-		// No argument, look in current directory
+		if tmpErr != nil {
-		manifestPath, err = findManifest(mfa.Fs, ".")
+			_ = rc.Close()
-		if err != nil {
+			return fmt.Errorf("check: failed to create temp file: %w", tmpErr)
-			return err
 		}
+		tmpPath := tmpFile.Name()
+		_, cpErr := io.Copy(tmpFile, rc)
+		_ = rc.Close()
+		_ = tmpFile.Close()
+		if cpErr != nil {
+			_ = mfa.Fs.Remove(tmpPath)
+			return fmt.Errorf("check: failed to download manifest: %w", cpErr)
+		}
+		defer func() { _ = mfa.Fs.Remove(tmpPath) }()
+		manifestPath = tmpPath
 	}
 
 	basePath := ctx.String("base")

internal/cli/export.go

@@ -0,0 +1,72 @@
+package cli
+
+import (
+	"encoding/hex"
+	"encoding/json"
+	"fmt"
+	"time"
+
+	"github.com/urfave/cli/v2"
+	"sneak.berlin/go/mfer/mfer"
+)
+
+// ExportEntry represents a single file entry in the exported JSON output.
+type ExportEntry struct {
+	Path   string   `json:"path"`
+	Size   int64    `json:"size"`
+	Hashes []string `json:"hashes"`
+	Mtime  *string  `json:"mtime,omitempty"`
+	Ctime  *string  `json:"ctime,omitempty"`
+}
+
+func (mfa *CLIApp) exportManifestOperation(ctx *cli.Context) error {
+	pathOrURL, err := mfa.resolveManifestArg(ctx)
+	if err != nil {
+		return fmt.Errorf("export: %w", err)
+	}
+
+	rc, err := mfa.openManifestReader(pathOrURL)
+	if err != nil {
+		return fmt.Errorf("export: %w", err)
+	}
+	defer func() { _ = rc.Close() }()
+
+	manifest, err := mfer.NewManifestFromReader(rc)
+	if err != nil {
+		return fmt.Errorf("export: failed to parse manifest: %w", err)
+	}
+
+	files := manifest.Files()
+	entries := make([]ExportEntry, 0, len(files))
+
+	for _, f := range files {
+		entry := ExportEntry{
+			Path:   f.Path,
+			Size:   f.Size,
+			Hashes: make([]string, 0, len(f.Hashes)),
+		}
+
+		for _, h := range f.Hashes {
+			entry.Hashes = append(entry.Hashes, hex.EncodeToString(h.MultiHash))
+		}
+
+		if f.Mtime != nil {
+			t := time.Unix(f.Mtime.Seconds, int64(f.Mtime.Nanos)).UTC().Format(time.RFC3339Nano)
+			entry.Mtime = &t
+		}
+		if f.Ctime != nil {
+			t := time.Unix(f.Ctime.Seconds, int64(f.Ctime.Nanos)).UTC().Format(time.RFC3339Nano)
+			entry.Ctime = &t
+		}
+
+		entries = append(entries, entry)
+	}
+
+	enc := json.NewEncoder(mfa.Stdout)
+	enc.SetIndent("", "  ")
+	if err := enc.Encode(entries); err != nil {
+		return fmt.Errorf("export: failed to encode JSON: %w", err)
+	}
+
+	return nil
+}

internal/cli/export_test.go

@@ -0,0 +1,137 @@
+package cli
+
+import (
+	"bytes"
+	"context"
+	"encoding/json"
+	"net/http"
+	"net/http/httptest"
+	"testing"
+
+	"github.com/spf13/afero"
+	"github.com/stretchr/testify/assert"
+	"github.com/stretchr/testify/require"
+	"sneak.berlin/go/mfer/mfer"
+)
+
+// buildTestManifest creates a manifest from in-memory files and returns its bytes.
+func buildTestManifest(t *testing.T, files map[string][]byte) []byte {
+	t.Helper()
+	sourceFs := afero.NewMemMapFs()
+	for path, content := range files {
+		require.NoError(t, sourceFs.MkdirAll("/", 0o755))
+		require.NoError(t, afero.WriteFile(sourceFs, "/"+path, content, 0o644))
+	}
+
+	opts := &mfer.ScannerOptions{Fs: sourceFs}
+	s := mfer.NewScannerWithOptions(opts)
+	require.NoError(t, s.EnumerateFS(sourceFs, "/", nil))
+
+	var buf bytes.Buffer
+	require.NoError(t, s.ToManifest(context.Background(), &buf, nil))
+	return buf.Bytes()
+}
+
+func TestExportManifestOperation(t *testing.T) {
+	testFiles := map[string][]byte{
+		"hello.txt":    []byte("Hello, World!"),
+		"sub/file.txt": []byte("nested content"),
+	}
+	manifestData := buildTestManifest(t, testFiles)
+
+	// Write manifest to memfs
+	fs := afero.NewMemMapFs()
+	require.NoError(t, afero.WriteFile(fs, "/test.mf", manifestData, 0o644))
+
+	var stdout, stderr bytes.Buffer
+	exitCode := RunWithOptions(&RunOptions{
+		Appname: "mfer",
+		Args:    []string{"mfer", "export", "/test.mf"},
+		Stdin:   &bytes.Buffer{},
+		Stdout:  &stdout,
+		Stderr:  &stderr,
+		Fs:      fs,
+	})
+
+	require.Equal(t, 0, exitCode, "stderr: %s", stderr.String())
+
+	var entries []ExportEntry
+	require.NoError(t, json.Unmarshal(stdout.Bytes(), &entries))
+	assert.Len(t, entries, 2)
+
+	// Verify entries have expected fields
+	pathSet := make(map[string]bool)
+	for _, e := range entries {
+		pathSet[e.Path] = true
+		assert.NotEmpty(t, e.Hashes, "entry %s should have hashes", e.Path)
+		assert.Greater(t, e.Size, int64(0), "entry %s should have positive size", e.Path)
+	}
+	assert.True(t, pathSet["hello.txt"])
+	assert.True(t, pathSet["sub/file.txt"])
+}
+
+func TestExportFromHTTPURL(t *testing.T) {
+	testFiles := map[string][]byte{
+		"a.txt": []byte("aaa"),
+	}
+	manifestData := buildTestManifest(t, testFiles)
+
+	server := httptest.NewServer(http.HandlerFunc(func(w http.ResponseWriter, r *http.Request) {
+		w.Header().Set("Content-Type", "application/octet-stream")
+		_, _ = w.Write(manifestData)
+	}))
+	defer server.Close()
+
+	var stdout, stderr bytes.Buffer
+	exitCode := RunWithOptions(&RunOptions{
+		Appname: "mfer",
+		Args:    []string{"mfer", "export", server.URL + "/index.mf"},
+		Stdin:   &bytes.Buffer{},
+		Stdout:  &stdout,
+		Stderr:  &stderr,
+		Fs:      afero.NewMemMapFs(),
+	})
+
+	require.Equal(t, 0, exitCode, "stderr: %s", stderr.String())
+
+	var entries []ExportEntry
+	require.NoError(t, json.Unmarshal(stdout.Bytes(), &entries))
+	assert.Len(t, entries, 1)
+	assert.Equal(t, "a.txt", entries[0].Path)
+}
+
+func TestListFromHTTPURL(t *testing.T) {
+	testFiles := map[string][]byte{
+		"one.txt": []byte("1"),
+		"two.txt": []byte("22"),
+	}
+	manifestData := buildTestManifest(t, testFiles)
+
+	server := httptest.NewServer(http.HandlerFunc(func(w http.ResponseWriter, r *http.Request) {
+		_, _ = w.Write(manifestData)
+	}))
+	defer server.Close()
+
+	var stdout, stderr bytes.Buffer
+	exitCode := RunWithOptions(&RunOptions{
+		Appname: "mfer",
+		Args:    []string{"mfer", "list", server.URL + "/index.mf"},
+		Stdin:   &bytes.Buffer{},
+		Stdout:  &stdout,
+		Stderr:  &stderr,
+		Fs:      afero.NewMemMapFs(),
+	})
+
+	require.Equal(t, 0, exitCode, "stderr: %s", stderr.String())
+	output := stdout.String()
+	assert.Contains(t, output, "one.txt")
+	assert.Contains(t, output, "two.txt")
+}
+
+func TestIsHTTPURL(t *testing.T) {
+	assert.True(t, isHTTPURL("http://example.com/manifest.mf"))
+	assert.True(t, isHTTPURL("https://example.com/manifest.mf"))
+	assert.False(t, isHTTPURL("/local/path.mf"))
+	assert.False(t, isHTTPURL("relative/path.mf"))
+	assert.False(t, isHTTPURL("ftp://example.com/file"))
+}

internal/cli/fetch.go

@@ -67,7 +67,7 @@ func (mfa *CLIApp) fetchManifestOperation(ctx *cli.Context) error {
 	// Compute base URL (directory containing manifest)
 	baseURL, err := url.Parse(manifestURL)
 	if err != nil {
-		return err
+		return fmt.Errorf("fetch: invalid manifest URL: %w", err)
 	}
 	baseURL.Path = path.Dir(baseURL.Path)
 	if !strings.HasSuffix(baseURL.Path, "/") {
@@ -113,7 +113,7 @@ func (mfa *CLIApp) fetchManifestOperation(ctx *cli.Context) error {
 			return fmt.Errorf("invalid path in manifest: %w", err)
 		}
 
-		fileURL := baseURL.String() + f.Path
+		fileURL := baseURL.String() + encodeFilePath(f.Path)
 		log.Infof("fetching %s", f.Path)
 
 		if err := downloadFile(fileURL, localPath, f, progress); err != nil {
@@ -139,6 +139,15 @@ func (mfa *CLIApp) fetchManifestOperation(ctx *cli.Context) error {
 	return nil
 }
 
+// encodeFilePath URL-encodes each segment of a file path while preserving slashes.
+func encodeFilePath(p string) string {
+	segments := strings.Split(p, "/")
+	for i, seg := range segments {
+		segments[i] = url.PathEscape(seg)
+	}
+	return strings.Join(segments, "/")
+}
+
 // sanitizePath validates and sanitizes a file path from the manifest.
 // It prevents path traversal attacks and rejects unsafe paths.
 func sanitizePath(p string) (string, error) {
@@ -258,7 +267,7 @@ func downloadFile(fileURL, localPath string, entry *mfer.MFFilePath, progress ch
 	dir := filepath.Dir(localPath)
 	if dir != "" && dir != "." {
 		if err := os.MkdirAll(dir, 0o755); err != nil {
-			return err
+			return fmt.Errorf("failed to create directory %s: %w", dir, err)
 		}
 	}
 
@@ -278,9 +287,9 @@ func downloadFile(fileURL, localPath string, entry *mfer.MFFilePath, progress ch
 	}
 
 	// Fetch file
-	resp, err := http.Get(fileURL)
+	resp, err := http.Get(fileURL) //nolint:gosec // URL constructed from manifest base
 	if err != nil {
-		return err
+		return fmt.Errorf("HTTP request failed: %w", err)
 	}
 	defer func() { _ = resp.Body.Close() }()
 
@@ -298,7 +307,7 @@ func downloadFile(fileURL, localPath string, entry *mfer.MFFilePath, progress ch
 	// Create temp file
 	out, err := os.Create(tmpPath)
 	if err != nil {
-		return err
+		return fmt.Errorf("failed to create temp file: %w", err)
 	}
 
 	// Set up hash computation

internal/cli/fetch_test.go

@@ -16,6 +16,29 @@ import (
 	"sneak.berlin/go/mfer/mfer"
 )
 
+func TestEncodeFilePath(t *testing.T) {
+	tests := []struct {
+		input    string
+		expected string
+	}{
+		{"file.txt", "file.txt"},
+		{"dir/file.txt", "dir/file.txt"},
+		{"my file.txt", "my%20file.txt"},
+		{"dir/my file.txt", "dir/my%20file.txt"},
+		{"file#1.txt", "file%231.txt"},
+		{"file?v=1.txt", "file%3Fv=1.txt"},
+		{"path/to/file with spaces.txt", "path/to/file%20with%20spaces.txt"},
+		{"100%done.txt", "100%25done.txt"},
+	}
+
+	for _, tt := range tests {
+		t.Run(tt.input, func(t *testing.T) {
+			result := encodeFilePath(tt.input)
+			assert.Equal(t, tt.expected, result)
+		})
+	}
+}
+
 func TestSanitizePath(t *testing.T) {
 	// Valid paths that should be accepted
 	validTests := []struct {

internal/cli/freshen.go

@@ -41,8 +41,8 @@ func (mfa *CLIApp) freshenManifestOperation(ctx *cli.Context) error {
 
 	basePath := ctx.String("base")
 	showProgress := ctx.Bool("progress")
-	includeDotfiles := ctx.Bool("IncludeDotfiles")
+	includeDotfiles := ctx.Bool("include-dotfiles")
-	followSymlinks := ctx.Bool("FollowSymLinks")
+	followSymlinks := ctx.Bool("follow-symlinks")
 
 	// Find manifest file
 	var manifestPath string
@@ -54,7 +54,7 @@ func (mfa *CLIApp) freshenManifestOperation(ctx *cli.Context) error {
 		if statErr == nil && info.IsDir() {
 			manifestPath, err = findManifest(mfa.Fs, arg)
 			if err != nil {
-				return err
+				return fmt.Errorf("freshen: %w", err)
 			}
 		} else {
 			manifestPath = arg
@@ -62,7 +62,7 @@ func (mfa *CLIApp) freshenManifestOperation(ctx *cli.Context) error {
 	} else {
 		manifestPath, err = findManifest(mfa.Fs, ".")
 		if err != nil {
-			return err
+			return fmt.Errorf("freshen: %w", err)
 		}
 	}
 
@@ -93,7 +93,7 @@ func (mfa *CLIApp) freshenManifestOperation(ctx *cli.Context) error {
 
 	absBase, err := filepath.Abs(basePath)
 	if err != nil {
-		return err
+		return fmt.Errorf("freshen: invalid base path: %w", err)
 	}
 
 	err = afero.Walk(mfa.Fs, absBase, func(path string, info fs.FileInfo, walkErr error) error {
@@ -104,7 +104,7 @@ func (mfa *CLIApp) freshenManifestOperation(ctx *cli.Context) error {
 		// Get relative path
 		relPath, err := filepath.Rel(absBase, path)
 		if err != nil {
-			return err
+			return fmt.Errorf("freshen: failed to compute relative path for %s: %w", path, err)
 		}
 
 		// Skip the manifest file itself
@@ -226,6 +226,9 @@ func (mfa *CLIApp) freshenManifestOperation(ctx *cli.Context) error {
 	var hashedBytes int64
 
 	builder := mfer.NewBuilder()
+	if ctx.Bool("include-timestamps") {
+		builder.SetIncludeTimestamps(true)
+	}
 
 	// Set up signing options if sign-key is provided
 	if signKey := ctx.String("sign-key"); signKey != "" {

internal/cli/gen.go

@@ -20,9 +20,16 @@ func (mfa *CLIApp) generateManifestOperation(ctx *cli.Context) error {
 	log.Debug("generateManifestOperation()")
 
 	opts := &mfer.ScannerOptions{
-		IncludeDotfiles: ctx.Bool("IncludeDotfiles"),
+		IncludeDotfiles:   ctx.Bool("include-dotfiles"),
-		FollowSymLinks:  ctx.Bool("FollowSymLinks"),
+		FollowSymLinks:    ctx.Bool("follow-symlinks"),
-		Fs:              mfa.Fs,
+		IncludeTimestamps: ctx.Bool("include-timestamps"),
+		Fs:                mfa.Fs,
+	}
+
+	// Set seed for deterministic UUID if provided
+	if seed := ctx.String("seed"); seed != "" {
+		opts.Seed = seed
+		log.Infof("using deterministic seed for manifest UUID")
 	}
 
 	// Set up signing options if sign-key is provided
@@ -59,7 +66,7 @@ func (mfa *CLIApp) generateManifestOperation(ctx *cli.Context) error {
 	if args.Len() == 0 {
 		// Default to current directory
 		if err := s.EnumeratePath(".", enumProgress); err != nil {
-			return err
+			return fmt.Errorf("generate: failed to enumerate current directory: %w", err)
 		}
 	} else {
 		// Collect and validate all paths first
@@ -68,7 +75,7 @@ func (mfa *CLIApp) generateManifestOperation(ctx *cli.Context) error {
 			inputPath := args.Get(i)
 			ap, err := filepath.Abs(inputPath)
 			if err != nil {
-				return err
+				return fmt.Errorf("generate: invalid path %q: %w", inputPath, err)
 			}
 			// Validate path exists before adding to list
 			if exists, _ := afero.Exists(mfa.Fs, ap); !exists {
@@ -78,7 +85,7 @@ func (mfa *CLIApp) generateManifestOperation(ctx *cli.Context) error {
 			paths = append(paths, ap)
 		}
 		if err := s.EnumeratePaths(enumProgress, paths...); err != nil {
-			return err
+			return fmt.Errorf("generate: failed to enumerate paths: %w", err)
 		}
 	}
 	enumWg.Wait()

internal/cli/list.go

@@ -16,32 +16,20 @@ func (mfa *CLIApp) listManifestOperation(ctx *cli.Context) error {
 	longFormat := ctx.Bool("long")
 	print0 := ctx.Bool("print0")
 
-	// Find manifest file
+	pathOrURL, err := mfa.resolveManifestArg(ctx)
-	var manifestPath string
+	if err != nil {
-	var err error
+		return fmt.Errorf("list: %w", err)
-
-	if ctx.Args().Len() > 0 {
-		arg := ctx.Args().Get(0)
-		info, statErr := mfa.Fs.Stat(arg)
-		if statErr == nil && info.IsDir() {
-			manifestPath, err = findManifest(mfa.Fs, arg)
-			if err != nil {
-				return err
-			}
-		} else {
-			manifestPath = arg
-		}
-	} else {
-		manifestPath, err = findManifest(mfa.Fs, ".")
-		if err != nil {
-			return err
-		}
 	}
 
-	// Load manifest
+	rc, err := mfa.openManifestReader(pathOrURL)
-	manifest, err := mfer.NewManifestFromFile(mfa.Fs, manifestPath)
 	if err != nil {
-		return fmt.Errorf("failed to load manifest: %w", err)
+		return fmt.Errorf("list: %w", err)
+	}
+	defer func() { _ = rc.Close() }()
+
+	manifest, err := mfer.NewManifestFromReader(rc)
+	if err != nil {
+		return fmt.Errorf("list: failed to parse manifest: %w", err)
 	}
 
 	files := manifest.Files()

internal/cli/manifest_loader.go

@@ -0,0 +1,56 @@
+package cli
+
+import (
+	"fmt"
+	"io"
+	"net/http"
+	"strings"
+	"time"
+
+	"github.com/urfave/cli/v2"
+)
+
+// isHTTPURL returns true if the string starts with http:// or https://.
+func isHTTPURL(s string) bool {
+	return strings.HasPrefix(s, "http://") || strings.HasPrefix(s, "https://")
+}
+
+// openManifestReader opens a manifest from a path or URL and returns a ReadCloser.
+// The caller must close the returned reader.
+func (mfa *CLIApp) openManifestReader(pathOrURL string) (io.ReadCloser, error) {
+	if isHTTPURL(pathOrURL) {
+		client := &http.Client{Timeout: 30 * time.Second}
+		resp, err := client.Get(pathOrURL) //nolint:gosec // user-provided URL is intentional
+		if err != nil {
+			return nil, fmt.Errorf("failed to fetch %s: %w", pathOrURL, err)
+		}
+		if resp.StatusCode != http.StatusOK {
+			_ = resp.Body.Close()
+			return nil, fmt.Errorf("failed to fetch %s: HTTP %d", pathOrURL, resp.StatusCode)
+		}
+		return resp.Body, nil
+	}
+	f, err := mfa.Fs.Open(pathOrURL)
+	if err != nil {
+		return nil, err
+	}
+	return f, nil
+}
+
+// resolveManifestArg resolves the manifest path from CLI arguments.
+// HTTP(S) URLs are returned as-is. Directories are searched for index.mf/.index.mf.
+// If no argument is given, the current directory is searched.
+func (mfa *CLIApp) resolveManifestArg(ctx *cli.Context) (string, error) {
+	if ctx.Args().Len() > 0 {
+		arg := ctx.Args().Get(0)
+		if isHTTPURL(arg) {
+			return arg, nil
+		}
+		info, statErr := mfa.Fs.Stat(arg)
+		if statErr == nil && info.IsDir() {
+			return findManifest(mfa.Fs, arg)
+		}
+		return arg, nil
+	}
+	return findManifest(mfa.Fs, ".")
+}

internal/cli/mfer.go

@@ -123,14 +123,15 @@ func (mfa *CLIApp) run(args []string) {
 				},
 				Flags: append(commonFlags(),
 					&cli.BoolFlag{
-						Name:    "FollowSymLinks",
+						Name:    "follow-symlinks",
-						Aliases: []string{"follow-symlinks"},
+						Aliases: []string{"L"},
 						Usage:   "Resolve encountered symlinks",
 					},
 					&cli.BoolFlag{
-						Name:    "IncludeDotfiles",
+						Name:    "include-dotfiles",
-						Aliases: []string{"include-dotfiles"},
+						Aliases: []string{"IncludeDotfiles"},
-						Usage:   "Include dot (hidden) files (excluded by default)",
+
+						Usage: "Include dot (hidden) files (excluded by default)",
 					},
 					&cli.StringFlag{
 						Name:    "output",
@@ -154,6 +155,15 @@ func (mfa *CLIApp) run(args []string) {
 						Usage:   "GPG key ID to sign the manifest with",
 						EnvVars: []string{"MFER_SIGN_KEY"},
 					},
+					&cli.StringFlag{
+						Name:    "seed",
+						Usage:   "Seed value for deterministic manifest UUID",
+						EnvVars: []string{"MFER_SEED"},
+					},
+					&cli.BoolFlag{
+						Name:  "include-timestamps",
+						Usage: "Include createdAt timestamp in manifest (omitted by default for determinism)",
+					},
 				),
 			},
 			{
@@ -206,14 +216,15 @@ func (mfa *CLIApp) run(args []string) {
 						Usage:   "Base directory for resolving relative paths",
 					},
 					&cli.BoolFlag{
-						Name:    "FollowSymLinks",
+						Name:    "follow-symlinks",
-						Aliases: []string{"follow-symlinks"},
+						Aliases: []string{"L"},
 						Usage:   "Resolve encountered symlinks",
 					},
 					&cli.BoolFlag{
-						Name:    "IncludeDotfiles",
+						Name:    "include-dotfiles",
-						Aliases: []string{"include-dotfiles"},
+						Aliases: []string{"IncludeDotfiles"},
-						Usage:   "Include dot (hidden) files (excluded by default)",
+
+						Usage: "Include dot (hidden) files (excluded by default)",
 					},
 					&cli.BoolFlag{
 						Name:    "progress",
@@ -226,8 +237,20 @@ func (mfa *CLIApp) run(args []string) {
 						Usage:   "GPG key ID to sign the manifest with",
 						EnvVars: []string{"MFER_SIGN_KEY"},
 					},
+					&cli.BoolFlag{
+						Name:  "include-timestamps",
+						Usage: "Include createdAt timestamp in manifest (omitted by default for determinism)",
+					},
 				),
 			},
+			{
+				Name:      "export",
+				Usage:     "Export manifest contents as JSON",
+				ArgsUsage: "[manifest file or URL]",
+				Action: func(c *cli.Context) error {
+					return mfa.exportManifestOperation(c)
+				},
+			},
 			{
 				Name:  "version",
 				Usage: "Show version",
@@ -269,7 +292,7 @@ func (mfa *CLIApp) run(args []string) {
 		},
 	}
 
-	mfa.app.HideVersion = true
+	mfa.app.HideVersion = false
 	err := mfa.app.Run(args)
 	if err != nil {
 		mfa.exitCode = 1

mfer/builder.go

@@ -5,6 +5,7 @@ import (
 	"errors"
 	"fmt"
 	"io"
+	"sort"
 	"strings"
 	"sync"
 	"time"
@@ -84,10 +85,20 @@ type FileHashProgress struct {
 
 // Builder constructs a manifest by adding files one at a time.
 type Builder struct {
-	mu             sync.Mutex
+	mu                sync.Mutex
-	files          []*MFFilePath
+	files             []*MFFilePath
-	createdAt      time.Time
+	createdAt         time.Time
-	signingOptions *SigningOptions
+	includeTimestamps bool
+	signingOptions    *SigningOptions
+	fixedUUID         []byte // if set, use this UUID instead of generating one
+}
+
+// SetSeed derives a deterministic UUID from the given seed string.
+// The seed is hashed once with SHA-256 and the first 16 bytes are used
+// as a fixed UUID for the manifest.
+func (b *Builder) SetSeed(seed string) {
+	hash := sha256.Sum256([]byte(seed))
+	b.fixedUUID = hash[:16]
 }
 
 // NewBuilder creates a new Builder.
@@ -185,7 +196,7 @@ func (b *Builder) FileCount() int {
 // Returns an error if path is empty, size is negative, or hash is nil/empty.
 func (b *Builder) AddFileWithHash(path RelFilePath, size FileSize, mtime ModTime, hash Multihash) error {
 	if err := ValidatePath(string(path)); err != nil {
-		return err
+		return fmt.Errorf("add file: %w", err)
 	}
 	if size < 0 {
 		return errors.New("size cannot be negative")
@@ -209,6 +220,14 @@ func (b *Builder) AddFileWithHash(path RelFilePath, size FileSize, mtime ModTime
 	return nil
 }
 
+// SetIncludeTimestamps controls whether the manifest includes a createdAt timestamp.
+// By default timestamps are omitted for deterministic output.
+func (b *Builder) SetIncludeTimestamps(include bool) {
+	b.mu.Lock()
+	defer b.mu.Unlock()
+	b.includeTimestamps = include
+}
+
 // SetSigningOptions sets the GPG signing options for the manifest.
 // If opts is non-nil, the manifest will be signed when Build() is called.
 func (b *Builder) SetSigningOptions(opts *SigningOptions) {
@@ -222,30 +241,41 @@ func (b *Builder) Build(w io.Writer) error {
 	b.mu.Lock()
 	defer b.mu.Unlock()
 
+	// Sort files by path for deterministic output
+	sort.Slice(b.files, func(i, j int) bool {
+		return b.files[i].Path < b.files[j].Path
+	})
+
 	// Create inner manifest
 	inner := &MFFile{
-		Version:   MFFile_VERSION_ONE,
+		Version: MFFile_VERSION_ONE,
-		CreatedAt: newTimestampFromTime(b.createdAt),
+		Files:   b.files,
-		Files:     b.files,
+	}
+	if b.includeTimestamps {
+		inner.CreatedAt = newTimestampFromTime(b.createdAt)
 	}
 
 	// Create a temporary manifest to use existing serialization
 	m := &manifest{
 		pbInner:        inner,
 		signingOptions: b.signingOptions,
+		fixedUUID:      b.fixedUUID,
 	}
 
 	// Generate outer wrapper
 	if err := m.generateOuter(); err != nil {
-		return err
+		return fmt.Errorf("build: generate outer: %w", err)
 	}
 
 	// Generate final output
 	if err := m.generate(); err != nil {
-		return err
+		return fmt.Errorf("build: generate: %w", err)
 	}
 
 	// Write to output
 	_, err := w.Write(m.output.Bytes())
-	return err
+	if err != nil {
+		return fmt.Errorf("build: write output: %w", err)
+	}
+	return nil
 }

mfer/builder_test.go

@@ -115,6 +115,207 @@ func TestNewTimestampFromTimeExtremeDate(t *testing.T) {
 	}
 }
 
+func TestBuilderDeterministicOutput(t *testing.T) {
+	buildManifest := func() []byte {
+		b := NewBuilder()
+		// Use a fixed createdAt and UUID so output is reproducible
+		b.createdAt = time.Date(2025, 1, 1, 0, 0, 0, 0, time.UTC)
+		b.fixedUUID = make([]byte, 16) // all zeros
+
+		mtime := ModTime(time.Date(2025, 6, 1, 0, 0, 0, 0, time.UTC))
+
+		// Add files in reverse order to test sorting
+		files := []struct {
+			path    string
+			content string
+		}{
+			{"c/file.txt", "content c"},
+			{"a/file.txt", "content a"},
+			{"b/file.txt", "content b"},
+		}
+		for _, f := range files {
+			r := bytes.NewReader([]byte(f.content))
+			_, err := b.AddFile(RelFilePath(f.path), FileSize(len(f.content)), mtime, r, nil)
+			require.NoError(t, err)
+		}
+
+		var buf bytes.Buffer
+		err := b.Build(&buf)
+		require.NoError(t, err)
+		return buf.Bytes()
+	}
+
+	out1 := buildManifest()
+	out2 := buildManifest()
+	assert.Equal(t, out1, out2, "two builds with same input should produce byte-identical output")
+}
+
+func TestSetSeedDeterministic(t *testing.T) {
+	b1 := NewBuilder()
+	b1.SetSeed("test-seed-value")
+	b2 := NewBuilder()
+	b2.SetSeed("test-seed-value")
+	assert.Equal(t, b1.fixedUUID, b2.fixedUUID, "same seed should produce same UUID")
+	assert.Len(t, b1.fixedUUID, 16, "UUID should be 16 bytes")
+
+	b3 := NewBuilder()
+	b3.SetSeed("different-seed")
+	assert.NotEqual(t, b1.fixedUUID, b3.fixedUUID, "different seeds should produce different UUIDs")
+}
+
+func TestValidatePath(t *testing.T) {
+	valid := []string{
+		"file.txt",
+		"dir/file.txt",
+		"a/b/c/d.txt",
+		"file with spaces.txt",
+		"日本語.txt",
+	}
+	for _, p := range valid {
+		t.Run("valid:"+p, func(t *testing.T) {
+			assert.NoError(t, ValidatePath(p))
+		})
+	}
+
+	invalid := []struct {
+		path string
+		desc string
+	}{
+		{"", "empty"},
+		{"/absolute", "absolute path"},
+		{"has\\backslash", "backslash"},
+		{"has/../traversal", "dot-dot segment"},
+		{"has//double", "empty segment"},
+		{"..", "just dot-dot"},
+		{string([]byte{0xff, 0xfe}), "invalid UTF-8"},
+	}
+	for _, tt := range invalid {
+		t.Run("invalid:"+tt.desc, func(t *testing.T) {
+			assert.Error(t, ValidatePath(tt.path))
+		})
+	}
+}
+
+func TestBuilderAddFileSizeMismatch(t *testing.T) {
+	b := NewBuilder()
+	content := []byte("short")
+	reader := bytes.NewReader(content)
+
+	// Declare wrong size
+	_, err := b.AddFile("test.txt", FileSize(100), ModTime(time.Now()), reader, nil)
+	assert.Error(t, err)
+	assert.Contains(t, err.Error(), "size mismatch")
+}
+
+func TestBuilderAddFileInvalidPath(t *testing.T) {
+	b := NewBuilder()
+	content := []byte("data")
+	reader := bytes.NewReader(content)
+
+	_, err := b.AddFile("", FileSize(len(content)), ModTime(time.Now()), reader, nil)
+	assert.Error(t, err)
+
+	reader.Reset(content)
+	_, err = b.AddFile("/absolute", FileSize(len(content)), ModTime(time.Now()), reader, nil)
+	assert.Error(t, err)
+}
+
+func TestBuilderAddFileWithProgress(t *testing.T) {
+	b := NewBuilder()
+	content := bytes.Repeat([]byte("x"), 1000)
+	reader := bytes.NewReader(content)
+	progress := make(chan FileHashProgress, 100)
+
+	bytesRead, err := b.AddFile("test.txt", FileSize(len(content)), ModTime(time.Now()), reader, progress)
+	close(progress)
+	require.NoError(t, err)
+	assert.Equal(t, FileSize(1000), bytesRead)
+
+	var updates []FileHashProgress
+	for p := range progress {
+		updates = append(updates, p)
+	}
+	assert.NotEmpty(t, updates)
+	// Last update should show all bytes
+	assert.Equal(t, FileSize(1000), updates[len(updates)-1].BytesRead)
+}
+
+func TestBuilderBuildRoundTrip(t *testing.T) {
+	// Build a manifest, deserialize it, verify all fields survive round-trip
+	b := NewBuilder()
+	now := time.Date(2025, 6, 15, 12, 0, 0, 0, time.UTC)
+
+	files := []struct {
+		path    string
+		content []byte
+	}{
+		{"alpha.txt", []byte("alpha content")},
+		{"beta/gamma.txt", []byte("gamma content")},
+		{"beta/delta.txt", []byte("delta content")},
+	}
+
+	for _, f := range files {
+		reader := bytes.NewReader(f.content)
+		_, err := b.AddFile(RelFilePath(f.path), FileSize(len(f.content)), ModTime(now), reader, nil)
+		require.NoError(t, err)
+	}
+
+	var buf bytes.Buffer
+	require.NoError(t, b.Build(&buf))
+
+	m, err := NewManifestFromReader(&buf)
+	require.NoError(t, err)
+
+	mfiles := m.Files()
+	require.Len(t, mfiles, 3)
+
+	// Verify sorted order
+	assert.Equal(t, "alpha.txt", mfiles[0].Path)
+	assert.Equal(t, "beta/delta.txt", mfiles[1].Path)
+	assert.Equal(t, "beta/gamma.txt", mfiles[2].Path)
+
+	// Verify sizes
+	assert.Equal(t, int64(len("alpha content")), mfiles[0].Size)
+
+	// Verify hashes are present
+	for _, f := range mfiles {
+		require.NotEmpty(t, f.Hashes, "file %s should have hashes", f.Path)
+		assert.NotEmpty(t, f.Hashes[0].MultiHash)
+	}
+}
+
+func TestNewManifestFromReaderInvalidMagic(t *testing.T) {
+	_, err := NewManifestFromReader(bytes.NewReader([]byte("NOT_VALID")))
+	assert.Error(t, err)
+	assert.Contains(t, err.Error(), "invalid file format")
+}
+
+func TestNewManifestFromReaderEmpty(t *testing.T) {
+	_, err := NewManifestFromReader(bytes.NewReader([]byte{}))
+	assert.Error(t, err)
+}
+
+func TestNewManifestFromReaderTruncated(t *testing.T) {
+	// Just the magic with nothing after
+	_, err := NewManifestFromReader(bytes.NewReader([]byte(MAGIC)))
+	assert.Error(t, err)
+}
+
+func TestManifestString(t *testing.T) {
+	b := NewBuilder()
+	content := []byte("test")
+	reader := bytes.NewReader(content)
+	_, err := b.AddFile("test.txt", FileSize(len(content)), ModTime(time.Now()), reader, nil)
+	require.NoError(t, err)
+
+	var buf bytes.Buffer
+	require.NoError(t, b.Build(&buf))
+
+	m, err := NewManifestFromReader(&buf)
+	require.NoError(t, err)
+	assert.Contains(t, m.String(), "count=1")
+}
+
 func TestBuilderBuildEmpty(t *testing.T) {
 	b := NewBuilder()
 
@@ -125,3 +326,62 @@ func TestBuilderBuildEmpty(t *testing.T) {
 	// Should still produce valid manifest with 0 files
 	assert.True(t, strings.HasPrefix(buf.String(), MAGIC))
 }
+
+func TestBuilderOmitsCreatedAtByDefault(t *testing.T) {
+	b := NewBuilder()
+	content := []byte("hello")
+	_, err := b.AddFile("test.txt", FileSize(len(content)), ModTime(time.Now()), bytes.NewReader(content), nil)
+	require.NoError(t, err)
+
+	var buf bytes.Buffer
+	require.NoError(t, b.Build(&buf))
+
+	m, err := NewManifestFromReader(&buf)
+	require.NoError(t, err)
+	assert.Nil(t, m.pbInner.CreatedAt, "createdAt should be nil by default for deterministic output")
+}
+
+func TestBuilderIncludesCreatedAtWhenRequested(t *testing.T) {
+	b := NewBuilder()
+	b.SetIncludeTimestamps(true)
+	content := []byte("hello")
+	_, err := b.AddFile("test.txt", FileSize(len(content)), ModTime(time.Now()), bytes.NewReader(content), nil)
+	require.NoError(t, err)
+
+	var buf bytes.Buffer
+	require.NoError(t, b.Build(&buf))
+
+	m, err := NewManifestFromReader(&buf)
+	require.NoError(t, err)
+	assert.NotNil(t, m.pbInner.CreatedAt, "createdAt should be set when IncludeTimestamps is true")
+}
+
+func TestBuilderDeterministicFileOrder(t *testing.T) {
+	// Two builds with same files in different order should produce same file ordering.
+	// Note: UUIDs differ per build, so we compare parsed file lists, not raw bytes.
+	buildAndParse := func(order []string) []*MFFilePath {
+		b := NewBuilder()
+		for _, name := range order {
+			content := []byte("content of " + name)
+			_, err := b.AddFile(RelFilePath(name), FileSize(len(content)), ModTime(time.Unix(1000, 0)), bytes.NewReader(content), nil)
+			require.NoError(t, err)
+		}
+		var buf bytes.Buffer
+		require.NoError(t, b.Build(&buf))
+		m, err := NewManifestFromReader(&buf)
+		require.NoError(t, err)
+		return m.Files()
+	}
+
+	files1 := buildAndParse([]string{"b.txt", "a.txt"})
+	files2 := buildAndParse([]string{"a.txt", "b.txt"})
+
+	require.Len(t, files1, 2)
+	require.Len(t, files2, 2)
+	for i := range files1 {
+		assert.Equal(t, files1[i].Path, files2[i].Path)
+		assert.Equal(t, files1[i].Size, files2[i].Size)
+	}
+	assert.Equal(t, "a.txt", files1[0].Path)
+	assert.Equal(t, "b.txt", files1[1].Path)
+}

mfer/checker.go

@@ -70,6 +70,8 @@ type Checker struct {
 	fs       afero.Fs
 	// manifestPaths is a set of paths in the manifest for quick lookup
 	manifestPaths map[RelFilePath]struct{}
+	// manifestRelPath is the relative path of the manifest file from basePath (for exclusion)
+	manifestRelPath RelFilePath
 	// signature info from the manifest
 	signature     []byte
 	signer        []byte
@@ -100,14 +102,25 @@ func NewChecker(manifestPath string, basePath string, fs afero.Fs) (*Checker, er
 		manifestPaths[RelFilePath(f.Path)] = struct{}{}
 	}
 
+	// Compute manifest's relative path from basePath for exclusion in FindExtraFiles
+	absManifest, err := filepath.Abs(manifestPath)
+	if err != nil {
+		return nil, err
+	}
+	manifestRel, err := filepath.Rel(abs, absManifest)
+	if err != nil {
+		manifestRel = ""
+	}
+
 	return &Checker{
-		basePath:      AbsFilePath(abs),
+		basePath:        AbsFilePath(abs),
-		files:         files,
+		files:           files,
-		fs:            fs,
+		fs:              fs,
-		manifestPaths: manifestPaths,
+		manifestPaths:   manifestPaths,
-		signature:     m.pbOuter.Signature,
+		manifestRelPath: RelFilePath(manifestRel),
-		signer:        m.pbOuter.Signer,
+		signature:       m.pbOuter.Signature,
-		signingPubKey: m.pbOuter.SigningPubKey,
+		signer:          m.pbOuter.Signer,
+		signingPubKey:   m.pbOuter.SigningPubKey,
 	}, nil
 }
 
@@ -170,6 +183,7 @@ func (c *Checker) Check(ctx context.Context, results chan<- Result, progress cha
 	var failures FileCount
 
 	startTime := time.Now()
+	lastProgressTime := time.Now()
 
 	for _, entry := range c.files {
 		select {
@@ -188,29 +202,34 @@ func (c *Checker) Check(ctx context.Context, results chan<- Result, progress cha
 			results <- result
 		}
 
-		// Send progress with rate and ETA calculation
+		// Send progress at most once per second (rate-limited)
 		if progress != nil {
-			elapsed := time.Since(startTime)
+			now := time.Now()
-			var bytesPerSec float64
+			isLast := checkedFiles == totalFiles
-			var eta time.Duration
+			if isLast || now.Sub(lastProgressTime) >= time.Second {
+				elapsed := time.Since(startTime)
+				var bytesPerSec float64
+				var eta time.Duration
 
-			if elapsed > 0 && checkedBytes > 0 {
+				if elapsed > 0 && checkedBytes > 0 {
-				bytesPerSec = float64(checkedBytes) / elapsed.Seconds()
+					bytesPerSec = float64(checkedBytes) / elapsed.Seconds()
-				remainingBytes := totalBytes - checkedBytes
+					remainingBytes := totalBytes - checkedBytes
-				if bytesPerSec > 0 {
+					if bytesPerSec > 0 {
-					eta = time.Duration(float64(remainingBytes)/bytesPerSec) * time.Second
+						eta = time.Duration(float64(remainingBytes)/bytesPerSec) * time.Second
+					}
 				}
-			}
 
-			sendCheckStatus(progress, CheckStatus{
+				sendCheckStatus(progress, CheckStatus{
-				TotalFiles:   totalFiles,
+					TotalFiles:   totalFiles,
-				CheckedFiles: checkedFiles,
+					CheckedFiles: checkedFiles,
-				TotalBytes:   totalBytes,
+					TotalBytes:   totalBytes,
-				CheckedBytes: checkedBytes,
+					CheckedBytes: checkedBytes,
-				BytesPerSec:  bytesPerSec,
+					BytesPerSec:  bytesPerSec,
-				ETA:          eta,
+					ETA:          eta,
-				Failures:     failures,
+					Failures:     failures,
-			})
+				})
+				lastProgressTime = now
+			}
 		}
 	}
 
@@ -224,12 +243,7 @@ func (c *Checker) checkFile(entry *MFFilePath, checkedBytes *FileSize) Result {
 	// Check if file exists
 	info, err := c.fs.Stat(absPath)
 	if err != nil {
-		if errors.Is(err, afero.ErrFileNotFound) || errors.Is(err, errors.New("file does not exist")) {
+		if errors.Is(err, os.ErrNotExist) || errors.Is(err, afero.ErrFileNotFound) {
-			return Result{Path: relPath, Status: StatusMissing, Message: "file not found"}
-		}
-		// Check for "file does not exist" style errors
-		exists, _ := afero.Exists(c.fs, absPath)
-		if !exists {
 			return Result{Path: relPath, Status: StatusMissing, Message: "file not found"}
 		}
 		return Result{Path: relPath, Status: StatusError, Message: err.Error()}
@@ -277,12 +291,14 @@ func (c *Checker) checkFile(entry *MFFilePath, checkedBytes *FileSize) Result {
 
 // FindExtraFiles walks the filesystem and reports files not in the manifest.
 // Results are sent to the results channel. The channel is closed when done.
+// Hidden files/directories (starting with .) are skipped, as they are excluded
+// from manifests by default. The manifest file itself is also skipped.
 func (c *Checker) FindExtraFiles(ctx context.Context, results chan<- Result) error {
 	if results != nil {
 		defer close(results)
 	}
 
-	return afero.Walk(c.fs, string(c.basePath), func(path string, info os.FileInfo, err error) error {
+	return afero.Walk(c.fs, string(c.basePath), func(walkPath string, info os.FileInfo, err error) error {
 		if err != nil {
 			return err
 		}
@@ -293,18 +309,32 @@ func (c *Checker) FindExtraFiles(ctx context.Context, results chan<- Result) err
 		default:
 		}
 
+		// Get relative path
+		rel, err := filepath.Rel(string(c.basePath), walkPath)
+		if err != nil {
+			return err
+		}
+
+		// Skip hidden files and directories (dotfiles)
+		if IsHiddenPath(filepath.ToSlash(rel)) {
+			if info.IsDir() {
+				return filepath.SkipDir
+			}
+			return nil
+		}
+
 		// Skip directories
 		if info.IsDir() {
 			return nil
 		}
 
-		// Get relative path
-		rel, err := filepath.Rel(string(c.basePath), path)
-		if err != nil {
-			return err
-		}
 		relPath := RelFilePath(rel)
 
+		// Skip the manifest file itself
+		if relPath == c.manifestRelPath {
+			return nil
+		}
+
 		// Check if path is in manifest
 		if _, exists := c.manifestPaths[relPath]; !exists {
 			if results != nil {

mfer/checker_test.go

@@ -3,6 +3,7 @@ package mfer
 import (
 	"bytes"
 	"context"
+	"fmt"
 	"testing"
 	"time"
 
@@ -305,6 +306,44 @@ func TestFindExtraFiles(t *testing.T) {
 	assert.Equal(t, "not in manifest", extras[0].Message)
 }
 
+func TestFindExtraFilesSkipsManifestAndDotfiles(t *testing.T) {
+	fs := afero.NewMemMapFs()
+	manifestFiles := map[string][]byte{
+		"file1.txt": []byte("in manifest"),
+	}
+	createTestManifest(t, fs, "/data/.index.mf", manifestFiles)
+	createFilesOnDisk(t, fs, "/data", map[string][]byte{
+		"file1.txt": []byte("in manifest"),
+	})
+	// Create dotfile and manifest that should be skipped
+	require.NoError(t, afero.WriteFile(fs, "/data/.hidden", []byte("hidden"), 0o644))
+	require.NoError(t, afero.WriteFile(fs, "/data/.config/settings", []byte("cfg"), 0o644))
+	// Create a real extra file
+	require.NoError(t, fs.MkdirAll("/data", 0o755))
+	require.NoError(t, afero.WriteFile(fs, "/data/extra.txt", []byte("extra"), 0o644))
+
+	chk, err := NewChecker("/data/.index.mf", "/data", fs)
+	require.NoError(t, err)
+
+	results := make(chan Result, 10)
+	err = chk.FindExtraFiles(context.Background(), results)
+	require.NoError(t, err)
+
+	var extras []Result
+	for r := range results {
+		extras = append(extras, r)
+	}
+
+	// Should only report extra.txt, not .hidden, .config/settings, or .index.mf
+	for _, e := range extras {
+		t.Logf("extra: %s", e.Path)
+	}
+	assert.Len(t, extras, 1)
+	if len(extras) > 0 {
+		assert.Equal(t, RelFilePath("extra.txt"), extras[0].Path)
+	}
+}
+
 func TestFindExtraFilesContextCancellation(t *testing.T) {
 	fs := afero.NewMemMapFs()
 	files := map[string][]byte{"file.txt": []byte("data")}
@@ -381,6 +420,94 @@ func TestCheckSubdirectories(t *testing.T) {
 	assert.Equal(t, 3, okCount)
 }
 
+func TestCheckMissingFileDetectedWithoutFallback(t *testing.T) {
+	// Regression test: errors.Is(err, errors.New("...")) never matches because
+	// errors.New creates a new value each time. The fix uses os.ErrNotExist instead.
+	fs := afero.NewMemMapFs()
+	files := map[string][]byte{
+		"exists.txt":  []byte("here"),
+		"missing.txt": []byte("not on disk"),
+	}
+	createTestManifest(t, fs, "/manifest.mf", files)
+	// Only create one file on disk
+	createFilesOnDisk(t, fs, "/data", map[string][]byte{
+		"exists.txt": []byte("here"),
+	})
+
+	chk, err := NewChecker("/manifest.mf", "/data", fs)
+	require.NoError(t, err)
+
+	results := make(chan Result, 10)
+	err = chk.Check(context.Background(), results, nil)
+	require.NoError(t, err)
+
+	statusCounts := map[Status]int{}
+	for r := range results {
+		statusCounts[r.Status]++
+		if r.Status == StatusMissing {
+			assert.Equal(t, RelFilePath("missing.txt"), r.Path)
+		}
+	}
+	assert.Equal(t, 1, statusCounts[StatusOK], "one file should be OK")
+	assert.Equal(t, 1, statusCounts[StatusMissing], "one file should be MISSING")
+	assert.Equal(t, 0, statusCounts[StatusError], "no files should be ERROR")
+}
+
+func TestFindExtraFilesSkipsDotfiles(t *testing.T) {
+	// Regression test for #16: FindExtraFiles should not report dotfiles
+	// or the manifest file itself as extra files.
+	fs := afero.NewMemMapFs()
+	files := map[string][]byte{
+		"file1.txt": []byte("in manifest"),
+	}
+	createTestManifest(t, fs, "/data/.index.mf", files)
+	createFilesOnDisk(t, fs, "/data", files)
+
+	// Add dotfiles and manifest file on disk
+	require.NoError(t, afero.WriteFile(fs, "/data/.hidden", []byte("dotfile"), 0o644))
+	require.NoError(t, fs.MkdirAll("/data/.git", 0o755))
+	require.NoError(t, afero.WriteFile(fs, "/data/.git/config", []byte("git config"), 0o644))
+
+	chk, err := NewChecker("/data/.index.mf", "/data", fs)
+	require.NoError(t, err)
+
+	results := make(chan Result, 10)
+	err = chk.FindExtraFiles(context.Background(), results)
+	require.NoError(t, err)
+
+	var extras []Result
+	for r := range results {
+		extras = append(extras, r)
+	}
+
+	// Should report NO extra files — dotfiles and manifest should be skipped
+	assert.Empty(t, extras, "FindExtraFiles should not report dotfiles or manifest file as extra; got: %v", extras)
+}
+
+func TestFindExtraFilesSkipsManifestFile(t *testing.T) {
+	// The manifest file itself should never be reported as extra
+	fs := afero.NewMemMapFs()
+	files := map[string][]byte{
+		"file1.txt": []byte("content"),
+	}
+	createTestManifest(t, fs, "/data/index.mf", files)
+	createFilesOnDisk(t, fs, "/data", files)
+
+	chk, err := NewChecker("/data/index.mf", "/data", fs)
+	require.NoError(t, err)
+
+	results := make(chan Result, 10)
+	err = chk.FindExtraFiles(context.Background(), results)
+	require.NoError(t, err)
+
+	var extras []Result
+	for r := range results {
+		extras = append(extras, r)
+	}
+
+	assert.Empty(t, extras, "manifest file should not be reported as extra; got: %v", extras)
+}
+
 func TestCheckEmptyManifest(t *testing.T) {
 	fs := afero.NewMemMapFs()
 	// Create manifest with no files
@@ -402,3 +529,40 @@ func TestCheckEmptyManifest(t *testing.T) {
 	}
 	assert.Equal(t, 0, count)
 }
+
+func TestCheckProgressRateLimited(t *testing.T) {
+	// Create many small files - progress should be rate-limited, not one per file.
+	// With rate-limiting to once per second, we should get far fewer progress
+	// updates than files (plus one final update).
+	fs := afero.NewMemMapFs()
+	files := make(map[string][]byte, 100)
+	for i := 0; i < 100; i++ {
+		name := fmt.Sprintf("file%03d.txt", i)
+		files[name] = []byte("content")
+	}
+	createTestManifest(t, fs, "/manifest.mf", files)
+	createFilesOnDisk(t, fs, "/data", files)
+
+	chk, err := NewChecker("/manifest.mf", "/data", fs)
+	require.NoError(t, err)
+
+	results := make(chan Result, 200)
+	progress := make(chan CheckStatus, 200)
+	err = chk.Check(context.Background(), results, progress)
+	require.NoError(t, err)
+
+	// Drain results
+	for range results {
+	}
+
+	// Count progress updates
+	var progressCount int
+	for range progress {
+		progressCount++
+	}
+
+	// Should be far fewer than 100 (rate-limited to once per second)
+	// At minimum we get the final update
+	assert.GreaterOrEqual(t, progressCount, 1, "should get at least the final progress update")
+	assert.Less(t, progressCount, 100, "progress should be rate-limited, not one per file")
+}

mfer/deserialize.go

@@ -44,7 +44,7 @@ func (m *manifest) deserializeInner() error {
 	// Verify hash of compressed data before decompression
 	h := sha256.New()
 	if _, err := h.Write(m.pbOuter.InnerMessage); err != nil {
-		return err
+		return fmt.Errorf("deserialize: hash write: %w", err)
 	}
 	sha256Hash := h.Sum(nil)
 	if !bytes.Equal(sha256Hash, m.pbOuter.Sha256) {
@@ -72,7 +72,7 @@ func (m *manifest) deserializeInner() error {
 
 	zr, err := zstd.NewReader(bb)
 	if err != nil {
-		return err
+		return fmt.Errorf("deserialize: zstd reader: %w", err)
 	}
 	defer zr.Close()
 
@@ -85,7 +85,7 @@ func (m *manifest) deserializeInner() error {
 	limitedReader := io.LimitReader(zr, maxSize)
 	dat, err := io.ReadAll(limitedReader)
 	if err != nil {
-		return err
+		return fmt.Errorf("deserialize: decompress: %w", err)
 	}
 	if int64(len(dat)) >= MaxDecompressedSize {
 		return fmt.Errorf("decompressed data exceeds maximum allowed size of %d bytes", MaxDecompressedSize)
@@ -100,7 +100,7 @@ func (m *manifest) deserializeInner() error {
 	// Deserialize inner message
 	m.pbInner = new(MFFile)
 	if err := proto.Unmarshal(dat, m.pbInner); err != nil {
-		return err
+		return fmt.Errorf("deserialize: unmarshal inner: %w", err)
 	}
 
 	// Validate inner UUID

mfer/gpg.go

@@ -20,7 +20,7 @@ type SigningOptions struct {
 // gpgSign creates a detached signature of the data using the specified key.
 // Returns the armored detached signature.
 func gpgSign(data []byte, keyID GPGKeyID) ([]byte, error) {
-	cmd := exec.Command("gpg",
+	cmd := exec.Command("gpg", "--batch", "--no-tty",
 		"--detach-sign",
 		"--armor",
 		"--local-user", string(keyID),
@@ -42,7 +42,7 @@ func gpgSign(data []byte, keyID GPGKeyID) ([]byte, error) {
 // gpgExportPublicKey exports the public key for the specified key ID.
 // Returns the armored public key.
 func gpgExportPublicKey(keyID GPGKeyID) ([]byte, error) {
-	cmd := exec.Command("gpg",
+	cmd := exec.Command("gpg", "--batch", "--no-tty",
 		"--export",
 		"--armor",
 		string(keyID),
@@ -65,7 +65,7 @@ func gpgExportPublicKey(keyID GPGKeyID) ([]byte, error) {
 
 // gpgGetKeyFingerprint gets the full fingerprint for a key ID.
 func gpgGetKeyFingerprint(keyID GPGKeyID) ([]byte, error) {
-	cmd := exec.Command("gpg",
+	cmd := exec.Command("gpg", "--batch", "--no-tty",
 		"--with-colons",
 		"--fingerprint",
 		string(keyID),
@@ -100,7 +100,7 @@ func gpgExtractPubKeyFingerprint(pubKey []byte) (string, error) {
 	if err != nil {
 		return "", fmt.Errorf("failed to create temp dir: %w", err)
 	}
-	defer os.RemoveAll(tmpDir)
+	defer func() { _ = os.RemoveAll(tmpDir) }()
 
 	// Set restrictive permissions
 	if err := os.Chmod(tmpDir, 0o700); err != nil {
@@ -114,7 +114,7 @@ func gpgExtractPubKeyFingerprint(pubKey []byte) (string, error) {
 	}
 
 	// Import the public key into the temporary keyring
-	importCmd := exec.Command("gpg",
+	importCmd := exec.Command("gpg", "--batch", "--no-tty",
 		"--homedir", tmpDir,
 		"--import",
 		pubKeyFile,
@@ -126,7 +126,7 @@ func gpgExtractPubKeyFingerprint(pubKey []byte) (string, error) {
 	}
 
 	// List keys to get fingerprint
-	listCmd := exec.Command("gpg",
+	listCmd := exec.Command("gpg", "--batch", "--no-tty",
 		"--homedir", tmpDir,
 		"--with-colons",
 		"--fingerprint",
@@ -158,7 +158,7 @@ func gpgVerify(data, signature, pubKey []byte) error {
 	if err != nil {
 		return fmt.Errorf("failed to create temp dir: %w", err)
 	}
-	defer os.RemoveAll(tmpDir)
+	defer func() { _ = os.RemoveAll(tmpDir) }()
 
 	// Set restrictive permissions
 	if err := os.Chmod(tmpDir, 0o700); err != nil {
@@ -184,7 +184,7 @@ func gpgVerify(data, signature, pubKey []byte) error {
 	}
 
 	// Import the public key into the temporary keyring
-	importCmd := exec.Command("gpg",
+	importCmd := exec.Command("gpg", "--batch", "--no-tty",
 		"--homedir", tmpDir,
 		"--import",
 		pubKeyFile,
@@ -196,7 +196,7 @@ func gpgVerify(data, signature, pubKey []byte) error {
 	}
 
 	// Verify the signature
-	verifyCmd := exec.Command("gpg",
+	verifyCmd := exec.Command("gpg", "--batch", "--no-tty",
 		"--homedir", tmpDir,
 		"--verify",
 		sigFile,

mfer/gpg_test.go

@@ -34,15 +34,15 @@ func testGPGEnv(t *testing.T) (GPGKeyID, func()) {
 
 	// Save original GNUPGHOME and set new one
 	origGPGHome := os.Getenv("GNUPGHOME")
-	os.Setenv("GNUPGHOME", gpgHome)
+	require.NoError(t, os.Setenv("GNUPGHOME", gpgHome))
 
 	cleanup := func() {
 		if origGPGHome == "" {
-			os.Unsetenv("GNUPGHOME")
+			_ = os.Unsetenv("GNUPGHOME")
 		} else {
-			os.Setenv("GNUPGHOME", origGPGHome)
+			_ = os.Setenv("GNUPGHOME", origGPGHome)
 		}
-		os.RemoveAll(gpgHome)
+		_ = os.RemoveAll(gpgHome)
 	}
 
 	// Generate a test key with no passphrase

mfer/manifest.go

@@ -17,6 +17,7 @@ type manifest struct {
 	pbOuter        *MFFileOuter
 	output         *bytes.Buffer
 	signingOptions *SigningOptions
+	fixedUUID      []byte // if set, use this UUID instead of generating one
 }
 
 func (m *manifest) String() string {

mfer/mf.pb.go

@@ -1,7 +1,7 @@
 // Code generated by protoc-gen-go. DO NOT EDIT.
 // versions:
 // 	protoc-gen-go v1.36.11
-// 	protoc        v6.33.0
+// 	protoc        v6.33.4
 // source: mf.proto
 
 package mfer
@@ -329,6 +329,9 @@ func (x *MFFileOuter) GetSigningPubKey() []byte {
 type MFFilePath struct {
 	state protoimpl.MessageState `protogen:"open.v1"`
 	// required attributes:
+	// Path invariants: must be valid UTF-8, use forward slashes only,
+	// be relative (no leading /), contain no ".." segments, and no
+	// empty segments (no "//").
 	Path string `protobuf:"bytes,1,opt,name=path,proto3" json:"path,omitempty"`
 	Size int64  `protobuf:"varint,2,opt,name=size,proto3" json:"size,omitempty"`
 	// gotta have at least one:
@@ -337,7 +340,6 @@ type MFFilePath struct {
 	MimeType      *string    `protobuf:"bytes,301,opt,name=mimeType,proto3,oneof" json:"mimeType,omitempty"`
 	Mtime         *Timestamp `protobuf:"bytes,302,opt,name=mtime,proto3,oneof" json:"mtime,omitempty"`
 	Ctime         *Timestamp `protobuf:"bytes,303,opt,name=ctime,proto3,oneof" json:"ctime,omitempty"`
-	Atime         *Timestamp `protobuf:"bytes,304,opt,name=atime,proto3,oneof" json:"atime,omitempty"`
 	unknownFields protoimpl.UnknownFields
 	sizeCache     protoimpl.SizeCache
 }
@@ -414,13 +416,6 @@ func (x *MFFilePath) GetCtime() *Timestamp {
 	return nil
 }
 
-func (x *MFFilePath) GetAtime() *Timestamp {
-	if x != nil {
-		return x.Atime
-	}
-	return nil
-}
-
 type MFFileChecksum struct {
 	state protoimpl.MessageState `protogen:"open.v1"`
 	// 1.0 golang implementation must write a multihash here
@@ -566,7 +561,7 @@ const file_mf_proto_rawDesc = "" +
 	"\n" +
 	"_signatureB\t\n" +
 	"\a_signerB\x10\n" +
-	"\x0e_signingPubKey\"\xa2\x02\n" +
+	"\x0e_signingPubKey\"\xf0\x01\n" +
 	"\n" +
 	"MFFilePath\x12\x12\n" +
 	"\x04path\x18\x01 \x01(\tR\x04path\x12\x12\n" +
@@ -576,13 +571,10 @@ const file_mf_proto_rawDesc = "" +
 	"\x05mtime\x18\xae\x02 \x01(\v2\n" +
 	".TimestampH\x01R\x05mtime\x88\x01\x01\x12&\n" +
 	"\x05ctime\x18\xaf\x02 \x01(\v2\n" +
-	".TimestampH\x02R\x05ctime\x88\x01\x01\x12&\n" +
+	".TimestampH\x02R\x05ctime\x88\x01\x01B\v\n" +
-	"\x05atime\x18\xb0\x02 \x01(\v2\n" +
-	".TimestampH\x03R\x05atime\x88\x01\x01B\v\n" +
 	"\t_mimeTypeB\b\n" +
 	"\x06_mtimeB\b\n" +
-	"\x06_ctimeB\b\n" +
+	"\x06_ctime\".\n" +
-	"\x06_atime\".\n" +
 	"\x0eMFFileChecksum\x12\x1c\n" +
 	"\tmultiHash\x18\x01 \x01(\fR\tmultiHash\"\xd6\x01\n" +
 	"\x06MFFile\x12)\n" +
@@ -627,15 +619,14 @@ var file_mf_proto_depIdxs = []int32{
 	6, // 2: MFFilePath.hashes:type_name -> MFFileChecksum
 	3, // 3: MFFilePath.mtime:type_name -> Timestamp
 	3, // 4: MFFilePath.ctime:type_name -> Timestamp
-	3, // 5: MFFilePath.atime:type_name -> Timestamp
+	2, // 5: MFFile.version:type_name -> MFFile.Version
-	2, // 6: MFFile.version:type_name -> MFFile.Version
+	5, // 6: MFFile.files:type_name -> MFFilePath
-	5, // 7: MFFile.files:type_name -> MFFilePath
+	3, // 7: MFFile.createdAt:type_name -> Timestamp
-	3, // 8: MFFile.createdAt:type_name -> Timestamp
+	8, // [8:8] is the sub-list for method output_type
-	9, // [9:9] is the sub-list for method output_type
+	8, // [8:8] is the sub-list for method input_type
-	9, // [9:9] is the sub-list for method input_type
+	8, // [8:8] is the sub-list for extension type_name
-	9, // [9:9] is the sub-list for extension type_name
+	8, // [8:8] is the sub-list for extension extendee
-	9, // [9:9] is the sub-list for extension extendee
+	0, // [0:8] is the sub-list for field type_name
-	0, // [0:9] is the sub-list for field type_name
 }
 
 func init() { file_mf_proto_init() }

mfer/mf.proto

@@ -59,7 +59,6 @@ message MFFilePath {
     optional string mimeType = 301;
     optional Timestamp mtime = 302;
     optional Timestamp ctime = 303;
-    optional Timestamp atime = 304;
 }
 
 message MFFileChecksum {

mfer/scanner.go

@@ -43,10 +43,12 @@ type ScanStatus struct {
 
 // ScannerOptions configures scanner behavior.
 type ScannerOptions struct {
-	IncludeDotfiles bool            // Include files and directories starting with a dot (default: exclude)
+	IncludeDotfiles   bool            // Include files and directories starting with a dot (default: exclude)
-	FollowSymLinks  bool            // Resolve symlinks instead of skipping them
+	FollowSymLinks    bool            // Resolve symlinks instead of skipping them
-	Fs              afero.Fs        // Filesystem to use, defaults to OsFs if nil
+	IncludeTimestamps bool            // Include createdAt timestamp in manifest (default: omit for determinism)
-	SigningOptions  *SigningOptions // GPG signing options (nil = no signing)
+	Fs                afero.Fs        // Filesystem to use, defaults to OsFs if nil
+	SigningOptions    *SigningOptions // GPG signing options (nil = no signing)
+	Seed              string          // If set, derive a deterministic UUID from this seed
 }
 
 // FileEntry represents a file that has been enumerated.
@@ -273,9 +275,15 @@ func (s *Scanner) ToManifest(ctx context.Context, w io.Writer, progress chan<- S
 	s.mu.RUnlock()
 
 	builder := NewBuilder()
+	if s.options.IncludeTimestamps {
+		builder.SetIncludeTimestamps(true)
+	}
 	if s.options.SigningOptions != nil {
 		builder.SetSigningOptions(s.options.SigningOptions)
 	}
+	if s.options.Seed != "" {
+		builder.SetSeed(s.options.Seed)
+	}
 
 	var scannedFiles FileCount
 	var scannedBytes FileSize
@@ -385,6 +393,9 @@ func (s *Scanner) ToManifest(ctx context.Context, w io.Writer, progress chan<- S
 // The path should use forward slashes.
 func IsHiddenPath(p string) bool {
 	tp := path.Clean(p)
+	if tp == "." || tp == "/" {
+		return false
+	}
 	if strings.HasPrefix(tp, ".") {
 		return true
 	}

mfer/scanner_test.go

@@ -352,6 +352,10 @@ func TestIsHiddenPath(t *testing.T) {
 		{"/absolute/.hidden", true},
 		{"./relative", false}, // path.Clean removes leading ./
 		{"a/b/c/.d/e", true},
+		{".", false},          // current directory is not hidden (#14)
+		{"/", false},          // root is not hidden
+		{"./", false},         // current directory with trailing slash
+		{"./file.txt", false}, // file in current directory
 	}
 
 	for _, tt := range tests {

mfer/serialize.go

@@ -34,12 +34,12 @@ func (m *manifest) generate() error {
 	}
 	dat, err := proto.MarshalOptions{Deterministic: true}.Marshal(m.pbOuter)
 	if err != nil {
-		return err
+		return fmt.Errorf("serialize: marshal outer: %w", err)
 	}
 	m.output = bytes.NewBuffer([]byte(MAGIC))
 	_, err = m.output.Write(dat)
 	if err != nil {
-		return err
+		return fmt.Errorf("serialize: write output: %w", err)
 	}
 	return nil
 }
@@ -49,24 +49,29 @@ func (m *manifest) generateOuter() error {
 		return errors.New("internal error")
 	}
 
-	// Generate UUID and set on inner message
+	// Use fixed UUID if provided, otherwise generate a new one
-	manifestUUID := uuid.New()
+	var manifestUUID uuid.UUID
+	if len(m.fixedUUID) == 16 {
+		copy(manifestUUID[:], m.fixedUUID)
+	} else {
+		manifestUUID = uuid.New()
+	}
 	m.pbInner.Uuid = manifestUUID[:]
 
 	innerData, err := proto.MarshalOptions{Deterministic: true}.Marshal(m.pbInner)
 	if err != nil {
-		return err
+		return fmt.Errorf("serialize: marshal inner: %w", err)
 	}
 
 	// Compress the inner data
 	idc := new(bytes.Buffer)
 	zw, err := zstd.NewWriter(idc, zstd.WithEncoderLevel(zstd.SpeedBestCompression))
 	if err != nil {
-		return err
+		return fmt.Errorf("serialize: create compressor: %w", err)
 	}
 	_, err = zw.Write(innerData)
 	if err != nil {
-		return err
+		return fmt.Errorf("serialize: compress: %w", err)
 	}
 	_ = zw.Close()
 
@@ -75,7 +80,7 @@ func (m *manifest) generateOuter() error {
 	// Hash the compressed data for integrity verification before decompression
 	h := sha256.New()
 	if _, err := h.Write(compressedData); err != nil {
-		return err
+		return fmt.Errorf("serialize: hash write: %w", err)
 	}
 	sha256Hash := h.Sum(nil)
 

mfer/url.go

@@ -27,8 +27,12 @@ func (b BaseURL) JoinPath(path RelFilePath) (FileURL, error) {
 		base.Path += "/"
 	}
 
-	// Parse and encode the relative path
+	// Encode each path segment individually to preserve slashes
-	ref, err := url.Parse(url.PathEscape(string(path)))
+	segments := strings.Split(string(path), "/")
+	for i, seg := range segments {
+		segments[i] = url.PathEscape(seg)
+	}
+	ref, err := url.Parse(strings.Join(segments, "/"))
 	if err != nil {
 		return "", err
 	}

mfer/url_test.go

@@ -0,0 +1,44 @@
+package mfer
+
+import (
+	"testing"
+
+	"github.com/stretchr/testify/assert"
+	"github.com/stretchr/testify/require"
+)
+
+func TestBaseURLJoinPath(t *testing.T) {
+	tests := []struct {
+		base     BaseURL
+		path     RelFilePath
+		expected string
+	}{
+		{"https://example.com/dir/", "file.txt", "https://example.com/dir/file.txt"},
+		{"https://example.com/dir", "file.txt", "https://example.com/dir/file.txt"},
+		{"https://example.com/", "sub/file.txt", "https://example.com/sub/file.txt"},
+		{"https://example.com/dir/", "file with spaces.txt", "https://example.com/dir/file%20with%20spaces.txt"},
+	}
+
+	for _, tt := range tests {
+		t.Run(string(tt.base)+"+"+string(tt.path), func(t *testing.T) {
+			result, err := tt.base.JoinPath(tt.path)
+			require.NoError(t, err)
+			assert.Equal(t, tt.expected, string(result))
+		})
+	}
+}
+
+func TestBaseURLString(t *testing.T) {
+	b := BaseURL("https://example.com/")
+	assert.Equal(t, "https://example.com/", b.String())
+}
+
+func TestFileURLString(t *testing.T) {
+	f := FileURL("https://example.com/file.txt")
+	assert.Equal(t, "https://example.com/file.txt", f.String())
+}
+
+func TestManifestURLString(t *testing.T) {
+	m := ManifestURL("https://example.com/index.mf")
+	assert.Equal(t, "https://example.com/index.mf", m.String())
+}