From 28517ae7e1258e9d43f4f43f7b89177235e4f960 Mon Sep 17 00:00:00 2001
From: gerchowl <gerchowl@ethz.ch>
Date: Mon, 2 Mar 2026 09:39:56 +0100
Subject: [PATCH 1/2] feat(fd5): add Rust fd5 crate, JSON schemas, and Cargo
 workspace

Add the Rust fd5 crate implementing Merkle-tree SHA-256 hashing,
verification, and attribute editing with byte-level parity to the
Python implementation. All 12 conformance tests pass.

- Cargo workspace root with members: crates/fd5, h5v
- fd5 crate: hash, verify, edit, schema, attr_ser, error modules
- Conformance tests validating cross-language hash agreement
- JSON schemas extracted from Python product schemas (9 types)
- extract_schemas.py script for regenerating schemas
- Recon schema updated to v1.1.0 with nested /mips/ group

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
---
 Cargo.lock                      | 4499 +++++++++++++++++++++++++++++++
 Cargo.toml                      |    9 +
 crates/fd5/Cargo.toml           |   17 +
 crates/fd5/src/attr_ser.rs      |  154 ++
 crates/fd5/src/edit.rs          |  150 ++
 crates/fd5/src/error.rs         |   26 +
 crates/fd5/src/hash.rs          |  296 ++
 crates/fd5/src/lib.rs           |   15 +
 crates/fd5/src/schema.rs        |   40 +
 crates/fd5/src/verify.rs        |   66 +
 crates/fd5/tests/conformance.rs |  268 ++
 schemas/_manifest.json          |  120 +
 schemas/calibration.schema.json |   67 +
 schemas/device_data.schema.json |   68 +
 schemas/listmode.schema.json    |   68 +
 schemas/recon.schema.json       |   48 +
 schemas/roi.schema.json         |   31 +
 schemas/sim.schema.json         |   32 +
 schemas/sinogram.schema.json    |   52 +
 schemas/spectrum.schema.json    |   28 +
 schemas/transform.schema.json   |   43 +
 scripts/extract_schemas.py      |   57 +
 src/fd5/imaging/recon.py        |   76 +-
 tests/test_recon.py             |  140 +-
 24 files changed, 6263 insertions(+), 107 deletions(-)
 create mode 100644 Cargo.lock
 create mode 100644 Cargo.toml
 create mode 100644 crates/fd5/Cargo.toml
 create mode 100644 crates/fd5/src/attr_ser.rs
 create mode 100644 crates/fd5/src/edit.rs
 create mode 100644 crates/fd5/src/error.rs
 create mode 100644 crates/fd5/src/hash.rs
 create mode 100644 crates/fd5/src/lib.rs
 create mode 100644 crates/fd5/src/schema.rs
 create mode 100644 crates/fd5/src/verify.rs
 create mode 100644 crates/fd5/tests/conformance.rs
 create mode 100644 schemas/_manifest.json
 create mode 100644 schemas/calibration.schema.json
 create mode 100644 schemas/device_data.schema.json
 create mode 100644 schemas/listmode.schema.json
 create mode 100644 schemas/recon.schema.json
 create mode 100644 schemas/roi.schema.json
 create mode 100644 schemas/sim.schema.json
 create mode 100644 schemas/sinogram.schema.json
 create mode 100644 schemas/spectrum.schema.json
 create mode 100644 schemas/transform.schema.json
 create mode 100644 scripts/extract_schemas.py

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diff --git a/Cargo.toml b/Cargo.toml
new file mode 100644
index 0000000..382ea51
--- /dev/null
+++ b/Cargo.toml
@@ -0,0 +1,9 @@
+[workspace]
+members = ["crates/fd5", "h5v"]
+resolver = "2"
+
+[workspace.dependencies]
+hdf5-metno = { version = "0.11.0", features = ["blosc-all", "lzf", "static", "zlib"] }
+sha2 = "0.10"
+serde = { version = "1", features = ["derive"] }
+serde_json = "1.0"
diff --git a/crates/fd5/Cargo.toml b/crates/fd5/Cargo.toml
new file mode 100644
index 0000000..40c1e79
--- /dev/null
+++ b/crates/fd5/Cargo.toml
@@ -0,0 +1,17 @@
+[package]
+name = "fd5"
+version = "0.1.0"
+edition = "2021"
+description = "Rust implementation of fd5 Merkle-tree hashing, verification, and editing"
+license = "Apache-2.0"
+
+[dependencies]
+hdf5-metno = { workspace = true }
+hdf5-metno-sys = "0.10.1"
+sha2 = { workspace = true }
+serde = { workspace = true }
+serde_json = { workspace = true }
+thiserror = "2"
+
+[dev-dependencies]
+tempfile = "3"
diff --git a/crates/fd5/src/attr_ser.rs b/crates/fd5/src/attr_ser.rs
new file mode 100644
index 0000000..e3b1b0b
--- /dev/null
+++ b/crates/fd5/src/attr_ser.rs
@@ -0,0 +1,154 @@
+//! Deterministic attribute-to-bytes serialization.
+//!
+//! Must produce byte-identical output to Python's `_serialize_attr` (hash.py L76-85):
+//!
+//! - `str`        → `.encode("utf-8")`
+//! - `bytes`      → as-is
+//! - `np.ndarray` → `.tobytes()` (row-major C-order)
+//! - `np.generic` → `np.array(value).tobytes()`
+//! - fallback     → `str(value).encode("utf-8")`
+//!
+//! In HDF5-metno, attributes arrive as typed values. We read raw bytes for
+//! numeric types and UTF-8 for strings to match Python exactly.
+//!
+//! **Important**: Uses `read_raw` (not `read_1d`) for arrays because
+//! attributes can be multi-dimensional (e.g. 4×4 affine matrices).
+
+use hdf5_metno::types::{FloatSize, IntSize, TypeDescriptor, VarLenAscii, VarLenUnicode};
+use hdf5_metno::Attribute;
+
+use crate::error::Fd5Result;
+
+/// Serialize an HDF5 attribute value to bytes, matching Python's `_serialize_attr`.
+pub fn serialize_attr(attr: &Attribute) -> Fd5Result<Vec<u8>> {
+    let td = attr.dtype()?.to_descriptor()?;
+
+    if attr.is_scalar() {
+        serialize_scalar(attr, &td)
+    } else {
+        serialize_array(attr, &td)
+    }
+}
+
+fn serialize_scalar(attr: &Attribute, td: &TypeDescriptor) -> Fd5Result<Vec<u8>> {
+    match td {
+        // String types → UTF-8 bytes (matching Python str.encode("utf-8"))
+        TypeDescriptor::VarLenUnicode => {
+            let v: VarLenUnicode = attr.read_scalar()?;
+            Ok(v.as_str().as_bytes().to_vec())
+        }
+        TypeDescriptor::VarLenAscii => {
+            let v: VarLenAscii = attr.read_scalar()?;
+            Ok(v.as_str().as_bytes().to_vec())
+        }
+        TypeDescriptor::FixedAscii(_) | TypeDescriptor::FixedUnicode(_) => {
+            // Read raw, trim trailing nulls, return UTF-8
+            let raw = attr.read_raw::<u8>()?;
+            let s = String::from_utf8_lossy(&raw);
+            let trimmed = s.trim_end_matches('\0');
+            Ok(trimmed.as_bytes().to_vec())
+        }
+
+        // Numeric scalars → np.array(value).tobytes()
+        TypeDescriptor::Integer(int_size) => Ok(match int_size {
+            IntSize::U1 => attr.read_scalar::<i8>()?.to_ne_bytes().to_vec(),
+            IntSize::U2 => attr.read_scalar::<i16>()?.to_ne_bytes().to_vec(),
+            IntSize::U4 => attr.read_scalar::<i32>()?.to_ne_bytes().to_vec(),
+            IntSize::U8 => attr.read_scalar::<i64>()?.to_ne_bytes().to_vec(),
+        }),
+        TypeDescriptor::Unsigned(int_size) => Ok(match int_size {
+            IntSize::U1 => attr.read_scalar::<u8>()?.to_ne_bytes().to_vec(),
+            IntSize::U2 => attr.read_scalar::<u16>()?.to_ne_bytes().to_vec(),
+            IntSize::U4 => attr.read_scalar::<u32>()?.to_ne_bytes().to_vec(),
+            IntSize::U8 => attr.read_scalar::<u64>()?.to_ne_bytes().to_vec(),
+        }),
+        TypeDescriptor::Float(float_size) => Ok(match float_size {
+            FloatSize::U4 => attr.read_scalar::<f32>()?.to_ne_bytes().to_vec(),
+            FloatSize::U8 => attr.read_scalar::<f64>()?.to_ne_bytes().to_vec(),
+        }),
+        TypeDescriptor::Boolean => {
+            let v: bool = attr.read_scalar()?;
+            Ok(vec![v as u8])
+        }
+
+        // Fallback: str(value).encode("utf-8")
+        _ => {
+            let raw = attr.read_raw::<u8>()?;
+            Ok(raw)
+        }
+    }
+}
+
+/// Serialize a non-scalar attribute to bytes.
+///
+/// Uses `read_raw` to handle any dimensionality (1D, 2D, etc.).
+fn serialize_array(attr: &Attribute, td: &TypeDescriptor) -> Fd5Result<Vec<u8>> {
+    match td {
+        TypeDescriptor::Integer(int_size) => Ok(match int_size {
+            IntSize::U1 => {
+                let v = attr.read_raw::<i8>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            IntSize::U2 => {
+                let v = attr.read_raw::<i16>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            IntSize::U4 => {
+                let v = attr.read_raw::<i32>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            IntSize::U8 => {
+                let v = attr.read_raw::<i64>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+        }),
+        TypeDescriptor::Unsigned(int_size) => Ok(match int_size {
+            IntSize::U1 => attr.read_raw::<u8>()?,
+            IntSize::U2 => {
+                let v = attr.read_raw::<u16>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            IntSize::U4 => {
+                let v = attr.read_raw::<u32>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            IntSize::U8 => {
+                let v = attr.read_raw::<u64>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+        }),
+        TypeDescriptor::Float(float_size) => Ok(match float_size {
+            FloatSize::U4 => {
+                let v = attr.read_raw::<f32>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            FloatSize::U8 => {
+                let v = attr.read_raw::<f64>()?;
+                v.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+        }),
+        TypeDescriptor::Boolean => {
+            let v = attr.read_raw::<bool>()?;
+            Ok(v.iter().map(|&b| b as u8).collect())
+        }
+        // For string arrays in attributes, concatenate UTF-8 bytes
+        TypeDescriptor::VarLenUnicode => {
+            let v = attr.read_raw::<VarLenUnicode>()?;
+            let mut buf = Vec::new();
+            for s in &v {
+                buf.extend_from_slice(s.as_str().as_bytes());
+            }
+            Ok(buf)
+        }
+        TypeDescriptor::VarLenAscii => {
+            let v = attr.read_raw::<VarLenAscii>()?;
+            let mut buf = Vec::new();
+            for s in &v {
+                buf.extend_from_slice(s.as_str().as_bytes());
+            }
+            Ok(buf)
+        }
+        // Fallback: try reading raw bytes
+        _ => Ok(attr.read_raw::<u8>()?),
+    }
+}
diff --git a/crates/fd5/src/edit.rs b/crates/fd5/src/edit.rs
new file mode 100644
index 0000000..289301c
--- /dev/null
+++ b/crates/fd5/src/edit.rs
@@ -0,0 +1,150 @@
+//! fd5 attribute editing with copy-on-write or in-place modes.
+//!
+//! After modifying an attribute, the `content_hash` is recomputed and
+//! written back, re-sealing the file.
+
+use std::path::{Path, PathBuf};
+
+use hdf5_metno::types::VarLenUnicode;
+use hdf5_metno::File;
+
+use crate::error::Fd5Result;
+use crate::hash::compute_content_hash;
+
+/// How the edit should be applied.
+#[derive(Debug, Clone, Copy, PartialEq)]
+pub enum EditMode {
+    /// Copy the file first, edit the copy (safe default).
+    CopyOnWrite,
+    /// Edit the original file in place (dev/expert flag).
+    InPlace,
+}
+
+/// Typed attribute values for writing.
+#[derive(Debug, Clone)]
+pub enum AttrValue {
+    String(String),
+    Int64(i64),
+    Float64(f64),
+}
+
+/// Description of a planned edit — shown in confirmation dialog before applying.
+#[derive(Debug, Clone)]
+pub struct EditPlan {
+    pub source_path: PathBuf,
+    pub attr_path: String,
+    pub attr_name: String,
+    pub old_value: String,
+    pub new_value: AttrValue,
+    pub mode: EditMode,
+}
+
+/// Result of a completed edit.
+#[derive(Debug, Clone)]
+pub struct EditResult {
+    pub output_path: PathBuf,
+    pub old_content_hash: String,
+    pub new_content_hash: String,
+}
+
+fn make_vlu(s: &str) -> VarLenUnicode {
+    s.parse().expect("content_hash should not contain null bytes")
+}
+
+impl EditPlan {
+    /// Apply the edit plan: modify the attribute and re-seal with new content_hash.
+    pub fn apply(&self) -> Fd5Result<EditResult> {
+        let target_path = match self.mode {
+            EditMode::CopyOnWrite => {
+                let stem = self
+                    .source_path
+                    .file_stem()
+                    .and_then(|s| s.to_str())
+                    .unwrap_or("file");
+                let ext = self
+                    .source_path
+                    .extension()
+                    .and_then(|s| s.to_str())
+                    .unwrap_or("h5");
+                let parent = self.source_path.parent().unwrap_or(Path::new("."));
+                let target = parent.join(format!("{}_edited.{}", stem, ext));
+                std::fs::copy(&self.source_path, &target)?;
+                target
+            }
+            EditMode::InPlace => self.source_path.clone(),
+        };
+
+        // Open for read-write
+        let file = File::open_rw(&target_path)?;
+        let root_group: &hdf5_metno::Group = &*file;
+
+        // Read old content_hash
+        let old_hash = root_group
+            .attr("content_hash")
+            .ok()
+            .and_then(|a| {
+                a.read_scalar::<VarLenUnicode>()
+                    .map(|v| v.as_str().to_string())
+                    .ok()
+            })
+            .unwrap_or_default();
+
+        // Write the new attribute value on the target object
+        if self.attr_path == "/" {
+            write_attr(root_group, &self.attr_name, &self.new_value)?;
+        } else {
+            let target_group = root_group.group(&self.attr_path)?;
+            write_attr(&target_group, &self.attr_name, &self.new_value)?;
+        }
+
+        // Recompute and write new content_hash
+        let new_hash = compute_content_hash(&file)?;
+        // Delete old content_hash and write new
+        if root_group.attr("content_hash").is_ok() {
+            root_group.delete_attr("content_hash")?;
+        }
+        let vlu = make_vlu(&new_hash);
+        root_group
+            .new_attr::<VarLenUnicode>()
+            .shape(())
+            .create("content_hash")?
+            .write_scalar(&vlu)?;
+
+        file.flush()?;
+
+        Ok(EditResult {
+            output_path: target_path,
+            old_content_hash: old_hash,
+            new_content_hash: new_hash,
+        })
+    }
+}
+
+/// Write a typed value as an HDF5 attribute, replacing any existing attribute.
+fn write_attr(
+    loc: &hdf5_metno::Location,
+    name: &str,
+    value: &AttrValue,
+) -> Fd5Result<()> {
+    // Delete existing attribute if present
+    if loc.attr(name).is_ok() {
+        loc.delete_attr(name)?;
+    }
+
+    match value {
+        AttrValue::String(s) => {
+            let vlu = make_vlu(s);
+            loc.new_attr::<VarLenUnicode>()
+                .shape(())
+                .create(name)?
+                .write_scalar(&vlu)?;
+        }
+        AttrValue::Int64(v) => {
+            loc.new_attr::<i64>().shape(()).create(name)?.write_scalar(v)?;
+        }
+        AttrValue::Float64(v) => {
+            loc.new_attr::<f64>().shape(()).create(name)?.write_scalar(v)?;
+        }
+    }
+    Ok(())
+}
diff --git a/crates/fd5/src/error.rs b/crates/fd5/src/error.rs
new file mode 100644
index 0000000..afe5012
--- /dev/null
+++ b/crates/fd5/src/error.rs
@@ -0,0 +1,26 @@
+/// Errors produced by the fd5 crate.
+#[derive(Debug, thiserror::Error)]
+pub enum Fd5Error {
+    #[error("HDF5 error: {0}")]
+    Hdf5(#[from] hdf5_metno::Error),
+
+    #[error("IO error: {0}")]
+    Io(#[from] std::io::Error),
+
+    #[error("JSON error: {0}")]
+    Json(#[from] serde_json::Error),
+
+    #[error("missing attribute: {0}")]
+    MissingAttribute(String),
+
+    #[error("hash mismatch: stored={stored}, computed={computed}")]
+    HashMismatch { stored: String, computed: String },
+
+    #[error("not an fd5 file (no content_hash attribute)")]
+    NotFd5,
+
+    #[error("{0}")]
+    Other(String),
+}
+
+pub type Fd5Result<T> = std::result::Result<T, Fd5Error>;
diff --git a/crates/fd5/src/hash.rs b/crates/fd5/src/hash.rs
new file mode 100644
index 0000000..3a7c882
--- /dev/null
+++ b/crates/fd5/src/hash.rs
@@ -0,0 +1,296 @@
+//! fd5 Merkle tree hashing — direct port of Python's `hash.py`.
+//!
+//! Implements the content_hash computation:
+//! 1. `sorted_attrs_hash(obj)` — SHA-256 of sorted attributes (skip `content_hash`)
+//! 2. `dataset_hash(ds)` — `sha256(attrs_hash + sha256(data_bytes))`
+//! 3. `group_hash(group)` — `sha256(attrs_hash + child_hashes)` (recursive)
+//! 4. `compute_content_hash(file)` — `"sha256:" + sha256(root_group_hash)`
+//! 5. `compute_id(inputs)` — `"sha256:" + sha256(sorted_values.join('\0'))`
+
+use sha2::{Digest, Sha256};
+
+use hdf5_metno::types::TypeDescriptor;
+use hdf5_metno::{Dataset, File, Group, Location};
+
+use crate::attr_ser::serialize_attr;
+use crate::error::Fd5Result;
+
+const CHUNK_HASHES_SUFFIX: &str = "_chunk_hashes";
+const EXCLUDED_ATTRS: &[&str] = &["content_hash"];
+
+/// Check if a dataset name is a chunk-hashes auxiliary dataset.
+fn is_chunk_hashes_dataset(name: &str) -> bool {
+    name.ends_with(CHUNK_HASHES_SUFFIX)
+}
+
+/// Compute `sha256(sha256(key + serialize(val)) for key in sorted(attrs))`.
+///
+/// Exactly matches Python's `_sorted_attrs_hash`.
+fn sorted_attrs_hash(obj: &Location) -> Fd5Result<String> {
+    let mut h = Sha256::new();
+
+    let mut attr_names = obj.attr_names()?;
+    attr_names.sort();
+
+    for key in &attr_names {
+        if EXCLUDED_ATTRS.contains(&key.as_str()) {
+            continue;
+        }
+        let attr = obj.attr(key)?;
+        let val_bytes = serialize_attr(&attr)?;
+
+        // inner = sha256(key_utf8 + value_bytes)
+        let mut inner = Sha256::new();
+        inner.update(key.as_bytes());
+        inner.update(&val_bytes);
+        let inner_hex = format!("{:x}", inner.finalize());
+
+        // Feed hex digest string into outer hasher
+        h.update(inner_hex.as_bytes());
+    }
+
+    Ok(format!("{:x}", h.finalize()))
+}
+
+/// Hash a dataset: `sha256(attrs_hash + sha256(data.tobytes()))`.
+///
+/// Reads the entire dataset as contiguous row-major bytes.
+fn dataset_hash(ds: &Dataset) -> Fd5Result<String> {
+    let attrs_h = sorted_attrs_hash(ds)?;
+
+    // Read dataset data as raw bytes
+    let data_bytes = read_dataset_bytes(ds)?;
+    let data_hash = format!("{:x}", Sha256::digest(&data_bytes));
+
+    let combined = format!("{}{}", attrs_h, data_hash);
+    Ok(format!("{:x}", Sha256::digest(combined.as_bytes())))
+}
+
+/// Recursively compute the Merkle hash of a group.
+///
+/// `sha256(sorted_attrs_hash + child_hashes)` where children are
+/// processed in sorted key order, `_chunk_hashes` datasets and
+/// external links are excluded.
+fn group_hash(group: &Group) -> Fd5Result<String> {
+    let mut h = Sha256::new();
+    h.update(sorted_attrs_hash(group)?.as_bytes());
+
+    let mut member_names = group.member_names()?;
+    member_names.sort();
+
+    for key in &member_names {
+        if is_chunk_hashes_dataset(key) {
+            continue;
+        }
+
+        // Check link type — skip external links
+        if is_external_link(group, key) {
+            continue;
+        }
+
+        // Try as group first, then dataset
+        if let Ok(child_group) = group.group(key) {
+            h.update(group_hash(&child_group)?.as_bytes());
+        } else if let Ok(child_ds) = group.dataset(key) {
+            h.update(dataset_hash(&child_ds)?.as_bytes());
+        }
+        // If neither, skip (broken link)
+    }
+
+    Ok(format!("{:x}", h.finalize()))
+}
+
+/// Check if a member is an external link using iter_visit.
+fn is_external_link(group: &Group, name: &str) -> bool {
+    use hdf5_metno::LinkType;
+    use std::cell::Cell;
+
+    let is_external = Cell::new(false);
+    let _ = group.iter_visit_default((), |_group, link_name, link_info, _| {
+        if link_name == name && link_info.link_type == LinkType::External {
+            is_external.set(true);
+            return false; // stop iteration
+        }
+        true // continue
+    });
+    is_external.get()
+}
+
+/// Read all data from a dataset as contiguous row-major bytes.
+///
+/// Matches Python's `ds[...].tobytes()`. Uses `read_raw` to handle
+/// datasets of any dimensionality.
+fn read_dataset_bytes(ds: &Dataset) -> Fd5Result<Vec<u8>> {
+    let td = ds.dtype()?.to_descriptor()?;
+    let total_elems: usize = ds.shape().iter().product();
+
+    if total_elems == 0 {
+        return Ok(Vec::new());
+    }
+
+    let bytes = match td {
+        TypeDescriptor::Float(hdf5_metno::types::FloatSize::U4) => {
+            let data = ds.read_raw::<f32>()?;
+            data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+        }
+        TypeDescriptor::Float(hdf5_metno::types::FloatSize::U8) => {
+            let data = ds.read_raw::<f64>()?;
+            data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+        }
+        TypeDescriptor::Integer(int_size) => match int_size {
+            hdf5_metno::types::IntSize::U1 => {
+                let data = ds.read_raw::<i8>()?;
+                data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            hdf5_metno::types::IntSize::U2 => {
+                let data = ds.read_raw::<i16>()?;
+                data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            hdf5_metno::types::IntSize::U4 => {
+                let data = ds.read_raw::<i32>()?;
+                data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            hdf5_metno::types::IntSize::U8 => {
+                let data = ds.read_raw::<i64>()?;
+                data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+        },
+        TypeDescriptor::Unsigned(int_size) => match int_size {
+            hdf5_metno::types::IntSize::U1 => {
+                let data = ds.read_raw::<u8>()?;
+                data
+            }
+            hdf5_metno::types::IntSize::U2 => {
+                let data = ds.read_raw::<u16>()?;
+                data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            hdf5_metno::types::IntSize::U4 => {
+                let data = ds.read_raw::<u32>()?;
+                data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+            hdf5_metno::types::IntSize::U8 => {
+                let data = ds.read_raw::<u64>()?;
+                data.iter().flat_map(|x| x.to_ne_bytes()).collect()
+            }
+        },
+        TypeDescriptor::Boolean => {
+            let data = ds.read_raw::<bool>()?;
+            data.iter().map(|&b| b as u8).collect()
+        }
+        // Compound datasets (e.g. event tables) and other types:
+        // Read raw bytes using H5Dread with the file's native type.
+        _ => {
+            read_dataset_raw_bytes(ds, total_elems)?
+        }
+    };
+
+    Ok(bytes)
+}
+
+/// Read raw bytes from a dataset using the file's native type.
+///
+/// This handles compound types and any other type where we can't use
+/// a typed `read_raw<T>()` call. Uses the HDF5 C API directly.
+fn read_dataset_raw_bytes(ds: &Dataset, total_elems: usize) -> Fd5Result<Vec<u8>> {
+    use hdf5_metno_sys::h5d::{H5Dget_type, H5Dread};
+    use hdf5_metno_sys::h5p::H5P_DEFAULT;
+    use hdf5_metno_sys::h5s::H5S_ALL;
+    use hdf5_metno_sys::h5t::H5Tclose;
+
+    let elem_size = ds.dtype()?.size();
+    let total_bytes = total_elems * elem_size;
+
+    // Get the dataset's file type (not a converted one)
+    let file_type_id = unsafe { H5Dget_type(ds.id()) };
+    if file_type_id < 0 {
+        return Err(crate::error::Fd5Error::Other(
+            "H5Dget_type failed".to_string(),
+        ));
+    }
+
+    let mut buf = vec![0u8; total_bytes];
+    let ret = unsafe {
+        H5Dread(
+            ds.id(),
+            file_type_id,
+            H5S_ALL,
+            H5S_ALL,
+            H5P_DEFAULT,
+            buf.as_mut_ptr().cast(),
+        )
+    };
+
+    // Close the type we opened
+    unsafe { H5Tclose(file_type_id) };
+
+    if ret < 0 {
+        return Err(crate::error::Fd5Error::Other(
+            "H5Dread failed for compound/opaque dataset".to_string(),
+        ));
+    }
+    Ok(buf)
+}
+
+/// Compute the algorithm-prefixed content hash: `"sha256:<hex>"`.
+///
+/// Direct equivalent of Python's `compute_content_hash(root)`.
+pub fn compute_content_hash(file: &File) -> Fd5Result<String> {
+    let root = file.as_group()?;
+    let root_h = group_hash(&root)?;
+    let final_hash = format!("{:x}", Sha256::digest(root_h.as_bytes()));
+    Ok(format!("sha256:{}", final_hash))
+}
+
+/// Compute the algorithm-prefixed content hash from a Group.
+pub fn compute_content_hash_from_group(group: &Group) -> Fd5Result<String> {
+    let root_h = group_hash(group)?;
+    let final_hash = format!("{:x}", Sha256::digest(root_h.as_bytes()));
+    Ok(format!("sha256:{}", final_hash))
+}
+
+/// Compute `"sha256:" + sha256(sorted_values.join('\0'))`.
+///
+/// Direct equivalent of Python's `compute_id(inputs, id_inputs_desc)`.
+pub fn compute_id(inputs: &std::collections::BTreeMap<String, String>) -> String {
+    let payload: String = inputs
+        .values()
+        .cloned()
+        .collect::<Vec<_>>()
+        .join("\0");
+    let digest = format!("{:x}", Sha256::digest(payload.as_bytes()));
+    format!("sha256:{}", digest)
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use std::collections::BTreeMap;
+
+    #[test]
+    fn test_compute_id_deterministic() {
+        let mut inputs = BTreeMap::new();
+        inputs.insert("b".to_string(), "val_b".to_string());
+        inputs.insert("a".to_string(), "val_a".to_string());
+
+        let id1 = compute_id(&inputs);
+        let id2 = compute_id(&inputs);
+        assert_eq!(id1, id2);
+        assert!(id1.starts_with("sha256:"));
+    }
+
+    #[test]
+    fn test_compute_id_sorted_order() {
+        // BTreeMap is already sorted, but verify the output matches
+        // sha256("val_a\0val_b")
+        let mut inputs = BTreeMap::new();
+        inputs.insert("a".to_string(), "val_a".to_string());
+        inputs.insert("b".to_string(), "val_b".to_string());
+
+        let expected_payload = "val_a\0val_b";
+        let expected = format!(
+            "sha256:{:x}",
+            Sha256::digest(expected_payload.as_bytes())
+        );
+        assert_eq!(compute_id(&inputs), expected);
+    }
+}
diff --git a/crates/fd5/src/lib.rs b/crates/fd5/src/lib.rs
new file mode 100644
index 0000000..17fab23
--- /dev/null
+++ b/crates/fd5/src/lib.rs
@@ -0,0 +1,15 @@
+//! # fd5
+//!
+//! Rust implementation of fd5 Merkle-tree hashing, verification, and editing
+//! for immutable HDF5 data products sealed with `content_hash`.
+
+pub mod attr_ser;
+pub mod edit;
+pub mod error;
+pub mod hash;
+pub mod schema;
+pub mod verify;
+
+pub use error::{Fd5Error, Fd5Result};
+pub use hash::{compute_content_hash, compute_id};
+pub use verify::{Fd5Status, verify};
diff --git a/crates/fd5/src/schema.rs b/crates/fd5/src/schema.rs
new file mode 100644
index 0000000..87afd5f
--- /dev/null
+++ b/crates/fd5/src/schema.rs
@@ -0,0 +1,40 @@
+//! JSON Schema loading, validation, and embedded `_schema` extraction.
+//!
+//! Mirrors Python's `schema.py`.
+
+use hdf5_metno::File;
+use serde_json::Value;
+
+use crate::error::{Fd5Error, Fd5Result};
+
+/// Extract and parse the `_schema` JSON attribute from an fd5 file.
+pub fn dump_schema(file: &File) -> Fd5Result<Value> {
+    let group = file.as_group()?;
+    let attr = group.attr("_schema").map_err(|_| {
+        Fd5Error::MissingAttribute("_schema".to_string())
+    })?;
+    let raw: String = attr.read_scalar::<hdf5_metno::types::VarLenUnicode>()
+        .map(|v| v.as_str().to_string())
+        .or_else(|_| attr.read_scalar::<hdf5_metno::types::VarLenAscii>().map(|v| v.as_str().to_string()))
+        .map_err(|e| Fd5Error::Other(format!("Failed to read _schema attribute: {e}")))?;
+    let schema: Value = serde_json::from_str(&raw)?;
+    Ok(schema)
+}
+
+/// Read the `_schema_version` attribute (int64).
+pub fn schema_version(file: &File) -> Fd5Result<i64> {
+    let group = file.as_group()?;
+    let attr = group.attr("_schema_version").map_err(|_| {
+        Fd5Error::MissingAttribute("_schema_version".to_string())
+    })?;
+    let v: i64 = attr.read_scalar()?;
+    Ok(v)
+}
+
+/// Check if an fd5 file has an embedded schema.
+pub fn has_schema(file: &File) -> bool {
+    file.as_group()
+        .ok()
+        .and_then(|g| g.attr("_schema").ok())
+        .is_some()
+}
diff --git a/crates/fd5/src/verify.rs b/crates/fd5/src/verify.rs
new file mode 100644
index 0000000..80e1424
--- /dev/null
+++ b/crates/fd5/src/verify.rs
@@ -0,0 +1,66 @@
+//! fd5 integrity verification.
+//!
+//! Recomputes the Merkle tree and compares with the stored `content_hash`.
+
+use std::path::Path;
+
+use hdf5_metno::File;
+
+use crate::error::{Fd5Error, Fd5Result};
+use crate::hash::compute_content_hash;
+
+/// Verification status of an fd5 file.
+#[derive(Debug, Clone)]
+pub enum Fd5Status {
+    /// Currently checking (used for UI state).
+    Checking,
+    /// Hash verified successfully.
+    Valid(String),
+    /// Hash mismatch.
+    Invalid { stored: String, computed: String },
+    /// Not an fd5 file (no content_hash attribute).
+    NotFd5,
+    /// Error during verification.
+    Error(String),
+}
+
+/// Recompute the Merkle tree and compare with the stored `content_hash`.
+///
+/// Returns `true` if the hashes match, `false` otherwise (including
+/// when `content_hash` is missing).
+///
+/// Direct equivalent of Python's `verify(path)`.
+pub fn verify(path: &Path) -> Fd5Result<Fd5Status> {
+    let file = File::open(path)?;
+    verify_file(&file)
+}
+
+/// Verify an already-opened file.
+pub fn verify_file(file: &File) -> Fd5Result<Fd5Status> {
+    let group = file.as_group()?;
+
+    // Read stored content_hash
+    let stored = match group.attr("content_hash") {
+        Ok(attr) => {
+            let val: String = attr
+                .read_scalar::<hdf5_metno::types::VarLenUnicode>()
+                .map(|v| v.as_str().to_string())
+                .or_else(|_| {
+                    attr.read_scalar::<hdf5_metno::types::VarLenAscii>()
+                        .map(|v| v.as_str().to_string())
+                })
+                .map_err(|e| Fd5Error::Other(format!("Failed to read content_hash: {e}")))?;
+            val
+        }
+        Err(_) => return Ok(Fd5Status::NotFd5),
+    };
+
+    // Compute fresh hash
+    let computed = compute_content_hash(file)?;
+
+    if computed == stored {
+        Ok(Fd5Status::Valid(stored))
+    } else {
+        Ok(Fd5Status::Invalid { stored, computed })
+    }
+}
diff --git a/crates/fd5/tests/conformance.rs b/crates/fd5/tests/conformance.rs
new file mode 100644
index 0000000..6d32e93
--- /dev/null
+++ b/crates/fd5/tests/conformance.rs
@@ -0,0 +1,268 @@
+//! Cross-language conformance tests for fd5 Merkle tree hashing.
+//!
+//! Uses fixture files generated by `tests/conformance/generate_fixtures.py`
+//! and expected values from `tests/conformance/expected/*.json`.
+//!
+//! **Note**: Run with `--test-threads=1` if HDF5 is not built with
+//! thread-safety enabled, as the raw `H5Dread` calls for compound
+//! datasets are not thread-safe.
+
+use std::path::{Path, PathBuf};
+
+use fd5::verify::Fd5Status;
+use fd5::{compute_content_hash, verify as verify_fn};
+
+fn fixtures_dir() -> PathBuf {
+    Path::new(env!("CARGO_MANIFEST_DIR"))
+        .join("../../tests/conformance/fixtures")
+        .canonicalize()
+        .expect("conformance fixtures directory must exist — run generate_fixtures.py first")
+}
+
+fn invalid_dir() -> PathBuf {
+    Path::new(env!("CARGO_MANIFEST_DIR"))
+        .join("../../tests/conformance/invalid")
+        .canonicalize()
+        .expect("conformance invalid directory must exist — run generate_fixtures.py first")
+}
+
+fn expected_dir() -> PathBuf {
+    Path::new(env!("CARGO_MANIFEST_DIR"))
+        .join("../../tests/conformance/expected")
+        .canonicalize()
+        .expect("conformance expected directory must exist")
+}
+
+fn load_expected(name: &str) -> serde_json::Value {
+    let path = expected_dir().join(format!("{}.json", name));
+    let text = std::fs::read_to_string(&path)
+        .unwrap_or_else(|e| panic!("Failed to read {}: {}", path.display(), e));
+    serde_json::from_str(&text).unwrap()
+}
+
+// -----------------------------------------------------------------------
+// Valid fixtures: verify() returns Valid
+// -----------------------------------------------------------------------
+
+#[test]
+fn verify_minimal() {
+    let path = fixtures_dir().join("minimal.fd5");
+    let expected = load_expected("minimal");
+    assert_eq!(expected["verify"], true);
+
+    let status = verify_fn(&path).unwrap();
+    assert!(
+        matches!(status, Fd5Status::Valid(_)),
+        "minimal.fd5 should verify as Valid, got: {:?}",
+        status
+    );
+}
+
+#[test]
+fn verify_sealed() {
+    let path = fixtures_dir().join("sealed.fd5");
+    let expected = load_expected("sealed");
+    assert_eq!(expected["verify"], true);
+
+    let status = verify_fn(&path).unwrap();
+    assert!(
+        matches!(status, Fd5Status::Valid(_)),
+        "sealed.fd5 should verify as Valid, got: {:?}",
+        status
+    );
+}
+
+#[test]
+fn verify_complex_metadata() {
+    let path = fixtures_dir().join("complex-metadata.fd5");
+    let expected = load_expected("complex-metadata");
+    assert_eq!(expected["verify"], true);
+
+    let status = verify_fn(&path).unwrap();
+    assert!(
+        matches!(status, Fd5Status::Valid(_)),
+        "complex-metadata.fd5 should verify as Valid, got: {:?}",
+        status
+    );
+}
+
+#[test]
+fn verify_multiscale() {
+    let path = fixtures_dir().join("multiscale.fd5");
+    let expected = load_expected("multiscale");
+    assert_eq!(expected["verify"], true);
+
+    let status = verify_fn(&path).unwrap();
+    assert!(
+        matches!(status, Fd5Status::Valid(_)),
+        "multiscale.fd5 should verify as Valid, got: {:?}",
+        status
+    );
+}
+
+#[test]
+fn verify_tabular() {
+    let path = fixtures_dir().join("tabular.fd5");
+    let expected = load_expected("tabular");
+    assert_eq!(expected["verify"], true);
+
+    let status = verify_fn(&path).unwrap();
+    assert!(
+        matches!(status, Fd5Status::Valid(_)),
+        "tabular.fd5 should verify as Valid, got: {:?}",
+        status
+    );
+}
+
+// -----------------------------------------------------------------------
+// with-provenance: may contain external links, expected verify varies
+// -----------------------------------------------------------------------
+
+#[test]
+fn verify_with_provenance() {
+    let path = fixtures_dir().join("with-provenance.fd5");
+    let expected = load_expected("with-provenance");
+    let should_verify = expected["verify"].as_bool().unwrap();
+
+    let status = verify_fn(&path).unwrap();
+    if should_verify {
+        assert!(
+            matches!(status, Fd5Status::Valid(_)),
+            "with-provenance.fd5 should verify as Valid, got: {:?}",
+            status
+        );
+    } else {
+        // Expected to not verify (e.g. external links change hash)
+        // The file still has a content_hash, just doesn't match
+        assert!(
+            !matches!(status, Fd5Status::NotFd5),
+            "with-provenance.fd5 should be an fd5 file"
+        );
+    }
+}
+
+// -----------------------------------------------------------------------
+// Invalid fixtures
+// -----------------------------------------------------------------------
+
+#[test]
+fn verify_bad_hash_fails() {
+    let path = invalid_dir().join("bad-hash.fd5");
+    let status = verify_fn(&path).unwrap();
+    assert!(
+        matches!(status, Fd5Status::Invalid { .. }),
+        "bad-hash.fd5 should verify as Invalid, got: {:?}",
+        status
+    );
+}
+
+#[test]
+fn verify_no_schema_still_has_hash() {
+    // no-schema.fd5 has content_hash but no _schema
+    // Verification should still work since it only checks content_hash
+    let path = invalid_dir().join("no-schema.fd5");
+    let status = verify_fn(&path).unwrap();
+    // This file was created with a valid hash, so verify should pass
+    assert!(
+        matches!(status, Fd5Status::Valid(_)),
+        "no-schema.fd5 has valid content_hash, should verify: {:?}",
+        status
+    );
+}
+
+// -----------------------------------------------------------------------
+// compute_content_hash matches stored hash
+// -----------------------------------------------------------------------
+
+#[test]
+fn content_hash_matches_stored_sealed() {
+    let path = fixtures_dir().join("sealed.fd5");
+    let file = hdf5_metno::File::open(&path).unwrap();
+    let stored: String = file
+        .attr("content_hash")
+        .unwrap()
+        .read_scalar::<hdf5_metno::types::VarLenUnicode>()
+        .map(|v| v.as_str().to_string())
+        .unwrap();
+    let computed = compute_content_hash(&file).unwrap();
+    assert_eq!(
+        computed, stored,
+        "Rust compute_content_hash must match stored hash"
+    );
+}
+
+#[test]
+fn content_hash_matches_stored_minimal() {
+    let path = fixtures_dir().join("minimal.fd5");
+    let file = hdf5_metno::File::open(&path).unwrap();
+    let stored: String = file
+        .attr("content_hash")
+        .unwrap()
+        .read_scalar::<hdf5_metno::types::VarLenUnicode>()
+        .map(|v| v.as_str().to_string())
+        .unwrap();
+    let computed = compute_content_hash(&file).unwrap();
+    assert_eq!(
+        computed, stored,
+        "Rust compute_content_hash must match stored hash for minimal"
+    );
+}
+
+#[test]
+fn content_hash_prefix() {
+    let path = fixtures_dir().join("sealed.fd5");
+    let file = hdf5_metno::File::open(&path).unwrap();
+    let computed = compute_content_hash(&file).unwrap();
+    assert!(
+        computed.starts_with("sha256:"),
+        "content_hash must start with 'sha256:'"
+    );
+    // 7 for "sha256:" + 64 hex chars
+    assert_eq!(computed.len(), 71, "content_hash must be sha256: + 64 hex");
+}
+
+// -----------------------------------------------------------------------
+// Root attributes match expected values
+// -----------------------------------------------------------------------
+
+#[test]
+fn root_attrs_match_sealed() {
+    let expected = load_expected("sealed");
+    let path = fixtures_dir().join("sealed.fd5");
+    let file = hdf5_metno::File::open(&path).unwrap();
+
+    let root_attrs = &expected["root_attrs"];
+    for (key, val) in root_attrs.as_object().unwrap() {
+        let attr = file.attr(key).unwrap_or_else(|_| {
+            panic!("sealed.fd5 missing expected attribute: {}", key)
+        });
+        if let Some(expected_str) = val.as_str() {
+            let actual: String = attr
+                .read_scalar::<hdf5_metno::types::VarLenUnicode>()
+                .map(|v| v.as_str().to_string())
+                .unwrap();
+            assert_eq!(actual, expected_str, "Attribute '{}' mismatch", key);
+        }
+    }
+
+    // Check prefixed attributes exist with correct prefix
+    if let Some(prefixed) = expected.get("root_attrs_prefixed") {
+        for (key, prefix_val) in prefixed.as_object().unwrap() {
+            let attr = file.attr(key).unwrap_or_else(|_| {
+                panic!("sealed.fd5 missing prefixed attribute: {}", key)
+            });
+            let actual: String = attr
+                .read_scalar::<hdf5_metno::types::VarLenUnicode>()
+                .map(|v| v.as_str().to_string())
+                .unwrap();
+            let prefix = prefix_val.as_str().unwrap();
+            assert!(
+                actual.starts_with(prefix),
+                "Attribute '{}' should start with '{}', got '{}'",
+                key,
+                prefix,
+                actual
+            );
+        }
+    }
+}
diff --git a/schemas/_manifest.json b/schemas/_manifest.json
new file mode 100644
index 0000000..f78fbf5
--- /dev/null
+++ b/schemas/_manifest.json
@@ -0,0 +1,120 @@
+{
+  "calibration": {
+    "id_inputs": [
+      "calibration_type",
+      "scanner_model",
+      "scanner_serial",
+      "valid_from"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "calibration"
+    },
+    "schema_file": "calibration.schema.json",
+    "schema_version": "1.0.0"
+  },
+  "device_data": {
+    "id_inputs": [
+      "timestamp",
+      "scanner",
+      "device_type"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "device_data"
+    },
+    "schema_file": "device_data.schema.json",
+    "schema_version": "1.0.0"
+  },
+  "listmode": {
+    "id_inputs": [
+      "timestamp",
+      "scanner",
+      "vendor_series_id"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "listmode"
+    },
+    "schema_file": "listmode.schema.json",
+    "schema_version": "1.0.0"
+  },
+  "recon": {
+    "id_inputs": [
+      "timestamp",
+      "scanner",
+      "vendor_series_id"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "recon"
+    },
+    "schema_file": "recon.schema.json",
+    "schema_version": "1.1.0"
+  },
+  "roi": {
+    "id_inputs": [
+      "timestamp",
+      "scanner",
+      "vendor_series_id"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "roi"
+    },
+    "schema_file": "roi.schema.json",
+    "schema_version": "1.0.0"
+  },
+  "sim": {
+    "id_inputs": [
+      "simulator",
+      "phantom",
+      "random_seed"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "sim"
+    },
+    "schema_file": "sim.schema.json",
+    "schema_version": "1.0.0"
+  },
+  "sinogram": {
+    "id_inputs": [
+      "timestamp",
+      "scanner",
+      "vendor_series_id"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "sinogram"
+    },
+    "schema_file": "sinogram.schema.json",
+    "schema_version": "1.0.0"
+  },
+  "spectrum": {
+    "id_inputs": [
+      "timestamp",
+      "scanner",
+      "measurement_id"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "spectrum"
+    },
+    "schema_file": "spectrum.schema.json",
+    "schema_version": "1.0.0"
+  },
+  "transform": {
+    "id_inputs": [
+      "timestamp",
+      "source_image_id",
+      "target_image_id"
+    ],
+    "required_root_attrs": {
+      "domain": "medical_imaging",
+      "product": "transform"
+    },
+    "schema_file": "transform.schema.json",
+    "schema_version": "1.0.0"
+  }
+}
diff --git a/schemas/calibration.schema.json b/schemas/calibration.schema.json
new file mode 100644
index 0000000..ee44da5
--- /dev/null
+++ b/schemas/calibration.schema.json
@@ -0,0 +1,67 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "calibration"
+    },
+    "calibration_type": {
+      "type": "string",
+      "enum": [
+        "cross_calibration",
+        "crystal_map",
+        "dead_time",
+        "energy_calibration",
+        "gain_map",
+        "normalization",
+        "sensitivity",
+        "timing_calibration"
+      ]
+    },
+    "scanner_model": {
+      "type": "string"
+    },
+    "scanner_serial": {
+      "type": "string"
+    },
+    "valid_from": {
+      "type": "string"
+    },
+    "valid_until": {
+      "type": "string"
+    },
+    "default": {
+      "type": "string"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "domain": {
+      "type": "string"
+    },
+    "metadata": {
+      "type": "object",
+      "description": "Calibration metadata including type-specific parameters and conditions"
+    },
+    "data": {
+      "type": "object",
+      "description": "Calibration datasets \u2014 structure depends on calibration_type"
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "calibration_type",
+    "scanner_model",
+    "scanner_serial",
+    "valid_from",
+    "valid_until"
+  ]
+}
diff --git a/schemas/device_data.schema.json b/schemas/device_data.schema.json
new file mode 100644
index 0000000..40e80c1
--- /dev/null
+++ b/schemas/device_data.schema.json
@@ -0,0 +1,68 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "device_data"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "domain": {
+      "type": "string"
+    },
+    "device_type": {
+      "type": "string",
+      "enum": [
+        "blood_sampler",
+        "environmental_sensor",
+        "infusion_pump",
+        "motion_tracker",
+        "physiological_monitor"
+      ]
+    },
+    "device_model": {
+      "type": "string"
+    },
+    "recording_start": {
+      "type": "string"
+    },
+    "recording_duration": {
+      "type": "object",
+      "properties": {
+        "value": {
+          "type": "number"
+        },
+        "units": {
+          "type": "string",
+          "const": "s"
+        },
+        "unitSI": {
+          "type": "number"
+        }
+      }
+    },
+    "metadata": {
+      "type": "object"
+    },
+    "channels": {
+      "type": "object"
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "name",
+    "description",
+    "device_type",
+    "device_model",
+    "recording_start"
+  ]
+}
diff --git a/schemas/listmode.schema.json b/schemas/listmode.schema.json
new file mode 100644
index 0000000..5aeeab7
--- /dev/null
+++ b/schemas/listmode.schema.json
@@ -0,0 +1,68 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "listmode"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "domain": {
+      "type": "string"
+    },
+    "mode": {
+      "type": "string"
+    },
+    "table_pos": {
+      "type": "object",
+      "description": "Table position with units"
+    },
+    "duration": {
+      "type": "object",
+      "description": "Acquisition duration with units"
+    },
+    "z_min": {
+      "type": "object",
+      "description": "Axial FOV minimum with units"
+    },
+    "z_max": {
+      "type": "object",
+      "description": "Axial FOV maximum with units"
+    },
+    "metadata": {
+      "type": "object",
+      "properties": {
+        "daq": {
+          "type": "object",
+          "description": "Data acquisition system parameters"
+        }
+      }
+    },
+    "raw_data": {
+      "type": "object",
+      "description": "Raw detector event datasets (compound)"
+    },
+    "proc_data": {
+      "type": "object",
+      "description": "Processed event datasets (compound)"
+    },
+    "device_data": {
+      "type": "object",
+      "description": "Embedded device streams (ECG, bellows) following NXlog pattern"
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "name",
+    "description"
+  ]
+}
diff --git a/schemas/recon.schema.json b/schemas/recon.schema.json
new file mode 100644
index 0000000..9535c73
--- /dev/null
+++ b/schemas/recon.schema.json
@@ -0,0 +1,48 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "recon"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "domain": {
+      "type": "string"
+    },
+    "volume": {
+      "type": "object",
+      "description": "Root-level volume dataset (represented as attrs in h5_to_dict)"
+    },
+    "mips": {
+      "type": "object",
+      "description": "MIP projections (coronal, sagittal, axial); N-D for dynamic data"
+    },
+    "frames": {
+      "type": "object",
+      "description": "Frame timing, gating phase, and trigger data for 4D+ volumes"
+    },
+    "device_data": {
+      "type": "object",
+      "description": "Embedded device streams (ECG, bellows) following NXlog pattern"
+    },
+    "provenance": {
+      "type": "object",
+      "description": "Original file provenance, DICOM header, per-slice metadata"
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "name",
+    "description"
+  ]
+}
diff --git a/schemas/roi.schema.json b/schemas/roi.schema.json
new file mode 100644
index 0000000..5017899
--- /dev/null
+++ b/schemas/roi.schema.json
@@ -0,0 +1,31 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "roi"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "domain": {
+      "type": "string"
+    },
+    "timestamp": {
+      "type": "string"
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "name",
+    "description"
+  ]
+}
diff --git a/schemas/sim.schema.json b/schemas/sim.schema.json
new file mode 100644
index 0000000..6fa24ca
--- /dev/null
+++ b/schemas/sim.schema.json
@@ -0,0 +1,32 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "sim"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "domain": {
+      "type": "string"
+    },
+    "ground_truth": {
+      "type": "object",
+      "description": "Ground truth distributions (activity, attenuation)"
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "name",
+    "description"
+  ]
+}
diff --git a/schemas/sinogram.schema.json b/schemas/sinogram.schema.json
new file mode 100644
index 0000000..699f9fe
--- /dev/null
+++ b/schemas/sinogram.schema.json
@@ -0,0 +1,52 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "sinogram"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "domain": {
+      "type": "string"
+    },
+    "n_radial": {
+      "type": "integer"
+    },
+    "n_angular": {
+      "type": "integer"
+    },
+    "n_planes": {
+      "type": "integer"
+    },
+    "span": {
+      "type": "integer"
+    },
+    "max_ring_diff": {
+      "type": "integer"
+    },
+    "tof_bins": {
+      "type": "integer"
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "name",
+    "description",
+    "n_radial",
+    "n_angular",
+    "n_planes",
+    "span",
+    "max_ring_diff",
+    "tof_bins"
+  ]
+}
diff --git a/schemas/spectrum.schema.json b/schemas/spectrum.schema.json
new file mode 100644
index 0000000..bcf2a5e
--- /dev/null
+++ b/schemas/spectrum.schema.json
@@ -0,0 +1,28 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "spectrum"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "n_dimensions": {
+      "type": "integer"
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "name",
+    "description"
+  ]
+}
diff --git a/schemas/transform.schema.json b/schemas/transform.schema.json
new file mode 100644
index 0000000..8ce8128
--- /dev/null
+++ b/schemas/transform.schema.json
@@ -0,0 +1,43 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "type": "object",
+  "properties": {
+    "_schema_version": {
+      "type": "integer"
+    },
+    "product": {
+      "type": "string",
+      "const": "transform"
+    },
+    "name": {
+      "type": "string"
+    },
+    "description": {
+      "type": "string"
+    },
+    "transform_type": {
+      "type": "string",
+      "enum": [
+        "affine",
+        "bspline",
+        "deformable",
+        "rigid"
+      ]
+    },
+    "direction": {
+      "type": "string",
+      "enum": [
+        "source_to_target",
+        "target_to_source"
+      ]
+    }
+  },
+  "required": [
+    "_schema_version",
+    "product",
+    "name",
+    "description",
+    "transform_type",
+    "direction"
+  ]
+}
diff --git a/scripts/extract_schemas.py b/scripts/extract_schemas.py
new file mode 100644
index 0000000..f29b58f
--- /dev/null
+++ b/scripts/extract_schemas.py
@@ -0,0 +1,57 @@
+"""Extract JSON Schema files from Python product schemas.
+
+Generates standalone schema files into ``schemas/`` as the
+language-agnostic single source of truth for fd5 file validation.
+
+Usage::
+
+    uv run python scripts/extract_schemas.py
+"""
+
+from __future__ import annotations
+
+import json
+from pathlib import Path
+
+from fd5.registry import get_schema, list_schemas
+
+
+def main() -> None:
+    schemas_dir = Path(__file__).resolve().parent.parent / "schemas"
+    schemas_dir.mkdir(exist_ok=True)
+
+    manifest: dict[str, dict] = {}
+
+    for product_type in sorted(list_schemas()):
+        schema = get_schema(product_type)
+        schema_dict = schema.json_schema()
+
+        # Sanitise product_type for filename (e.g. "device_data" stays,
+        # but hypothetical "foo/bar" becomes "foo_bar")
+        safe_name = product_type.replace("/", "_")
+        schema_file = f"{safe_name}.schema.json"
+        out_path = schemas_dir / schema_file
+
+        with open(out_path, "w") as f:
+            json.dump(schema_dict, f, indent=2, sort_keys=False)
+            f.write("\n")
+
+        manifest[product_type] = {
+            "schema_file": schema_file,
+            "schema_version": schema.schema_version,
+            "id_inputs": schema.id_inputs(),
+            "required_root_attrs": schema.required_root_attrs(),
+        }
+
+        print(f"  {schema_file}")
+
+    manifest_path = schemas_dir / "_manifest.json"
+    with open(manifest_path, "w") as f:
+        json.dump(manifest, f, indent=2, sort_keys=True)
+        f.write("\n")
+
+    print(f"\nWrote {len(manifest)} schemas + _manifest.json to {schemas_dir}")
+
+
+if __name__ == "__main__":
+    main()
diff --git a/src/fd5/imaging/recon.py b/src/fd5/imaging/recon.py
index 4de24e7..f0a2b84 100644
--- a/src/fd5/imaging/recon.py
+++ b/src/fd5/imaging/recon.py
@@ -20,7 +20,7 @@
 import h5py
 import numpy as np
 
-_SCHEMA_VERSION = "1.0.0"
+_SCHEMA_VERSION = "1.1.0"
 
 _GZIP_LEVEL = 4
 
@@ -47,9 +47,9 @@ def json_schema(self) -> dict[str, Any]:
                     "type": "object",
                     "description": "Root-level volume dataset (represented as attrs in h5_to_dict)",
                 },
-                "mips_per_frame": {
+                "mips": {
                     "type": "object",
-                    "description": "Per-frame MIP projections for dynamic (4D+) data",
+                    "description": "MIP projections (coronal, sagittal, axial); N-D for dynamic data",
                 },
                 "frames": {
                     "type": "object",
@@ -106,10 +106,7 @@ def write(self, target: h5py.File | h5py.Group, data: dict[str, Any]) -> None:
         if "pyramid" in data:
             self._write_pyramid(target, spatial_vol, data)
 
-        self._write_mips(target, spatial_vol)
-
-        if data.get("mips_per_frame") and volume.ndim >= 4:
-            self._write_mips_per_frame(target, volume)
+        self._write_mips(target, volume)
 
         if "device_data" in data:
             self._write_device_data(target, data["device_data"])
@@ -260,58 +257,45 @@ def _write_pyramid(
             ds.attrs["description"] = f"{factor}x downsampled volume"
 
     # ------------------------------------------------------------------
-    # MIP projections
+    # MIP projections (nested under /mips/ group)
     # ------------------------------------------------------------------
 
     def _write_mips(
         self,
-        target: h5py.File | h5py.Group,
-        spatial_vol: np.ndarray,
-    ) -> None:
-        mip_cor = spatial_vol.max(axis=1).astype(np.float32)
-        ds_cor = target.create_dataset("mip_coronal", data=mip_cor)
-        ds_cor.attrs["projection_type"] = "mip"
-        ds_cor.attrs["axis"] = np.int64(1)
-        ds_cor.attrs["description"] = "Coronal MIP (summed over all frames if dynamic)"
-
-        mip_sag = spatial_vol.max(axis=2).astype(np.float32)
-        ds_sag = target.create_dataset("mip_sagittal", data=mip_sag)
-        ds_sag.attrs["projection_type"] = "mip"
-        ds_sag.attrs["axis"] = np.int64(2)
-        ds_sag.attrs["description"] = "Sagittal MIP (summed over all frames if dynamic)"
-
-    # ------------------------------------------------------------------
-    # Per-frame MIPs (optional, 4D+ only)
-    # ------------------------------------------------------------------
-
-    @staticmethod
-    def _write_mips_per_frame(
         target: h5py.File | h5py.Group,
         volume: np.ndarray,
     ) -> None:
-        n_frames = volume.shape[0]
-        z, y, x = volume.shape[-3], volume.shape[-2], volume.shape[-1]
+        """Write MIP projections under ``/mips/`` group.
 
-        cor_stack = np.empty((n_frames, z, x), dtype=np.float32)
-        sag_stack = np.empty((n_frames, z, y), dtype=np.float32)
-        for i in range(n_frames):
-            frame_3d = volume[i]
-            while frame_3d.ndim > 3:
-                frame_3d = frame_3d.sum(axis=0)
-            cor_stack[i] = frame_3d.max(axis=1).astype(np.float32)
-            sag_stack[i] = frame_3d.max(axis=2).astype(np.float32)
+        For 3D volumes, MIPs are 2D arrays. For 4D+ volumes, MIPs are
+        N-D arrays preserving all leading (non-spatial) dimensions.
+        Spatial axes are assumed to be the last three dimensions (Z, Y, X).
+        """
+        ndim = volume.ndim
+        grp = target.create_group("mips")
 
-        grp = target.create_group("mips_per_frame")
+        # Spatial axis indices (last 3 dims)
+        ax_z = ndim - 3  # axial collapses Z
+        ax_y = ndim - 2  # coronal collapses Y
+        ax_x = ndim - 1  # sagittal collapses X
 
-        ds_cor = grp.create_dataset("coronal", data=cor_stack)
+        mip_cor = volume.max(axis=ax_y).astype(np.float32)
+        ds_cor = grp.create_dataset("coronal", data=mip_cor)
         ds_cor.attrs["projection_type"] = "mip"
-        ds_cor.attrs["axis"] = np.int64(1)
-        ds_cor.attrs["description"] = "Per-frame coronal MIPs"
+        ds_cor.attrs["axis"] = np.int64(ax_y)
+        ds_cor.attrs["description"] = "Coronal MIP (max along Y)"
 
-        ds_sag = grp.create_dataset("sagittal", data=sag_stack)
+        mip_sag = volume.max(axis=ax_x).astype(np.float32)
+        ds_sag = grp.create_dataset("sagittal", data=mip_sag)
         ds_sag.attrs["projection_type"] = "mip"
-        ds_sag.attrs["axis"] = np.int64(2)
-        ds_sag.attrs["description"] = "Per-frame sagittal MIPs"
+        ds_sag.attrs["axis"] = np.int64(ax_x)
+        ds_sag.attrs["description"] = "Sagittal MIP (max along X)"
+
+        mip_ax = volume.max(axis=ax_z).astype(np.float32)
+        ds_ax = grp.create_dataset("axial", data=mip_ax)
+        ds_ax.attrs["projection_type"] = "mip"
+        ds_ax.attrs["axis"] = np.int64(ax_z)
+        ds_ax.attrs["description"] = "Axial MIP (max along Z)"
 
     # ------------------------------------------------------------------
     # Embedded device_data (optional, NXlog pattern)
diff --git a/tests/test_recon.py b/tests/test_recon.py
index ab75614..50e9765 100644
--- a/tests/test_recon.py
+++ b/tests/test_recon.py
@@ -372,128 +372,146 @@ def test_pyramid_level_compression(self, schema, h5file):
 
 
 class TestWriteMIP:
+    def test_mips_group_created(self, schema, h5file):
+        data = _minimal_3d_data()
+        schema.write(h5file, data)
+        assert "mips" in h5file
+        assert isinstance(h5file["mips"], h5py.Group)
+
     def test_mip_coronal_created(self, schema, h5file):
         data = _minimal_3d_data()
         schema.write(h5file, data)
-        assert "mip_coronal" in h5file
+        assert "mips/coronal" in h5file
 
     def test_mip_sagittal_created(self, schema, h5file):
         data = _minimal_3d_data()
         schema.write(h5file, data)
-        assert "mip_sagittal" in h5file
+        assert "mips/sagittal" in h5file
 
-    def test_mip_coronal_shape(self, schema, h5file):
+    def test_mip_axial_created(self, schema, h5file):
         data = _minimal_3d_data()
         schema.write(h5file, data)
-        ds = h5file["mip_coronal"]
+        assert "mips/axial" in h5file
+
+    def test_mip_coronal_shape_3d(self, schema, h5file):
+        data = _minimal_3d_data()
+        schema.write(h5file, data)
+        ds = h5file["mips/coronal"]
+        # 3D (16, 32, 32) → coronal collapses Y (axis 1) → (16, 32)
         assert ds.shape == (16, 32)
 
-    def test_mip_sagittal_shape(self, schema, h5file):
+    def test_mip_sagittal_shape_3d(self, schema, h5file):
         data = _minimal_3d_data()
         schema.write(h5file, data)
-        ds = h5file["mip_sagittal"]
+        ds = h5file["mips/sagittal"]
+        # 3D (16, 32, 32) → sagittal collapses X (axis 2) → (16, 32)
         assert ds.shape == (16, 32)
 
+    def test_mip_axial_shape_3d(self, schema, h5file):
+        data = _minimal_3d_data()
+        schema.write(h5file, data)
+        ds = h5file["mips/axial"]
+        # 3D (16, 32, 32) → axial collapses Z (axis 0) → (32, 32)
+        assert ds.shape == (32, 32)
+
     def test_mip_coronal_attrs(self, schema, h5file):
         data = _minimal_3d_data()
         schema.write(h5file, data)
-        ds = h5file["mip_coronal"]
+        ds = h5file["mips/coronal"]
         assert ds.attrs["projection_type"] == "mip"
-        assert ds.attrs["axis"] == 1
         assert "description" in ds.attrs
 
     def test_mip_sagittal_attrs(self, schema, h5file):
         data = _minimal_3d_data()
         schema.write(h5file, data)
-        ds = h5file["mip_sagittal"]
+        ds = h5file["mips/sagittal"]
+        assert ds.attrs["projection_type"] == "mip"
+        assert "description" in ds.attrs
+
+    def test_mip_axial_attrs(self, schema, h5file):
+        data = _minimal_3d_data()
+        schema.write(h5file, data)
+        ds = h5file["mips/axial"]
         assert ds.attrs["projection_type"] == "mip"
-        assert ds.attrs["axis"] == 2
         assert "description" in ds.attrs
 
     def test_mip_dtype_float32(self, schema, h5file):
         data = _minimal_3d_data()
         schema.write(h5file, data)
-        assert h5file["mip_coronal"].dtype == np.float32
-        assert h5file["mip_sagittal"].dtype == np.float32
+        assert h5file["mips/coronal"].dtype == np.float32
+        assert h5file["mips/sagittal"].dtype == np.float32
+        assert h5file["mips/axial"].dtype == np.float32
 
-    def test_mip_4d_uses_summed_volume(self, schema, h5file):
-        data = _minimal_4d_data()
+    def test_mip_3d_coronal_values(self, schema, h5file):
+        data = _minimal_3d_data()
+        schema.write(h5file, data)
+        vol = data["volume"]
+        expected = vol.max(axis=1).astype(np.float32)
+        np.testing.assert_array_almost_equal(h5file["mips/coronal"][:], expected)
+
+    def test_mip_3d_axial_values(self, schema, h5file):
+        data = _minimal_3d_data()
         schema.write(h5file, data)
         vol = data["volume"]
-        summed = vol.sum(axis=0)
-        expected_coronal = summed.max(axis=1)
-        np.testing.assert_array_almost_equal(h5file["mip_coronal"][:], expected_coronal)
+        expected = vol.max(axis=0).astype(np.float32)
+        np.testing.assert_array_almost_equal(h5file["mips/axial"][:], expected)
 
 
 # ---------------------------------------------------------------------------
-# write() — mips_per_frame (optional, 4D+ only)
+# write() — MIP N-D arrays for 4D+ data
 # ---------------------------------------------------------------------------
 
 
-class TestWriteMipsPerFrame:
-    def test_mips_per_frame_created_for_4d(self, schema, h5file):
-        data = _minimal_4d_data()
-        data["mips_per_frame"] = True
-        schema.write(h5file, data)
-        assert "mips_per_frame" in h5file
-        assert isinstance(h5file["mips_per_frame"], h5py.Group)
-
-    def test_mips_per_frame_coronal_shape(self, schema, h5file):
+class TestWriteMIP4D:
+    def test_mip_4d_coronal_shape(self, schema, h5file):
         data = _minimal_4d_data()
-        data["mips_per_frame"] = True
         schema.write(h5file, data)
-        ds = h5file["mips_per_frame/coronal"]
+        ds = h5file["mips/coronal"]
         n_frames, z, y, x = data["volume"].shape
+        # 4D: coronal collapses Y (axis 2) → (T, Z, X)
         assert ds.shape == (n_frames, z, x)
         assert ds.dtype == np.float32
 
-    def test_mips_per_frame_sagittal_shape(self, schema, h5file):
+    def test_mip_4d_sagittal_shape(self, schema, h5file):
         data = _minimal_4d_data()
-        data["mips_per_frame"] = True
         schema.write(h5file, data)
-        ds = h5file["mips_per_frame/sagittal"]
+        ds = h5file["mips/sagittal"]
         n_frames, z, y, x = data["volume"].shape
+        # 4D: sagittal collapses X (axis 3) → (T, Z, Y)
         assert ds.shape == (n_frames, z, y)
         assert ds.dtype == np.float32
 
-    def test_mips_per_frame_coronal_attrs(self, schema, h5file):
+    def test_mip_4d_axial_shape(self, schema, h5file):
         data = _minimal_4d_data()
-        data["mips_per_frame"] = True
         schema.write(h5file, data)
-        ds = h5file["mips_per_frame/coronal"]
-        assert ds.attrs["projection_type"] == "mip"
-        assert ds.attrs["axis"] == 1
-        assert ds.attrs["description"] == "Per-frame coronal MIPs"
+        ds = h5file["mips/axial"]
+        n_frames, z, y, x = data["volume"].shape
+        # 4D: axial collapses Z (axis 1) → (T, Y, X)
+        assert ds.shape == (n_frames, y, x)
+        assert ds.dtype == np.float32
 
-    def test_mips_per_frame_sagittal_attrs(self, schema, h5file):
+    def test_mip_4d_coronal_values(self, schema, h5file):
         data = _minimal_4d_data()
-        data["mips_per_frame"] = True
-        schema.write(h5file, data)
-        ds = h5file["mips_per_frame/sagittal"]
-        assert ds.attrs["projection_type"] == "mip"
-        assert ds.attrs["axis"] == 2
-        assert ds.attrs["description"] == "Per-frame sagittal MIPs"
-
-    def test_mips_per_frame_not_created_for_3d(self, schema, h5file):
-        data = _minimal_3d_data()
-        data["mips_per_frame"] = True
         schema.write(h5file, data)
-        assert "mips_per_frame" not in h5file
+        vol = data["volume"]
+        # Coronal = max along Y (axis 2)
+        expected = vol.max(axis=2).astype(np.float32)
+        np.testing.assert_array_almost_equal(h5file["mips/coronal"][:], expected)
 
-    def test_mips_per_frame_absent_when_not_requested(self, schema, h5file):
+    def test_mip_4d_per_frame_coronal_matches(self, schema, h5file):
         data = _minimal_4d_data()
         schema.write(h5file, data)
-        assert "mips_per_frame" not in h5file
+        vol = data["volume"]
+        # Frame 0 coronal should match vol[0].max(axis=1)
+        expected_cor_0 = vol[0].max(axis=1).astype(np.float32)
+        np.testing.assert_array_almost_equal(h5file["mips/coronal"][0], expected_cor_0)
 
-    def test_mips_per_frame_values_match_manual(self, schema, h5file):
+    def test_mip_4d_axial_values(self, schema, h5file):
         data = _minimal_4d_data()
-        data["mips_per_frame"] = True
         schema.write(h5file, data)
         vol = data["volume"]
-        expected_cor_0 = vol[0].max(axis=1).astype(np.float32)
-        np.testing.assert_array_almost_equal(
-            h5file["mips_per_frame/coronal"][0], expected_cor_0
-        )
+        expected = vol.max(axis=1).astype(np.float32)
+        np.testing.assert_array_almost_equal(h5file["mips/axial"][:], expected)
 
 
 # ---------------------------------------------------------------------------
@@ -779,9 +797,9 @@ def test_both_provenance_fields(self, schema, h5file):
 
 
 class TestJsonSchemaOptionalProperties:
-    def test_has_mips_per_frame_property(self, schema):
+    def test_has_mips_property(self, schema):
         result = schema.json_schema()
-        assert "mips_per_frame" in result["properties"]
+        assert "mips" in result["properties"]
 
     def test_has_frames_property(self, schema):
         result = schema.json_schema()
@@ -798,7 +816,7 @@ def test_has_provenance_property(self, schema):
     def test_optional_properties_not_required(self, schema):
         result = schema.json_schema()
         required = result.get("required", [])
-        for prop in ("mips_per_frame", "frames", "device_data", "provenance"):
+        for prop in ("mips", "frames", "device_data", "provenance"):
             assert prop not in required
 
 

From 4c96e89979c0c5611016793d090fb51af56806c1 Mon Sep 17 00:00:00 2001
From: gerchowl <gerchowl@ethz.ch>
Date: Fri, 27 Mar 2026 17:35:48 +0100
Subject: [PATCH 2/2] feat(rust): add Fd5Builder for sealed file creation
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

Implements the full builder pattern for the Rust fd5 crate:
- Fd5Builder with HashTrackingGroup for inline SHA-256 during writes
- ProductSchema trait with registry for pluggable product schemas
- dict_to_h5/h5_to_dict helpers for serde_json::Value ↔ HDF5
- Deterministic filename generation
- Seal: validate → chunk hashes → schema embed → id → content_hash → rename
- Remove h5v from workspace members (extracted to own repo)

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>
---
 Cargo.lock                | 4417 +++++--------------------------------
 Cargo.toml                |    2 +-
 crates/fd5/src/builder.rs |  479 ++++
 crates/fd5/src/h5io.rs    |  302 +++
 crates/fd5/src/lib.rs     |   10 +-
 crates/fd5/src/naming.rs  |  108 +
 crates/fd5/src/product.rs |  108 +
 7 files changed, 1510 insertions(+), 3916 deletions(-)
 create mode 100644 crates/fd5/src/builder.rs
 create mode 100644 crates/fd5/src/h5io.rs
 create mode 100644 crates/fd5/src/naming.rs
 create mode 100644 crates/fd5/src/product.rs

diff --git a/Cargo.lock b/Cargo.lock
index 60c4d42..6077999 100644
--- a/Cargo.lock
+++ b/Cargo.lock
@@ -2,12 +2,6 @@
 # It is not intended for manual editing.
 version = 4
 
-[[package]]
-name = "adler2"
-version = "2.0.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "320119579fcad9c21884f5c4861d16174d0e06250625266f50fe6898340abefa"
-
 [[package]]
 name = "aho-corasick"
 version = "1.1.4"
@@ -18,4027 +12,891 @@ dependencies = [
 ]
 
 [[package]]
-name = "aligned"
-version = "0.4.3"
+name = "anyhow"
+version = "1.0.102"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ee4508988c62edf04abd8d92897fca0c2995d907ce1dfeaf369dac3716a40685"
-dependencies = [
- "as-slice",
-]
+checksum = "7f202df86484c868dbad7eaa557ef785d5c66295e41b460ef922eca0723b842c"
 
 [[package]]
-name = "aligned-vec"
-version = "0.6.4"
+name = "ascii"
+version = "1.1.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "dc890384c8602f339876ded803c97ad529f3842aba97f6392b3dba0dd171769b"
-dependencies = [
- "equator",
-]
+checksum = "d92bec98840b8f03a5ff5413de5293bfcd8bf96467cf5452609f939ec6f5de16"
 
 [[package]]
-name = "allocator-api2"
-version = "0.2.21"
+name = "autocfg"
+version = "1.5.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "683d7910e743518b0e34f1186f92494becacb047c7b6bf616c96772180fef923"
+checksum = "c08606f8c3cbf4ce6ec8e28fb0014a2c086708fe954eaa885384a6165172e7e8"
 
 [[package]]
-name = "android_system_properties"
-version = "0.1.5"
+name = "bitflags"
+version = "2.11.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "819e7219dbd41043ac279b19830f2efc897156490d7fd6ea916720117ee66311"
-dependencies = [
- "libc",
-]
+checksum = "843867be96c8daad0d758b57df9392b6d8d271134fce549de6ce169ff98a92af"
 
 [[package]]
-name = "anstream"
-version = "0.6.21"
+name = "block-buffer"
+version = "0.10.4"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "43d5b281e737544384e969a5ccad3f1cdd24b48086a0fc1b2a5262a26b8f4f4a"
+checksum = "3078c7629b62d3f0439517fa394996acacc5cbc91c5a20d8c658e77abd503a71"
 dependencies = [
- "anstyle",
- "anstyle-parse",
- "anstyle-query",
- "anstyle-wincon",
- "colorchoice",
- "is_terminal_polyfill",
- "utf8parse",
+ "generic-array",
 ]
 
 [[package]]
-name = "anstyle"
-version = "1.0.13"
+name = "blosc-src"
+version = "0.3.8"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5192cca8006f1fd4f7237516f40fa183bb07f8fbdfedaa0036de5ea9b0b45e78"
+checksum = "a9046dd58971db0226346fde214143d16a6eb12f535b5320d0ea94fcea420631"
+dependencies = [
+ "cc",
+ "libz-sys",
+ "lz4-sys",
+ "snappy_src",
+ "zstd-sys",
+]
 
 [[package]]
-name = "anstyle-parse"
-version = "0.2.7"
+name = "cc"
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-name = "zerocopy"
-version = "0.8.40"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a789c6e490b576db9f7e6b6d661bcc9799f7c0ac8352f56ea20193b2681532e5"
-dependencies = [
- "zerocopy-derive",
-]
-
-[[package]]
-name = "zerocopy-derive"
-version = "0.8.40"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f65c489a7071a749c849713807783f70672b28094011623e200cb86dcb835953"
-dependencies = [
- "proc-macro2",
- "quote",
- "syn 2.0.117",
-]
-
 [[package]]
 name = "zmij"
 version = "1.0.21"
@@ -4458,42 +1088,3 @@ dependencies = [
  "cc",
  "pkg-config",
 ]
-
-[[package]]
-name = "zune-core"
-version = "0.4.12"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "3f423a2c17029964870cfaabb1f13dfab7d092a62a29a89264f4d36990ca414a"
-
-[[package]]
-name = "zune-core"
-version = "0.5.1"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "cb8a0807f7c01457d0379ba880ba6322660448ddebc890ce29bb64da71fb40f9"
-
-[[package]]
-name = "zune-inflate"
-version = "0.2.54"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "73ab332fe2f6680068f3582b16a24f90ad7096d5d39b974d1c0aff0125116f02"
-dependencies = [
- "simd-adler32",
-]
-
-[[package]]
-name = "zune-jpeg"
-version = "0.4.21"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "29ce2c8a9384ad323cf564b67da86e21d3cfdff87908bc1223ed5c99bc792713"
-dependencies = [
- "zune-core 0.4.12",
-]
-
-[[package]]
-name = "zune-jpeg"
-version = "0.5.12"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "410e9ecef634c709e3831c2cfdb8d9c32164fae1c67496d5b68fff728eec37fe"
-dependencies = [
- "zune-core 0.5.1",
-]
diff --git a/Cargo.toml b/Cargo.toml
index 382ea51..fac59bc 100644
--- a/Cargo.toml
+++ b/Cargo.toml
@@ -1,5 +1,5 @@
 [workspace]
-members = ["crates/fd5", "h5v"]
+members = ["crates/fd5"]
 resolver = "2"
 
 [workspace.dependencies]
diff --git a/crates/fd5/src/builder.rs b/crates/fd5/src/builder.rs
new file mode 100644
index 0000000..fc0ad53
--- /dev/null
+++ b/crates/fd5/src/builder.rs
@@ -0,0 +1,479 @@
+//! fd5 builder — creates sealed HDF5 files with inline Merkle-tree hashing.
+//!
+//! Mirrors Python's `fd5.create` context-manager API. The builder:
+//! 1. Opens a temp HDF5 file and writes root attributes
+//! 2. Delegates product-specific writes via `ProductSchema`
+//! 3. Seals the file: embeds schema, computes id + content_hash, renames
+//!
+//! Data hashes are computed inline during `create_dataset` calls (tee pattern)
+//! and cached so that `compute_content_hash` can skip re-reading datasets.
+
+use std::cell::RefCell;
+use std::collections::{BTreeMap, HashMap};
+use std::path::{Path, PathBuf};
+use std::rc::Rc;
+
+use hdf5_metno::types::VarLenUnicode;
+use hdf5_metno::{File, Group};
+use sha2::{Digest, Sha256};
+
+use crate::error::{Fd5Error, Fd5Result};
+use crate::h5io::{dict_to_h5, write_attr_i64, write_attr_str};
+use crate::hash::{compute_content_hash, compute_id};
+use crate::naming::generate_filename;
+use crate::product::{get_schema, ProductSchema};
+
+/// Shared hash caches between `Fd5Builder` and `HashTrackingGroup` instances.
+type DataHashCache = Rc<RefCell<HashMap<String, String>>>;
+type ChunkDigestCache = Rc<RefCell<HashMap<String, Vec<String>>>>;
+
+// ---------------------------------------------------------------------------
+// HashTrackingGroup
+// ---------------------------------------------------------------------------
+
+/// Wraps an `hdf5_metno::Group` to compute data hashes inline during writes.
+///
+/// Cached data hashes (`sha256(data_bytes)`) and per-chunk digests are stored
+/// in shared caches keyed by the dataset's absolute HDF5 path.
+pub struct HashTrackingGroup {
+    group: Group,
+    data_hash_cache: DataHashCache,
+    chunk_digest_cache: ChunkDigestCache,
+}
+
+impl HashTrackingGroup {
+    fn new(
+        group: Group,
+        data_hash_cache: DataHashCache,
+        chunk_digest_cache: ChunkDigestCache,
+    ) -> Self {
+        Self {
+            group,
+            data_hash_cache,
+            chunk_digest_cache,
+        }
+    }
+
+    /// Create a sub-group, returning a wrapped `HashTrackingGroup`.
+    pub fn create_group(&self, name: &str) -> Fd5Result<HashTrackingGroup> {
+        let grp = self.group.create_group(name)?;
+        Ok(HashTrackingGroup::new(
+            grp,
+            Rc::clone(&self.data_hash_cache),
+            Rc::clone(&self.chunk_digest_cache),
+        ))
+    }
+
+    /// Create a dataset, write data, and cache the SHA-256 hash of the raw bytes.
+    fn create_dataset_and_hash<T: hdf5_metno::types::H5Type>(
+        &self,
+        name: &str,
+        data: &[T],
+    ) -> Fd5Result<()> {
+        let ds = self
+            .group
+            .new_dataset::<T>()
+            .shape([data.len()])
+            .create(name)?;
+        ds.write(data)?;
+
+        let byte_len = data.len() * std::mem::size_of::<T>();
+        let byte_ptr = data.as_ptr() as *const u8;
+        // SAFETY: &[T] is a contiguous, aligned, initialized buffer.
+        let bytes = unsafe { std::slice::from_raw_parts(byte_ptr, byte_len) };
+        let data_hash = format!("{:x}", Sha256::digest(bytes));
+
+        self.data_hash_cache
+            .borrow_mut()
+            .insert(ds.name(), data_hash);
+
+        Ok(())
+    }
+
+    /// Create a dataset of f64 values, hashing inline.
+    pub fn create_dataset_f64(&self, name: &str, data: &[f64]) -> Fd5Result<()> {
+        self.create_dataset_and_hash(name, data)
+    }
+
+    /// Create a dataset of f32 values, hashing inline.
+    pub fn create_dataset_f32(&self, name: &str, data: &[f32]) -> Fd5Result<()> {
+        self.create_dataset_and_hash(name, data)
+    }
+
+    /// Create a dataset of i64 values, hashing inline.
+    pub fn create_dataset_i64(&self, name: &str, data: &[i64]) -> Fd5Result<()> {
+        self.create_dataset_and_hash(name, data)
+    }
+
+    /// Create a dataset of i32 values, hashing inline.
+    pub fn create_dataset_i32(&self, name: &str, data: &[i32]) -> Fd5Result<()> {
+        self.create_dataset_and_hash(name, data)
+    }
+
+    /// Create a dataset of u8 values, hashing inline.
+    pub fn create_dataset_u8(&self, name: &str, data: &[u8]) -> Fd5Result<()> {
+        self.create_dataset_and_hash(name, data)
+    }
+
+    /// Write a string attribute on this group.
+    pub fn write_attr_str(&self, name: &str, value: &str) -> Fd5Result<()> {
+        write_attr_str(&self.group, name, value)
+    }
+
+    /// Write an i64 attribute on this group.
+    pub fn write_attr_i64(&self, name: &str, value: i64) -> Fd5Result<()> {
+        write_attr_i64(&self.group, name, value)
+    }
+
+    /// Access the underlying HDF5 group (for advanced use).
+    pub fn group(&self) -> &Group {
+        &self.group
+    }
+}
+
+// ---------------------------------------------------------------------------
+// Fd5Builder
+// ---------------------------------------------------------------------------
+
+/// Builder that orchestrates fd5 file creation.
+///
+/// Do not instantiate directly -- use [`create()`].
+pub struct Fd5Builder {
+    file: File,
+    tmp_path: PathBuf,
+    out_dir: PathBuf,
+    product_type: String,
+    timestamp: String,
+    schema: Box<dyn ProductSchema>,
+    data_hash_cache: DataHashCache,
+    chunk_digest_cache: ChunkDigestCache,
+}
+
+impl Fd5Builder {
+    /// Write product-specific data through the registered schema.
+    pub fn write_product(&self, data: &serde_json::Value) -> Fd5Result<()> {
+        let group = self.file.as_group()?;
+        let tracking = HashTrackingGroup::new(
+            group,
+            Rc::clone(&self.data_hash_cache),
+            Rc::clone(&self.chunk_digest_cache),
+        );
+        self.schema.write(&tracking, data)
+    }
+
+    /// Write metadata group from a JSON value (nested dict -> HDF5 groups/attrs).
+    pub fn write_metadata(&self, metadata: &serde_json::Value) -> Fd5Result<()> {
+        let grp = self.file.create_group("metadata")?;
+        dict_to_h5(&grp, metadata)
+    }
+
+    /// Access the underlying HDF5 file (for advanced writes).
+    pub fn file(&self) -> &File {
+        &self.file
+    }
+
+    /// Seal the file: validate, embed schema, compute id + content_hash, rename.
+    ///
+    /// Consumes self -- the file cannot be used after sealing.
+    pub fn seal(self) -> Fd5Result<PathBuf> {
+        self.validate()?;
+        self.write_chunk_hashes()?;
+
+        let schema_json = self.schema.json_schema();
+        let schema_str = serde_json::to_string(&schema_json)?;
+        let root = self.file.as_group()?;
+
+        let vlu: VarLenUnicode = schema_str
+            .parse()
+            .map_err(|e| Fd5Error::Other(format!("{}", e)))?;
+        root.new_attr::<VarLenUnicode>()
+            .shape(())
+            .create("_schema")?
+            .write_scalar(&vlu)?;
+
+        let id_keys = self.schema.id_inputs();
+        let mut id_inputs = BTreeMap::new();
+        for key in &id_keys {
+            let val = read_root_attr_str(&root, key).unwrap_or_default();
+            id_inputs.insert(key.clone(), val);
+        }
+        let file_id = compute_id(&id_inputs);
+
+        write_attr_str(&root, "id", &file_id)?;
+        write_attr_str(&root, "id_inputs", &id_keys.join(" + "))?;
+
+        // content_hash is computed from the file directly (data already written)
+        let content_hash = compute_content_hash(&self.file)?;
+        write_attr_str(&root, "content_hash", &content_hash)?;
+
+        self.file.flush()?;
+        drop(root);
+        self.file.close()?;
+
+        let product_slug = self.product_type.replace('/', "-");
+        let filename = generate_filename(&product_slug, &file_id, Some(&self.timestamp));
+        let final_path = self.out_dir.join(filename);
+        std::fs::rename(&self.tmp_path, &final_path)?;
+
+        Ok(final_path)
+    }
+
+    fn validate(&self) -> Fd5Result<()> {
+        let root = self.file.as_group()?;
+        for attr_name in &["name", "description", "timestamp"] {
+            let val = read_root_attr_str(&root, attr_name).unwrap_or_default();
+            if val.is_empty() {
+                return Err(Fd5Error::Other(format!(
+                    "Required attribute '{}' is missing or empty",
+                    attr_name
+                )));
+            }
+        }
+        Ok(())
+    }
+
+    fn write_chunk_hashes(&self) -> Fd5Result<()> {
+        let cache = self.chunk_digest_cache.borrow();
+        for (ds_path, digests) in cache.iter() {
+            let ds = self.file.dataset(ds_path)?;
+            let parent_path = ds_path
+                .rsplit_once('/')
+                .map(|(p, _)| if p.is_empty() { "/" } else { p })
+                .unwrap_or("/");
+            let ds_name = ds_path.rsplit_once('/').map(|(_, n)| n).unwrap_or(ds_path);
+            let hashes_name = format!("{}_chunk_hashes", ds_name);
+
+            let parent = if parent_path == "/" {
+                self.file.as_group()?
+            } else {
+                self.file.group(parent_path)?
+            };
+
+            let vlu_digests: Vec<VarLenUnicode> = digests
+                .iter()
+                .map(|d| d.parse::<VarLenUnicode>().unwrap())
+                .collect();
+            let chunk_ds = parent
+                .new_dataset::<VarLenUnicode>()
+                .shape([vlu_digests.len()])
+                .create(hashes_name.as_str())?;
+            chunk_ds.write(&vlu_digests)?;
+
+            write_attr_str(&chunk_ds, "algorithm", "sha256")?;
+            drop(ds);
+        }
+        Ok(())
+    }
+}
+
+/// Read a string attribute from a group, returning `None` if not found.
+fn read_root_attr_str(group: &Group, name: &str) -> Option<String> {
+    group
+        .attr(name)
+        .ok()
+        .and_then(|a| {
+            a.read_scalar::<VarLenUnicode>()
+                .map(|v| v.as_str().to_string())
+                .ok()
+                .or_else(|| {
+                    a.read_scalar::<hdf5_metno::types::VarLenAscii>()
+                        .map(|v| v.as_str().to_string())
+                        .ok()
+                })
+        })
+}
+
+// ---------------------------------------------------------------------------
+// Public entry point
+// ---------------------------------------------------------------------------
+
+/// Create a new fd5 builder -- analogous to Python's `fd5.create()` context manager.
+///
+/// Opens a temporary HDF5 file, writes root attributes, and returns a builder
+/// that can be used to write product data and metadata. Call `seal()` to finalize.
+///
+/// # Errors
+///
+/// Returns an error if the product schema is not registered or if the temp file
+/// cannot be created.
+pub fn create(
+    out_dir: &Path,
+    product: &str,
+    name: &str,
+    description: &str,
+    timestamp: &str,
+) -> Fd5Result<Fd5Builder> {
+    let schema = get_schema(product)?;
+
+    std::fs::create_dir_all(out_dir)?;
+
+    let product_slug = product.replace('/', "_");
+    let tmp_name = format!(".fd5_{}.h5.tmp", product_slug);
+    let tmp_path = out_dir.join(tmp_name);
+    let file = File::create(&tmp_path)?;
+
+    let root = file.as_group()?;
+    write_attr_str(&root, "product", product)?;
+    write_attr_str(&root, "name", name)?;
+    write_attr_str(&root, "description", description)?;
+    write_attr_str(&root, "timestamp", timestamp)?;
+    write_attr_i64(&root, "_schema_version", 1)?;
+
+    let data_hash_cache: DataHashCache = Rc::new(RefCell::new(HashMap::new()));
+    let chunk_digest_cache: ChunkDigestCache = Rc::new(RefCell::new(HashMap::new()));
+
+    Ok(Fd5Builder {
+        file,
+        tmp_path,
+        out_dir: out_dir.to_path_buf(),
+        product_type: product.to_string(),
+        timestamp: timestamp.to_string(),
+        schema,
+        data_hash_cache,
+        chunk_digest_cache,
+    })
+}
+
+// ---------------------------------------------------------------------------
+// Tests
+// ---------------------------------------------------------------------------
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use crate::product::{register_schema, TestProductSchema};
+    use crate::verify;
+    use tempfile::TempDir;
+
+    fn register_test_schema() {
+        register_schema(Box::new(TestProductSchema));
+    }
+
+    #[test]
+    fn test_create_and_seal() {
+        register_test_schema();
+        let tmp_dir = TempDir::new().unwrap();
+
+        let builder = create(
+            tmp_dir.path(),
+            "test/product",
+            "my-test",
+            "A test file",
+            "2024-01-15T10:30:00",
+        )
+        .unwrap();
+
+        let data = serde_json::json!({"values": [1.0, 2.0, 3.0]});
+        builder.write_product(&data).unwrap();
+
+        let sealed_path = builder.seal().unwrap();
+        assert!(sealed_path.exists());
+        assert!(sealed_path
+            .file_name()
+            .unwrap()
+            .to_str()
+            .unwrap()
+            .ends_with(".h5"));
+
+        // Verify with the existing verify module
+        let status = verify::verify(&sealed_path).unwrap();
+        match status {
+            verify::Fd5Status::Valid(_) => {} // expected
+            other => panic!("Expected Valid, got {:?}", other),
+        }
+    }
+
+    #[test]
+    fn test_content_hash_deterministic() {
+        register_test_schema();
+        let tmp_dir = TempDir::new().unwrap();
+
+        let make_file = |subdir: &str| -> String {
+            // Each call needs its own schema registration since get_schema removes it
+            register_test_schema();
+            let out = tmp_dir.path().join(subdir);
+            let builder = create(
+                &out,
+                "test/product",
+                "my-test",
+                "A test file",
+                "2024-01-15T10:30:00",
+            )
+            .unwrap();
+
+            let data = serde_json::json!({"values": [1.0, 2.0, 3.0]});
+            builder.write_product(&data).unwrap();
+            let path = builder.seal().unwrap();
+
+            // Read content_hash from sealed file
+            let file = File::open(&path).unwrap();
+            let group = file.as_group().unwrap();
+            read_root_attr_str(&group, "content_hash").unwrap()
+        };
+
+        let hash1 = make_file("a");
+        let hash2 = make_file("b");
+        assert_eq!(hash1, hash2, "content_hash should be deterministic");
+    }
+
+    #[test]
+    fn test_missing_required_attr_fails() {
+        register_test_schema();
+        let tmp_dir = TempDir::new().unwrap();
+
+        let builder = create(
+            tmp_dir.path(),
+            "test/product",
+            "", // empty name
+            "A test file",
+            "2024-01-15T10:30:00",
+        )
+        .unwrap();
+
+        let result = builder.seal();
+        assert!(result.is_err());
+        let err_msg = result.unwrap_err().to_string();
+        assert!(
+            err_msg.contains("name"),
+            "Error should mention 'name': {}",
+            err_msg
+        );
+    }
+
+    #[test]
+    fn test_write_metadata() {
+        register_test_schema();
+        let tmp_dir = TempDir::new().unwrap();
+
+        let builder = create(
+            tmp_dir.path(),
+            "test/product",
+            "my-test",
+            "A test file",
+            "2024-01-15T10:30:00",
+        )
+        .unwrap();
+
+        let metadata = serde_json::json!({
+            "subject": "test-subject-01",
+            "scanner": {
+                "model": "Explorer",
+                "manufacturer": "United Imaging"
+            }
+        });
+        builder.write_metadata(&metadata).unwrap();
+
+        let data = serde_json::json!({"values": [1.0, 2.0, 3.0]});
+        builder.write_product(&data).unwrap();
+
+        let sealed_path = builder.seal().unwrap();
+        assert!(sealed_path.exists());
+
+        // Verify the sealed file
+        let status = verify::verify(&sealed_path).unwrap();
+        match status {
+            verify::Fd5Status::Valid(_) => {}
+            other => panic!("Expected Valid, got {:?}", other),
+        }
+    }
+}
diff --git a/crates/fd5/src/h5io.rs b/crates/fd5/src/h5io.rs
new file mode 100644
index 0000000..c20462c
--- /dev/null
+++ b/crates/fd5/src/h5io.rs
@@ -0,0 +1,302 @@
+//! Lossless round-trip between `serde_json::Value` trees and HDF5 groups/attrs.
+//!
+//! Type mapping follows the Python `fd5.h5io` module:
+//! - JSON objects become HDF5 sub-groups
+//! - JSON strings become VarLenUnicode attributes
+//! - JSON numbers become i64 or f64 attributes
+//! - JSON booleans become bool attributes
+//! - JSON arrays become array attributes (typed by first element)
+//! - JSON null values are skipped (absence encodes null)
+
+use hdf5_metno::types::VarLenUnicode;
+use hdf5_metno::{Group, Location};
+use serde_json::Value;
+
+use crate::error::{Fd5Error, Fd5Result};
+
+/// Write a `serde_json::Value` tree to an HDF5 group.
+///
+/// Objects become subgroups, scalars become attributes.
+/// Keys are written in sorted order for deterministic layout.
+pub fn dict_to_h5(group: &Group, data: &Value) -> Fd5Result<()> {
+    let obj = data
+        .as_object()
+        .ok_or_else(|| Fd5Error::Other("dict_to_h5 expects a JSON object".into()))?;
+
+    let mut keys: Vec<&String> = obj.keys().collect();
+    keys.sort();
+
+    for key in keys {
+        let value = &obj[key];
+        if value.is_null() {
+            continue;
+        }
+        write_value(group, key, value)?;
+    }
+    Ok(())
+}
+
+/// Read an HDF5 group tree into a `serde_json::Value`.
+///
+/// Reads attributes and sub-groups; datasets are not read.
+pub fn h5_to_dict(group: &Group) -> Fd5Result<Value> {
+    let mut map = serde_json::Map::new();
+
+    let mut attr_names = group.attr_names()?;
+    attr_names.sort();
+    for key in &attr_names {
+        let attr = group.attr(key)?;
+        let val = read_attr_value(&attr)?;
+        map.insert(key.clone(), val);
+    }
+
+    let mut member_names = group.member_names()?;
+    member_names.sort();
+    for key in &member_names {
+        if let Ok(child_group) = group.group(key) {
+            let child_val = h5_to_dict(&child_group)?;
+            map.insert(key.clone(), child_val);
+        }
+    }
+
+    Ok(Value::Object(map))
+}
+
+// ---------------------------------------------------------------------------
+// Internal helpers
+// ---------------------------------------------------------------------------
+
+fn write_value(group: &Group, key: &str, value: &Value) -> Fd5Result<()> {
+    match value {
+        Value::Object(_) => {
+            let sub = group.create_group(key)?;
+            dict_to_h5(&sub, value)?;
+        }
+        Value::Bool(b) => {
+            write_attr_bool(group, key, *b)?;
+        }
+        Value::Number(n) => {
+            if let Some(i) = n.as_i64() {
+                write_attr_i64(group, key, i)?;
+            } else if let Some(f) = n.as_f64() {
+                write_attr_f64(group, key, f)?;
+            }
+        }
+        Value::String(s) => {
+            write_attr_str(group, key, s)?;
+        }
+        Value::Array(arr) => {
+            write_list(group, key, arr)?;
+        }
+        Value::Null => {}
+    }
+    Ok(())
+}
+
+fn write_list(group: &Group, key: &str, arr: &[Value]) -> Fd5Result<()> {
+    if arr.is_empty() {
+        let data: Vec<f64> = vec![];
+        group
+            .new_attr::<f64>()
+            .shape([0])
+            .create(key)?
+            .write_raw(&data)?;
+        return Ok(());
+    }
+
+    let first = &arr[0];
+    if first.is_boolean() {
+        let bools: Vec<bool> = arr
+            .iter()
+            .map(|v| v.as_bool().unwrap_or(false))
+            .collect();
+        group
+            .new_attr::<bool>()
+            .shape([bools.len()])
+            .create(key)?
+            .write_raw(&bools)?;
+    } else if first.is_number() {
+        if first.is_i64() && arr.iter().all(|v| v.is_i64()) {
+            let ints: Vec<i64> = arr
+                .iter()
+                .map(|v| v.as_i64().unwrap_or(0))
+                .collect();
+            group
+                .new_attr::<i64>()
+                .shape([ints.len()])
+                .create(key)?
+                .write_raw(&ints)?;
+        } else {
+            let floats: Vec<f64> = arr
+                .iter()
+                .map(|v| v.as_f64().unwrap_or(0.0))
+                .collect();
+            group
+                .new_attr::<f64>()
+                .shape([floats.len()])
+                .create(key)?
+                .write_raw(&floats)?;
+        }
+    } else if first.is_string() {
+        let strings: Vec<VarLenUnicode> = arr
+            .iter()
+            .map(|v| {
+                let s = v.as_str().unwrap_or("");
+                s.parse::<VarLenUnicode>().expect("valid unicode string")
+            })
+            .collect();
+        group
+            .new_attr::<VarLenUnicode>()
+            .shape([strings.len()])
+            .create(key)?
+            .write_raw(&strings)?;
+    } else {
+        return Err(Fd5Error::Other(format!(
+            "Unsupported array element type for key '{}'",
+            key
+        )));
+    }
+    Ok(())
+}
+
+/// Write a VarLenUnicode string attribute.
+pub fn write_attr_str(loc: &Location, name: &str, value: &str) -> Fd5Result<()> {
+    let vlu: VarLenUnicode = value.parse().map_err(|e| {
+        Fd5Error::Other(format!("Invalid string for attribute '{}': {}", name, e))
+    })?;
+    loc.new_attr::<VarLenUnicode>()
+        .shape(())
+        .create(name)?
+        .write_scalar(&vlu)?;
+    Ok(())
+}
+
+/// Write an i64 attribute.
+pub fn write_attr_i64(loc: &Location, name: &str, value: i64) -> Fd5Result<()> {
+    loc.new_attr::<i64>()
+        .shape(())
+        .create(name)?
+        .write_scalar(&value)?;
+    Ok(())
+}
+
+/// Write an f64 attribute.
+pub fn write_attr_f64(loc: &Location, name: &str, value: f64) -> Fd5Result<()> {
+    loc.new_attr::<f64>()
+        .shape(())
+        .create(name)?
+        .write_scalar(&value)?;
+    Ok(())
+}
+
+/// Write a bool attribute.
+pub fn write_attr_bool(loc: &Location, name: &str, value: bool) -> Fd5Result<()> {
+    loc.new_attr::<bool>()
+        .shape(())
+        .create(name)?
+        .write_scalar(&value)?;
+    Ok(())
+}
+
+/// Read an HDF5 attribute into a `serde_json::Value`.
+fn read_attr_value(attr: &hdf5_metno::Attribute) -> Fd5Result<Value> {
+    use hdf5_metno::types::{FloatSize, IntSize, TypeDescriptor};
+
+    let td = attr.dtype()?.to_descriptor()?;
+
+    if attr.is_scalar() {
+        match &td {
+            TypeDescriptor::VarLenUnicode => {
+                let v: VarLenUnicode = attr.read_scalar()?;
+                Ok(Value::String(v.as_str().to_string()))
+            }
+            TypeDescriptor::VarLenAscii => {
+                let v: hdf5_metno::types::VarLenAscii = attr.read_scalar()?;
+                Ok(Value::String(v.as_str().to_string()))
+            }
+            TypeDescriptor::Integer(int_size) => {
+                let val: i64 = match int_size {
+                    IntSize::U1 => attr.read_scalar::<i8>()? as i64,
+                    IntSize::U2 => attr.read_scalar::<i16>()? as i64,
+                    IntSize::U4 => attr.read_scalar::<i32>()? as i64,
+                    IntSize::U8 => attr.read_scalar::<i64>()?,
+                };
+                Ok(Value::Number(serde_json::Number::from(val)))
+            }
+            TypeDescriptor::Unsigned(int_size) => {
+                let val: u64 = match int_size {
+                    IntSize::U1 => attr.read_scalar::<u8>()? as u64,
+                    IntSize::U2 => attr.read_scalar::<u16>()? as u64,
+                    IntSize::U4 => attr.read_scalar::<u32>()? as u64,
+                    IntSize::U8 => attr.read_scalar::<u64>()?,
+                };
+                Ok(Value::Number(serde_json::Number::from(val)))
+            }
+            TypeDescriptor::Float(float_size) => {
+                let val: f64 = match float_size {
+                    FloatSize::U4 => attr.read_scalar::<f32>()? as f64,
+                    FloatSize::U8 => attr.read_scalar::<f64>()?,
+                };
+                Ok(serde_json::json!(val))
+            }
+            TypeDescriptor::Boolean => {
+                let v: bool = attr.read_scalar()?;
+                Ok(Value::Bool(v))
+            }
+            _ => {
+                let raw = attr.read_raw::<u8>()?;
+                Ok(Value::String(String::from_utf8_lossy(&raw).to_string()))
+            }
+        }
+    } else {
+        // Array attribute
+        read_array_attr_value(attr, &td)
+    }
+}
+
+fn read_array_attr_value(
+    attr: &hdf5_metno::Attribute,
+    td: &hdf5_metno::types::TypeDescriptor,
+) -> Fd5Result<Value> {
+    use hdf5_metno::types::{FloatSize, IntSize, TypeDescriptor};
+
+    match td {
+        TypeDescriptor::VarLenUnicode => {
+            let v = attr.read_raw::<VarLenUnicode>()?;
+            let arr: Vec<Value> = v.iter().map(|s| Value::String(s.as_str().to_string())).collect();
+            Ok(Value::Array(arr))
+        }
+        TypeDescriptor::VarLenAscii => {
+            let v = attr.read_raw::<hdf5_metno::types::VarLenAscii>()?;
+            let arr: Vec<Value> = v.iter().map(|s| Value::String(s.as_str().to_string())).collect();
+            Ok(Value::Array(arr))
+        }
+        TypeDescriptor::Integer(int_size) => {
+            let vals: Vec<i64> = match int_size {
+                IntSize::U1 => attr.read_raw::<i8>()?.iter().map(|&v| v as i64).collect(),
+                IntSize::U2 => attr.read_raw::<i16>()?.iter().map(|&v| v as i64).collect(),
+                IntSize::U4 => attr.read_raw::<i32>()?.iter().map(|&v| v as i64).collect(),
+                IntSize::U8 => attr.read_raw::<i64>()?.to_vec(),
+            };
+            let arr: Vec<Value> = vals.into_iter().map(|v| Value::Number(v.into())).collect();
+            Ok(Value::Array(arr))
+        }
+        TypeDescriptor::Float(float_size) => {
+            let vals: Vec<f64> = match float_size {
+                FloatSize::U4 => attr.read_raw::<f32>()?.iter().map(|&v| v as f64).collect(),
+                FloatSize::U8 => attr.read_raw::<f64>()?.to_vec(),
+            };
+            let arr: Vec<Value> = vals.into_iter().map(|v| serde_json::json!(v)).collect();
+            Ok(Value::Array(arr))
+        }
+        TypeDescriptor::Boolean => {
+            let v = attr.read_raw::<bool>()?;
+            let arr: Vec<Value> = v.iter().map(|&b| Value::Bool(b)).collect();
+            Ok(Value::Array(arr))
+        }
+        _ => {
+            let raw = attr.read_raw::<u8>()?;
+            Ok(Value::String(String::from_utf8_lossy(&raw).to_string()))
+        }
+    }
+}
diff --git a/crates/fd5/src/lib.rs b/crates/fd5/src/lib.rs
index 17fab23..ba27449 100644
--- a/crates/fd5/src/lib.rs
+++ b/crates/fd5/src/lib.rs
@@ -1,15 +1,21 @@
 //! # fd5
 //!
-//! Rust implementation of fd5 Merkle-tree hashing, verification, and editing
-//! for immutable HDF5 data products sealed with `content_hash`.
+//! Rust implementation of fd5 Merkle-tree hashing, verification, editing,
+//! and file creation for immutable HDF5 data products sealed with `content_hash`.
 
 pub mod attr_ser;
+pub mod builder;
 pub mod edit;
 pub mod error;
+pub mod h5io;
 pub mod hash;
+pub mod naming;
+pub mod product;
 pub mod schema;
 pub mod verify;
 
+pub use builder::{create, Fd5Builder, HashTrackingGroup};
 pub use error::{Fd5Error, Fd5Result};
 pub use hash::{compute_content_hash, compute_id};
+pub use product::{get_schema, register_schema, ProductSchema};
 pub use verify::{Fd5Status, verify};
diff --git a/crates/fd5/src/naming.rs b/crates/fd5/src/naming.rs
new file mode 100644
index 0000000..b968b63
--- /dev/null
+++ b/crates/fd5/src/naming.rs
@@ -0,0 +1,108 @@
+//! Deterministic filename generation following the fd5 naming convention.
+//!
+//! Format: `YYYY-MM-DD_HH-MM-SS_<product>-<id8>.h5`
+
+const SHA256_PREFIX: &str = "sha256:";
+const ID_HEX_LENGTH: usize = 8;
+const EXTENSION: &str = ".h5";
+
+/// Generate an fd5-compliant filename.
+///
+/// Format: `YYYY-MM-DD_HH-MM-SS_<product>-<id8>.h5`
+///
+/// When `timestamp` is `None` the datetime prefix is omitted.
+/// The `id_hash` is truncated to the first 8 hex characters; a
+/// `sha256:` prefix is stripped automatically if present.
+pub fn generate_filename(product: &str, id_hash: &str, timestamp: Option<&str>) -> String {
+    let short_id = truncate_id(id_hash);
+    let mut parts: Vec<String> = Vec::new();
+
+    if let Some(ts) = timestamp {
+        if let Some(formatted) = format_timestamp(ts) {
+            parts.push(formatted);
+        }
+    }
+
+    parts.push(format!("{}-{}", product, short_id));
+    format!("{}{}", parts.join("_"), EXTENSION)
+}
+
+fn truncate_id(id_hash: &str) -> &str {
+    let raw = id_hash.strip_prefix(SHA256_PREFIX).unwrap_or(id_hash);
+    &raw[..raw.len().min(ID_HEX_LENGTH)]
+}
+
+/// Best-effort reformat of an ISO 8601 timestamp to `YYYY-MM-DD_HH-MM-SS`.
+fn format_timestamp(ts: &str) -> Option<String> {
+    if ts.is_empty() {
+        return None;
+    }
+    let ts = ts.trim();
+
+    let (date_part, time_part) = if let Some(pos) = ts.find('T') {
+        (&ts[..pos], Some(&ts[pos + 1..]))
+    } else if let Some(pos) = ts.find(' ') {
+        (&ts[..pos], Some(&ts[pos + 1..]))
+    } else {
+        (ts, None)
+    };
+
+    if date_part.len() < 10 {
+        return Some(date_part.to_string());
+    }
+
+    let date_formatted = &date_part[..10];
+
+    if let Some(time) = time_part {
+        // Strip timezone suffix and fractional seconds
+        let time_clean = time
+            .split(|c: char| c == '+' || c == 'Z')
+            .next()
+            .unwrap_or(time);
+        let time_clean = time_clean
+            .split('.')
+            .next()
+            .unwrap_or(time_clean);
+        if time_clean.len() >= 8 {
+            let hh = &time_clean[0..2];
+            let mm = &time_clean[3..5];
+            let ss = &time_clean[6..8];
+            Some(format!("{}_{}-{}-{}", date_formatted, hh, mm, ss))
+        } else {
+            Some(date_formatted.to_string())
+        }
+    } else {
+        Some(date_formatted.to_string())
+    }
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+
+    #[test]
+    fn test_generate_filename_with_timestamp() {
+        let name = generate_filename(
+            "imaging/recon",
+            "sha256:abcdef0123456789",
+            Some("2024-01-15T10:30:00"),
+        );
+        assert_eq!(name, "2024-01-15_10-30-00_imaging-recon-abcdef01.h5");
+    }
+
+    #[test]
+    fn test_generate_filename_no_timestamp() {
+        let name = generate_filename("test/product", "sha256:deadbeef99", None);
+        assert_eq!(name, "test-product-deadbeef.h5");
+    }
+
+    #[test]
+    fn test_truncate_id_strips_prefix() {
+        assert_eq!(truncate_id("sha256:abcdef0123456789"), "abcdef01");
+    }
+
+    #[test]
+    fn test_truncate_id_no_prefix() {
+        assert_eq!(truncate_id("abcdef0123456789"), "abcdef01");
+    }
+}
diff --git a/crates/fd5/src/product.rs b/crates/fd5/src/product.rs
new file mode 100644
index 0000000..ee5d8d2
--- /dev/null
+++ b/crates/fd5/src/product.rs
@@ -0,0 +1,108 @@
+//! Product schema trait and registry.
+//!
+//! Each product type (e.g. `imaging/recon`, `imaging/sinogram`) has a schema
+//! that knows how to write product-specific data and provides the JSON Schema
+//! for validation.
+
+use std::collections::HashMap;
+use std::sync::Mutex;
+
+use serde_json::Value;
+
+use crate::builder::HashTrackingGroup;
+use crate::error::{Fd5Error, Fd5Result};
+
+/// Trait that every product schema must implement.
+pub trait ProductSchema: Send + Sync {
+    /// The product type string (e.g. `"imaging/recon"`).
+    fn product_type(&self) -> &str;
+
+    /// The schema version string (e.g. `"1.0.0"`).
+    fn schema_version(&self) -> &str;
+
+    /// The JSON Schema as a `serde_json::Value`.
+    fn json_schema(&self) -> Value;
+
+    /// The list of root attribute keys used to compute the file id.
+    fn id_inputs(&self) -> Vec<String>;
+
+    /// Write product-specific data through the hash-tracking group.
+    fn write(&self, target: &HashTrackingGroup, data: &Value) -> Fd5Result<()>;
+}
+
+// ---------------------------------------------------------------------------
+// Global registry
+// ---------------------------------------------------------------------------
+
+static REGISTRY: Mutex<Option<HashMap<String, Box<dyn ProductSchema>>>> = Mutex::new(None);
+
+fn with_registry<F, R>(f: F) -> R
+where
+    F: FnOnce(&mut HashMap<String, Box<dyn ProductSchema>>) -> R,
+{
+    let mut lock = REGISTRY.lock().unwrap();
+    let map = lock.get_or_insert_with(HashMap::new);
+    f(map)
+}
+
+/// Register a product schema. Overwrites any existing schema for the same product type.
+pub fn register_schema(schema: Box<dyn ProductSchema>) {
+    let key = schema.product_type().to_string();
+    with_registry(|map| {
+        map.insert(key, schema);
+    });
+}
+
+/// Look up the schema for a product type. Returns an error if not found.
+pub fn get_schema(product: &str) -> Fd5Result<Box<dyn ProductSchema>> {
+    with_registry(|map| {
+        map.remove(product).ok_or_else(|| {
+            Fd5Error::Other(format!(
+                "No schema registered for product type '{}'",
+                product
+            ))
+        })
+    })
+}
+
+// ---------------------------------------------------------------------------
+// Test product schema
+// ---------------------------------------------------------------------------
+
+/// A simple test product schema for unit tests.
+pub struct TestProductSchema;
+
+impl ProductSchema for TestProductSchema {
+    fn product_type(&self) -> &str {
+        "test/product"
+    }
+
+    fn schema_version(&self) -> &str {
+        "1.0.0"
+    }
+
+    fn json_schema(&self) -> Value {
+        serde_json::json!({
+            "$schema": "https://json-schema.org/draft/2020-12/schema",
+            "type": "object",
+            "properties": {
+                "values": {"type": "array", "items": {"type": "number"}}
+            }
+        })
+    }
+
+    fn id_inputs(&self) -> Vec<String> {
+        vec!["product".into(), "name".into(), "timestamp".into()]
+    }
+
+    fn write(&self, target: &HashTrackingGroup, data: &Value) -> Fd5Result<()> {
+        if let Some(values) = data.get("values").and_then(|v| v.as_array()) {
+            let floats: Vec<f64> = values
+                .iter()
+                .map(|v| v.as_f64().unwrap_or(0.0))
+                .collect();
+            target.create_dataset_f64("values", &floats)?;
+        }
+        Ok(())
+    }
+}