Repository: OpenSaMD/OpenSaMD (language: python)

Issue:
[Stack b.2] Merge in raicontours
I am merging in `raicontours` from the following repo:

https://github.com/RadiotherapyAI/raicontours

Into this repo.

I am not including the `model.h5` file as this will blow out the repo size quite quickly:

https://github.com/RadiotherapyAI/raicontours/blob/main/raicontours/model.h5

Instead, I will upload those files to Zenodo, and then build a script that downloads the correct model file into the package prior to publishing to PyPI for subsequent distribution.


Discussion / hints:

Fix patch:
diff --git a/.env b/.env
new file mode 100644
index 00000000..c3a52485
--- /dev/null
+++ b/.env
@@ -0,0 +1,4 @@
+; Generated with (TODO: script this):
+; https://www.pantsbuild.org/docs/setting-up-an-ide#first-party-sources
+
+PYTHONPATH="./src/python/rai:./src/python/raicontours:$PYTHONPATH"
diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
index 87674250..544e32a0 100644
--- a/.github/workflows/main.yml
+++ b/.github/workflows/main.yml
@@ -7,119 +7,61 @@ on:
   pull_request:
 
 jobs:
-  Build:
-    runs-on: ubuntu-latest
-    timeout-minutes: 60
+  build:
+    name: Perform CI Checks
 
-    defaults:
-      run:
-        working-directory: ./src/python/rai
+    runs-on: ubuntu-20.04
+    timeout-minutes: 60
 
     strategy:
       fail-fast: false
       matrix:
-        task: ["pytest", "docs", "pyright"]
+        python-version: [3.9]
 
     steps:
-      - uses: actions/checkout@v2
-
-      - name: Setup Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v2
-        with:
-          python-version: "3.10.6"
-
-      - name: Get full Python version
-        id: full-python-version
-        shell: bash
-        run: |
-          echo ::set-output name=version::$(python -c "import sys; print('-'.join(str(v) for v in sys.version_info))")
-
-      - name: Get pip cache dir
-        id: pip-cache
-        run: |
-          python -m pip install -U pip # to ensure version > 20 to have cache dir
-          echo "::set-output name=dir::$(pip cache dir)"
+      - uses: actions/checkout@v3
 
-      - name: Pip cache
-        uses: actions/cache@v2
+      - uses: pantsbuild/actions/init-pants@v2
         with:
-          path: ${{ steps.pip-cache.outputs.dir }}
-          key: pip-${{ matrix.task }}-${{ runner.os }}-${{ steps.full-python-version.outputs.version }}
+          pants-python-version: ${{ matrix.python-version }}
+          gha-cache-key: cache0-py${{ matrix.python-version }}
+          named-caches-hash: ${{ hashFiles('3rdparty/python/default.lock') }}
+          cache-lmdb-store: "false"
 
-      - name: Upgrade pip and setuptools
+      - name: Check BUILD files
         run: |
-          pip install --upgrade pip setuptools
-
-      - name: Install Poetry
-        uses: snok/install-poetry@v1
-        with:
-          version: 1.2.1
-          virtualenvs-create: true
+          ./pants tailor --check update-build-files --check ::
 
-      - name: Configure Poetry to not use experimental installer
+      - name: Lint and typecheck
         run: |
-          poetry config experimental.new-installer false
-
-      - name: Configure Poetry
-        run: |
-          poetry config virtualenvs.in-project true
-
-      - name: Poetry cache
-        uses: actions/cache@v3
-        id: poetry-cache
-        with:
-          path: .venv
-          key: venv-${{ matrix.task }}-${{ runner.os }}-${{ steps.full-python-version.outputs.version }}-${{ hashFiles('**/poetry.lock') }}
+          ./pants lint check ::
 
-      # This is from <https://github.com/python-poetry/poetry/blob/639d5e057/.github/workflows/main.yml#L57-L60>
-      - name: Ensure cache is healthy
-        if: steps.poetry-cache.outputs.cache-hit == 'true'
-        shell: bash
+      - name: Test
         run: |
-          timeout 10s poetry run pip --version || rm -rf .venv
+          ./pants test ::
 
-      - name: Poetry install
+      - name: Package
         run: |
-          poetry install
-
-      # =======
-      # PyRight
-      # =======
-
-      - name: Run PyRight
-        if: matrix.task == 'pyright'
-        run: |
-          poetry run pyright
-
-      # ======
-      # PyTest
-      # ======
-
-      - name: Run PyTest
-        if: matrix.task == 'pytest'
-        run: |
-          poetry run pytest --pylint --doctest-modules
-
-      # ====
-      # Docs
-      # ====
-
-      - name: Build docs
-        if: matrix.task == 'docs'
-        run: |
-          [[ ! -d docs/_build/html ]]
-          poetry run rai docs
-          [[ -d docs/_build/html ]]
-
-      - name: Add GitHub Pages config files
-        if: github.event_name == 'push' && matrix.task == 'docs'
-        run: |
-          echo docs.radiotherapy.ai > docs/_build/html/CNAME
-          touch docs/_build/html/.nojekyll
-
-      - name: Deploy to gh-pages branch
-        if: github.event_name == 'push' && matrix.task == 'docs'
-        uses: JamesIves/github-pages-deploy-action@4.1.3
-        with:
-          branch: gh-pages
-          folder: docs/_build/html
+          ./pants package ::
+
+      # TODO: Add docs building back in
+
+      # - name: Build docs
+      #   if: matrix.task == 'docs'
+      #   run: |
+      #     [[ ! -d docs/_build/html ]]
+      #     poetry run rai docs
+      #     [[ -d docs/_build/html ]]
+
+      # - name: Add GitHub Pages config files
+      #   if: github.event_name == 'push' && matrix.task == 'docs'
+      #   run: |
+      #     echo docs.radiotherapy.ai > docs/_build/html/CNAME
+      #     touch docs/_build/html/.nojekyll
+
+      # - name: Deploy to gh-pages branch
+      #   if: github.event_name == 'push' && matrix.task == 'docs'
+      #   uses: JamesIves/github-pages-deploy-action@4.1.3
+      #   with:
+      #     branch: gh-pages
+      #     folder: docs/_build/html
diff --git a/.gitignore b/.gitignore
index aa319806..a0292f4f 100644
--- a/.gitignore
+++ b/.gitignore
@@ -102,7 +102,6 @@ celerybeat.pid
 *.sage.py
 
 # Environments
-.env
 .venv
 env/
 venv/
@@ -128,6 +127,12 @@ dmypy.json
 # Pyre type checker
 .pyre/
 
+# Pants workspace files
+/.pants.d/
+/dist/
+/.pids
+/.pants.workdir.file_lock*
+
 # ========
 
 .~lock*
diff --git a/.gitmodules b/.gitmodules
deleted file mode 100644
index 0b8d3cd8..00000000
--- a/.gitmodules
+++ /dev/null
@@ -1,3 +0,0 @@
-[submodule "src/python/raicontours"]
-	path = src/python/raicontours
-	url = git@github.com:RadiotherapyAI/raicontours.git
diff --git a/.tool-versions b/.tool-versions
index cb51a312..fc927d3f 100644
--- a/.tool-versions
+++ b/.tool-versions
@@ -1,1 +1,1 @@
-python 3.10.6
+python 3.9.15
diff --git a/.vscode/workspace.code-workspace b/.vscode/workspace.code-workspace
index 2a2b9e13..c1b42994 100644
--- a/.vscode/workspace.code-workspace
+++ b/.vscode/workspace.code-workspace
@@ -56,6 +56,7 @@
       "Bronchpulm",
       "Bronchpulms",
       "BRTO",
+      "buildroot",
       "capa",
       "Cartlg",
       "Cavernosum",
@@ -190,13 +191,13 @@
       "tmpl",
       "tomlkit",
       "Trachbrnchs",
+      "typecheck",
       "Unported",
       "Venacava",
       "venv",
       "virtualenvs",
       "Vomer",
       "waivable",
-      "waivable",
       "Wouter",
       "Zygomatic",
       "Zygomatics"
diff --git a/3rdparty/python/BUILD b/3rdparty/python/BUILD
new file mode 100644
index 00000000..b8519ce5
--- /dev/null
+++ b/3rdparty/python/BUILD
@@ -0,0 +1,3 @@
+python_requirements(
+    name="reqs",
+)
diff --git a/3rdparty/python/black.lock b/3rdparty/python/black.lock
new file mode 100644
index 00000000..33dfa38e
--- /dev/null
+++ b/3rdparty/python/black.lock
@@ -0,0 +1,228 @@
+// This lockfile was autogenerated by Pants. To regenerate, run:
+//
+//    ./pants generate-lockfiles --resolve=black
+//
+// --- BEGIN PANTS LOCKFILE METADATA: DO NOT EDIT OR REMOVE ---
+// {
+//   "version": 3,
+//   "valid_for_interpreter_constraints": [
+//     "CPython==3.9.15"
+//   ],
+//   "generated_with_requirements": [
+//     "black==22.6.0",
+//     "typing-extensions>=3.10.0.0; python_version < \"3.10\""
+//   ],
+//   "manylinux": "manylinux2014",
+//   "requirement_constraints": [],
+//   "only_binary": [],
+//   "no_binary": []
+// }
+// --- END PANTS LOCKFILE METADATA ---
+
+{
+  "allow_builds": true,
+  "allow_prereleases": false,
+  "allow_wheels": true,
+  "build_isolation": true,
+  "constraints": [],
+  "locked_resolves": [
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new file mode 100644
index 00000000..9d63e4a7
--- /dev/null
+++ b/3rdparty/python/default.lock
@@ -0,0 +1,1313 @@
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+//
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+//
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+// {
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diff --git a/3rdparty/python/requirements.txt b/3rdparty/python/requirements.txt
new file mode 100644
index 00000000..9df54fbb
--- /dev/null
+++ b/3rdparty/python/requirements.txt
@@ -0,0 +1,14 @@
+# User
+black
+click
+matplotlib
+numpy
+pydicom
+shapely
+scikit-image
+tomlkit
+typing_extensions
+
+# Dev
+# TODO: Shouldn't need this here as pants has its own location for it
+pylint
diff --git a/pants b/pants
new file mode 100755
index 00000000..59f720d7
--- /dev/null
+++ b/pants
@@ -0,0 +1,510 @@
+#!/usr/bin/env bash
+# Copyright 2020 Pants project contributors (see CONTRIBUTORS.md).
+# Licensed under the Apache License, Version 2.0 (see LICENSE).
+
+# =============================== NOTE ===============================
+# This ./pants bootstrap script comes from the pantsbuild/setup
+# project. It is intended to be checked into your code repository so
+# that other developers have the same setup.
+#
+# Learn more here: https://www.pantsbuild.org/docs/installation
+# ====================================================================
+
+set -eou pipefail
+
+# an arbitrary number: bump when there's a change that someone might want to query for
+# (e.g. checking $(PANTS_BOOTSTRAP_TOOLS=1 ./pants version) >= ...)
+SCRIPT_VERSION=1
+
+# Source any custom bootstrap settings for Pants from PANTS_BOOTSTRAP if it exists.
+: ${PANTS_BOOTSTRAP:=".pants.bootstrap"}
+if [[ -f "${PANTS_BOOTSTRAP}" ]]; then
+  source "${PANTS_BOOTSTRAP}"
+fi
+
+# NOTE: To use an unreleased version of Pants from the pantsbuild/pants main branch,
+#  locate the main branch SHA, set PANTS_SHA=<SHA> in the environment, and run this script as usual.
+#
+# E.g., PANTS_SHA=725fdaf504237190f6787dda3d72c39010a4c574 ./pants --version
+#
+# You can also use PANTS_VERSION=<VERSION> to override the config version that is in the pants.toml file.
+#
+# E.g., PANTS_VERSION=2.13.0 ./pants --version
+
+PYTHON_BIN_NAME="${PYTHON:-unspecified}"
+
+# Set this to specify a non-standard location for this script to read the Pants version from.
+# NB: This will *not* cause Pants itself to use this location as a config file.
+#     You can use PANTS_CONFIG_FILES or --pants-config-files to do so.
+PANTS_TOML=${PANTS_TOML:-pants.toml}
+
+PANTS_BIN_NAME="${PANTS_BIN_NAME:-$0}"
+
+PANTS_SETUP_CACHE="${PANTS_SETUP_CACHE:-${XDG_CACHE_HOME:-$HOME/.cache}/pants/setup}"
+# If given a relative path, we fix it to be absolute.
+if [[ "$PANTS_SETUP_CACHE" != /* ]]; then
+  PANTS_SETUP_CACHE="${PWD}/${PANTS_SETUP_CACHE}"
+fi
+
+PANTS_BOOTSTRAP="${PANTS_SETUP_CACHE}/bootstrap-$(uname -s)-$(uname -m)"
+
+_PEX_VERSION=2.1.103
+_PEX_URL="https://github.com/pantsbuild/pex/releases/download/v${_PEX_VERSION}/pex"
+_PEX_EXPECTED_SHA256="4d45336511484100ae4e2bab24542a8b86b12c8cb89230463593c60d08c4b8d3"
+
+VIRTUALENV_VERSION=20.4.7
+VIRTUALENV_REQUIREMENTS=$(
+cat << EOF
+virtualenv==${VIRTUALENV_VERSION} --hash sha256:2b0126166ea7c9c3661f5b8e06773d28f83322de7a3ff7d06f0aed18c9de6a76
+filelock==3.0.12 --hash sha256:929b7d63ec5b7d6b71b0fa5ac14e030b3f70b75747cef1b10da9b879fef15836
+six==1.16.0 --hash sha256:8abb2f1d86890a2dfb989f9a77cfcfd3e47c2a354b01111771326f8aa26e0254
+distlib==0.3.2 --hash sha256:23e223426b28491b1ced97dc3bbe183027419dfc7982b4fa2f05d5f3ff10711c
+appdirs==1.4.4 --hash sha256:a841dacd6b99318a741b166adb07e19ee71a274450e68237b4650ca1055ab128
+importlib-resources==5.1.4; python_version < "3.7" --hash sha256:e962bff7440364183203d179d7ae9ad90cb1f2b74dcb84300e88ecc42dca3351
+importlib-metadata==4.5.0; python_version < "3.8" --hash sha256:833b26fb89d5de469b24a390e9df088d4e52e4ba33b01dc5e0e4f41b81a16c00
+zipp==3.4.1; python_version < "3.10" --hash sha256:51cb66cc54621609dd593d1787f286ee42a5c0adbb4b29abea5a63edc3e03098
+typing-extensions==3.10.0.0; python_version < "3.8" --hash sha256:779383f6086d90c99ae41cf0ff39aac8a7937a9283ce0a414e5dd782f4c94a84
+EOF
+)
+
+COLOR_RED="\x1b[31m"
+COLOR_GREEN="\x1b[32m"
+COLOR_YELLOW="\x1b[33m"
+COLOR_RESET="\x1b[0m"
+
+INSTALL_URL="https://www.pantsbuild.org/docs/installation"
+
+function log() {
+  echo -e "$@" 1>&2
+}
+
+function die() {
+  (($# > 0)) && log "${COLOR_RED}$*${COLOR_RESET}"
+  exit 1
+}
+
+function green() {
+  (($# > 0)) && log "${COLOR_GREEN}$*${COLOR_RESET}"
+}
+
+function warn() {
+  (($# > 0)) && log "${COLOR_YELLOW}$*${COLOR_RESET}"
+}
+
+function tempdir {
+  mkdir -p "$1"
+  mktemp -d "$1"/pants.XXXXXX
+}
+
+function get_exe_path_or_die {
+  local exe="$1"
+  if ! command -v "${exe}"; then
+    die "Could not find ${exe}. Please ensure ${exe} is on your PATH."
+  fi
+}
+
+function get_pants_config_string_value {
+  local config_key="$1"
+  local optional_space="[[:space:]]*"
+  local prefix="^${config_key}${optional_space}=${optional_space}"
+  local raw_value
+  raw_value="$(sed -ne "/${prefix}/ s|${prefix}||p" "${PANTS_TOML}")"
+  local optional_suffix="${optional_space}(#.*)?$"
+  echo "${raw_value}" \
+    | sed -E \
+      -e "s|^'([^']*)'${optional_suffix}|\1|" \
+      -e 's|^"([^"]*)"'"${optional_suffix}"'$|\1|' \
+    && return 0
+  return 0
+}
+
+function get_python_major_minor_version {
+  local python_exe="$1"
+  "$python_exe" <<EOF
+import sys
+major_minor_version = ''.join(str(version_num) for version_num in sys.version_info[0:2])
+print(major_minor_version)
+EOF
+}
+
+# The high-level flow:
+#
+# 1.) Resolve the Pants version from config so that we know what interpreters we can use, what to name the venv,
+#     and what to install via pip.
+# 2.) Resolve the Python interpreter, first reading from the env var $PYTHON, then using a default based on the Pants
+#     version.
+# 3.) Check if the venv already exists via a naming convention, and create the venv if not found.
+# 4.) Execute Pants with the resolved Python interpreter and venv.
+#
+# After that, Pants itself will handle making sure any requested plugins
+# are installed and up to date.
+
+function determine_pants_version {
+  if [ -n "${PANTS_SHA:-}" ]; then
+    # get_version_for_sha will echo the version, thus "returning" it from this function.
+    get_version_for_sha "$PANTS_SHA"
+    return
+  fi
+
+  if [ -n "${PANTS_VERSION:-}" ]; then
+	echo "${PANTS_VERSION}"
+    return
+  fi
+
+  pants_version="$(get_pants_config_string_value 'pants_version')"
+  if [[ -z "${pants_version}" ]]; then
+    die "Please explicitly specify the \`pants_version\` in your \`pants.toml\` under the \`[GLOBAL]\` scope.
+See https://pypi.org/project/pantsbuild.pants/#history for all released versions
+and ${INSTALL_URL} for more instructions."
+  fi
+  pants_major_version="$(echo "${pants_version}" | cut -d '.' -f1)"
+  pants_minor_version="$(echo "${pants_version}" | cut -d '.' -f2)"
+  # 1.26 is the first version to support `pants.toml`, so we fail eagerly if using an outdated version.
+  if [[ "${pants_major_version}" -eq 1 && "${pants_minor_version}" -le 25 ]]; then
+    die "This version of the \`./pants\` script does not work with Pants <= 1.25.0 (and it also requires using \`pants.toml\`,
+rather than \`pants.ini\`). Instead, either upgrade your \`pants_version\` or use the version of the \`./pants\` script
+at https://raw.githubusercontent.com/Eric-Arellano/setup/0d445edef57cb89fd830db70810e38f050b0a268/pants."
+  fi
+  echo "${pants_version}"
+}
+
+function set_supported_python_versions {
+  local pants_version="$1"
+  local pants_major_version
+  local pants_minor_version
+  pants_major_version="$(echo "${pants_version}" | cut -d '.' -f1)"
+  pants_minor_version="$(echo "${pants_version}" | cut -d '.' -f2)"
+  if [[ "${pants_major_version}" -eq 1 ]]; then
+    supported_python_versions_decimal=('3.6' '3.7' '3.8')
+    supported_python_versions_int=('36' '37' '38')
+    supported_message='3.6, 3.7, or 3.8'
+  elif [[ "${pants_major_version}" -eq 2 && "${pants_minor_version}" -eq 0 ]]; then
+    supported_python_versions_decimal=('3.6' '3.7' '3.8')
+    supported_python_versions_int=('36' '37' '38')
+    supported_message='3.6, 3.7, or 3.8'
+  elif [[ "${pants_major_version}" -eq 2 && "${pants_minor_version}" -eq 1 ]]; then
+    supported_python_versions_decimal=('3.7' '3.8' '3.6')
+    supported_python_versions_int=('37' '38' '36')
+    supported_message='3.7, 3.8, or 3.6 (deprecated)'
+  elif [[ "${pants_major_version}" -eq 2 && "${pants_minor_version}" -lt 5 ]]; then
+    supported_python_versions_decimal=('3.8' '3.7')
+    supported_python_versions_int=('38' '37')
+    supported_message='3.7 or 3.8'
+  else
+    # We put 3.9 first because Apple Silicon only works properly with Python 3.9, even though it's possible to have
+    # older Pythons installed. This makes it more likely that Pants will work out-of-the-box.
+    supported_python_versions_decimal=('3.9' '3.8' '3.7')
+    supported_python_versions_int=('39' '38' '37')
+    supported_message='3.7, 3.8, or 3.9'
+  fi
+}
+
+function check_python_exe_compatible_version {
+  local python_exe="$1"
+  local major_minor_version
+  major_minor_version="$(get_python_major_minor_version "${python_exe}")"
+  for valid_version in "${supported_python_versions_int[@]}"; do
+    if [[ "${major_minor_version}" == "${valid_version}" ]]; then
+      echo "${python_exe}" && return 0
+    fi
+  done
+}
+
+function determine_default_python_exe {
+  for version in "${supported_python_versions_decimal[@]}" "3" ""; do
+    local interpreter_path
+    interpreter_path="$(command -v "python${version}")"
+    if [[ -z "${interpreter_path}" ]]; then
+      continue
+    fi
+    # Check if a version is shimmed by pyenv or asdf but not configured.
+    if ! "${interpreter_path}" --version >/dev/null 2>&1; then
+      continue
+    fi
+    if [[ -n "$(check_python_exe_compatible_version "${interpreter_path}")" ]]; then
+      echo "${interpreter_path}" && return 0
+    fi
+  done
+}
+
+function determine_python_exe {
+  local pants_version="$1"
+  set_supported_python_versions "${pants_version}"
+  local requirement_str="For \`pants_version = \"${pants_version}\"\`, Pants requires Python ${supported_message} to run."
+
+  local python_exe
+  if [[ "${PYTHON_BIN_NAME}" != 'unspecified' ]]; then
+    python_exe="$(get_exe_path_or_die "${PYTHON_BIN_NAME}")" || exit 1
+    if [[ -z "$(check_python_exe_compatible_version "${python_exe}")" ]]; then
+      die "Invalid Python interpreter version for ${python_exe}. ${requirement_str}"
+    fi
+  else
+    python_exe="$(determine_default_python_exe)"
+    if [[ -z "${python_exe}" ]]; then
+      die "No valid Python interpreter found. ${requirement_str} Please check that a valid interpreter is installed and on your \$PATH."
+    fi
+  fi
+  echo "${python_exe}"
+}
+
+function compute_sha256 {
+  local python="$1"
+  local path="$2"
+
+  "$python" <<EOF
+import hashlib
+
+hasher = hashlib.sha256()
+with open('${path}', 'rb') as fp:
+    buf = fp.read()
+    hasher.update(buf)
+print(hasher.hexdigest())
+EOF
+}
+
+# TODO(John Sirois): GC race loser tmp dirs leftover from bootstrap_XXX
+# functions.  Any tmp dir w/o a symlink pointing to it can go.
+
+function bootstrap_pex {
+  local python="$1"
+  local bootstrapped="${PANTS_BOOTSTRAP}/pex-${_PEX_VERSION}/pex"
+  if [[ ! -f "${bootstrapped}" ]]; then
+    (
+      green "Downloading the Pex PEX."
+      mkdir -p "${PANTS_BOOTSTRAP}"
+      local staging_dir
+      staging_dir=$(tempdir "${PANTS_BOOTSTRAP}")
+      curl --proto "=https" \
+           --tlsv1.2 \
+           --silent \
+           --location \
+           -o "${staging_dir}/pex" \
+           "${_PEX_URL}"
+      fingerprint="$(compute_sha256 "${python}" "${staging_dir}/pex")"
+      if [[ "${_PEX_EXPECTED_SHA256}" != "${fingerprint}" ]]; then
+        die "SHA256 of ${_PEX_URL} is not as expected. Aborting."
+      fi
+      green "SHA256 fingerprint of ${_PEX_URL} verified."
+      mkdir -p "$(dirname "${bootstrapped}")"
+      mv -f "${staging_dir}/pex" "${bootstrapped}"
+      rmdir "${staging_dir}"
+    ) 1>&2 || exit 1
+  fi
+  echo "${bootstrapped}"
+}
+
+function scrub_env_vars {
+  # Ensure the virtualenv PEX runs as shrink-wrapped.
+  # See: https://github.com/pantsbuild/setup/issues/105
+  local -r pex_env_vars=(${!PEX_@})
+  if [[ ! ${#pex_env_vars[@]} -eq 0 ]]; then
+    local -r pex_env_vars_to_scrub="${pex_env_vars[@]/PEX_ROOT}"
+    if [[ -n "${pex_env_vars_to_scrub[@]}" ]]; then
+      warn "Scrubbing ${pex_env_vars_to_scrub[@]}"
+      unset ${pex_env_vars_to_scrub[@]}
+    fi
+  fi
+  # Also ensure pip doesn't think packages on PYTHONPATH
+  # are already installed.
+  if [ -n "${PYTHONPATH:-}" ]; then
+    warn "Scrubbing PYTHONPATH"
+    unset PYTHONPATH
+  fi
+}
+
+function bootstrap_virtualenv {
+  local python="$1"
+  local bootstrapped="${PANTS_BOOTSTRAP}/virtualenv-${VIRTUALENV_VERSION}/virtualenv.pex"
+  if [[ ! -f "${bootstrapped}" ]]; then
+    (
+      green "Creating the virtualenv PEX."
+      pex_path="$(bootstrap_pex "${python}")" || exit 1
+      mkdir -p "${PANTS_BOOTSTRAP}"
+      local staging_dir
+      staging_dir=$(tempdir "${PANTS_BOOTSTRAP}")
+      echo "${VIRTUALENV_REQUIREMENTS}" > "${staging_dir}/requirements.txt"
+      (
+        scrub_env_vars
+        "${python}" "${pex_path}" -r "${staging_dir}/requirements.txt" -c virtualenv -o "${staging_dir}/virtualenv.pex"
+      )
+      mkdir -p "$(dirname "${bootstrapped}")"
+      mv -f "${staging_dir}/virtualenv.pex" "${bootstrapped}"
+      rm -rf "${staging_dir}"
+    ) 1>&2 || exit 1
+  fi
+  echo "${bootstrapped}"
+}
+
+function find_links_url {
+  local pants_version="$1"
+  local pants_sha="$2"
+  echo -n "https://binaries.pantsbuild.org/wheels/pantsbuild.pants/${pants_sha}/${pants_version/+/%2B}/index.html"
+}
+
+function get_version_for_sha {
+  local sha="$1"
+
+  # Retrieve the Pants version associated with this commit.
+  local pants_version
+  pants_version="$(curl --proto "=https" \
+                        --tlsv1.2 \
+                        --fail \
+                        --silent \
+                        --location \
+                        "https://raw.githubusercontent.com/pantsbuild/pants/${sha}/src/python/pants/VERSION")"
+
+  # Construct the version as the release version from src/python/pants/VERSION, plus the string `+gitXXXXXXXX`,
+  # where the XXXXXXXX is the first 8 characters of the SHA.
+  echo "${pants_version}+git${sha:0:8}"
+}
+
+function bootstrap_pants {
+  local pants_version="$1"
+  local python="$2"
+  local pants_sha="${3:-}"
+  local pants_debug="${4:-}"
+
+  local pants_requirements=(pantsbuild.pants==${pants_version})
+  local maybe_find_links
+  if [[ -z "${pants_sha}" ]]; then
+    maybe_find_links=""
+  else
+    maybe_find_links="--find-links=$(find_links_url "${pants_version}" "${pants_sha}")"
+  fi
+
+  local debug_suffix
+  if [[ -z "${pants_debug}" ]]; then
+    debug_suffix=""
+  else
+    debug_suffix="-debug"
+    pants_requirements+=(debugpy==1.6.0)
+  fi
+
+  local python_major_minor_version
+  python_major_minor_version="$(get_python_major_minor_version "${python}")"
+  local target_folder_name="${pants_version}_py${python_major_minor_version}${debug_suffix}"
+  local bootstrapped="${PANTS_BOOTSTRAP}/${target_folder_name}"
+
+  if [[ ! -d "${bootstrapped}" ]]; then
+    (
+      green "Bootstrapping Pants using ${python}"
+      local staging_dir
+      staging_dir=$(tempdir "${PANTS_BOOTSTRAP}")
+      local virtualenv_path
+      virtualenv_path="$(bootstrap_virtualenv "${python}")" || exit 1
+      green "Installing ${pants_requirements[@]} into a virtual environment at ${bootstrapped}"
+      (
+        scrub_env_vars
+        # shellcheck disable=SC2086
+        "${python}" "${virtualenv_path}" --quiet --no-download "${staging_dir}/install" && \
+        # Grab the latest pip, but don't advance setuptools past 58 which drops support for the
+        # `setup` kwarg `use_2to3` which Pants 1.x sdist dependencies (pystache) use.
+        "${staging_dir}/install/bin/pip" install --quiet -U pip "setuptools<58" && \
+        "${staging_dir}/install/bin/pip" install ${maybe_find_links} --quiet --progress-bar off "${pants_requirements[@]}"
+      ) && \
+      ln -s "${staging_dir}/install" "${staging_dir}/${target_folder_name}" && \
+      mv "${staging_dir}/${target_folder_name}" "${bootstrapped}" && \
+      green "New virtual environment successfully created at ${bootstrapped}."
+    ) 1>&2 || exit 1
+  fi
+  echo "${bootstrapped}"
+}
+
+function run_bootstrap_tools {
+  # functionality for introspecting the bootstrapping process, without actually doing it
+  if [[ "${PANTS_BOOTSTRAP_TOOLS}" -gt "${SCRIPT_VERSION}" ]]; then
+      die "$0 script (bootstrap version ${SCRIPT_VERSION}) is too old for this invocation (with PANTS_BOOTSTRAP_TOOLS=${PANTS_BOOTSTRAP_TOOLS}).
+Please update it by following ${INSTALL_URL}"
+  fi
+
+  case "${1:-}" in
+    bootstrap-cache-key)
+      local pants_version=$(determine_pants_version)
+      local python="$(determine_python_exe "${pants_version}")"
+      # the python above may be a shim (e.g. pyenv or homebrew), so let's get an estimate of the
+      # actual path, as will be symlinked in the virtualenv. (NB. virtualenv does more complicated
+      # things, but we at least emulate the symlink-resolution that it does.)
+      local python_executable_path="$("${python}" -c 'import os, sys; print(os.path.realpath(sys.executable))')"
+
+      local requirements_file="$(mktemp)"
+      echo "${VIRTUALENV_REQUIREMENTS}" > "${requirements_file}"
+      local virtualenv_requirements_sha256="$(compute_sha256 "${python}" "${requirements_file}")"
+      rm "${requirements_file}"
+
+      local parts=(
+        "os_name=$(uname -s)"
+        "arch=$(uname -m)"
+        "python_path=${python}"
+        "python_executable_path=${python_executable_path}"
+        # the full interpreter information, for maximum compatibility
+        "python_version=$("$python" --version)"
+        "pex_version=${_PEX_VERSION}"
+        "virtualenv_requirements_sha256=${virtualenv_requirements_sha256}"
+        "pants_version=${pants_version}"
+      )
+      echo "${parts[*]}"
+      ;;
+    bootstrap-version)
+      echo "${SCRIPT_VERSION}"
+      ;;
+    help|"")
+      cat <<EOF
+Usage: PANTS_BOOTSTRAP_TOOLS=1 $0 ...
+
+Subcommands:
+  bootstrap-cache-key
+    Print an opaque that can be used as a key for accurate and safe caching of
+    the pants bootstrap directories.
+
+    (Added in bootstrap version 1.)
+
+  bootstrap-version
+    Print a version number for the bootstrap script itself.
+
+    Distributed scripts (such as reusable CI formulae) that use these bootstrap
+    tools should set PANTS_BOOTSTRAP_TOOLS to the minimum script version for the
+    features they require. For example, if 'some-tool' was added in version 123:
+
+        PANTS_BOOTSTRAP_TOOLS=123 ./pants some-tool
+
+    (Added in bootstrap version 1.)
+EOF
+      ;;
+    *)
+      die "Unknown subcommand for bootstrap tools: $1. Do you mean to run without PANTS_BOOTSTRAP_TOOLS=1? Or, update this script ($INSTALL_URL)?"
+  esac
+}
+
+if [[ "${PANTS_BOOTSTRAP_TOOLS:-}" -gt 0 ]]; then
+    run_bootstrap_tools "$@"
+    exit 0
+fi
+
+# Ensure we operate from the context of the ./pants buildroot.
+cd "$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd -P)"
+pants_version="$(determine_pants_version)"
+python="$(determine_python_exe "${pants_version}")"
+pants_dir="$(bootstrap_pants "${pants_version}" "${python}" "${PANTS_SHA:-}" "${PANTS_DEBUG:-}")" || exit 1
+
+pants_python="${pants_dir}/bin/python"
+pants_binary=(${pants_dir}/bin/pants)
+pants_extra_args=""
+if [[ -n "${PANTS_SHA:-}" ]]; then
+  pants_extra_args="${pants_extra_args} --python-repos-repos=$(find_links_url "$pants_version" "$PANTS_SHA")"
+fi
+
+pants_debug_args=()
+if [ -n "${PANTS_DEBUG:-}" ]; then
+  if [[ "$*" != *"--no-pantsd"* ]]; then
+    echo "Error! Must pass '--no-pantsd' when using PANTS_DEBUG"
+    exit 1
+  fi
+  # NB: We can't invoke `-m debugpy` as that'll prepend CWD to sys.path which might have unintended side-effects.
+  # `-c` also prepends, but we strip that ourselves.
+  pants_binary=(-c "__import__(\"sys\").path.pop(0);__import__(\"debugpy.server.cli\").server.cli.main()" --listen 127.0.0.1:5678 --wait-for-client "${pants_binary[@]}")
+  echo "Will launch debugpy server at '127.0.0.1:5678' waiting for client connection."
+fi
+
+# shellcheck disable=SC2086
+exec "${pants_python}" "${pants_binary[@]}" ${pants_extra_args} \
+  --pants-bin-name="${PANTS_BIN_NAME}" --pants-version=${pants_version} "$@"
diff --git a/pants.toml b/pants.toml
new file mode 100644
index 00000000..f95b692f
--- /dev/null
+++ b/pants.toml
@@ -0,0 +1,70 @@
+[GLOBAL]
+pants_version = "2.14.0"
+backend_packages = [
+  "pants.backend.python",
+  "pants.backend.python.lint.black",
+  "pants.backend.python.lint.isort",
+  "pants.backend.python.lint.pylint",
+
+  # TODO: Include this once it lands
+  # "pants.backend.python.typecheck.pyright"
+
+  # TODO: Include the following in their own PRs later on
+  # "pants.backend.experimental.python.lint.pyupgrade",
+  # "pants.backend.python.lint.docformatter",
+  # "pants.backend.python.lint.bandit",
+  # "pants.backend.experimental.python.lint.autoflake",
+  # "pants.backend.python.lint.flake8",
+]
+
+[GLOBAL.pants_ignore]
+add = ["records/"]
+
+[anonymous-telemetry]
+enabled = true
+repo_id = "ad4dd1f1-8c32-4d36-9bb3-71a966bbc771"
+
+[source]
+root_patterns = [
+    "/src/python/*",
+]
+
+[python]
+# TODO: Propagate this from to/from .tool-versions
+interpreter_constraints = ["==3.9.15"]
+enable_resolves = true
+resolves = { python-default = "3rdparty/python/default.lock"}
+
+# [pyupgrade]
+# args = ["--py39-plus"]
+
+[python-infer]
+assets = true
+unowned_dependency_behavior = "error"
+
+[black]
+lockfile = "3rdparty/python/black.lock"
+
+[isort]
+args = ["--profile", "black", "-p", "rai", "-p", "raicontours"]
+lockfile = "3rdparty/python/isort.lock"
+
+[pylint]
+args = ["--ignore-patterns=.*.pyi"]
+lockfile = "3rdparty/python/pylint.lock"
+
+[pytest]
+args = ["--no-header"]
+lockfile = "3rdparty/python/pytest.lock"
+
+[pytest.extra_requirements]
+add = [
+  "ipdb",
+  "pytest-asyncio",
+  "pytest-html",
+  "pytest-icdiff",
+  "pygments",
+]
+
+[python-bootstrap]
+search_path = ["<ASDF_LOCAL>", "<ASDF>", "<PYENV>", "<PATH>"]
diff --git a/src/python/rai/README.md b/src/python/rai/README.md
index 45a794dd..2f8eb34d 100644
--- a/src/python/rai/README.md
+++ b/src/python/rai/README.md
@@ -24,7 +24,7 @@ achieve.
 
 This open source research library is able to be installed by running:
 
-```
+```bash
 pip install rai
 ```
 
diff --git a/src/python/rai/poetry.lock b/src/python/rai/poetry.lock
deleted file mode 100644
index 4cf0c7c7..00000000
--- a/src/python/rai/poetry.lock
+++ /dev/null
@@ -1,4945 +0,0 @@
-[[package]]
-name = "absl-py"
-version = "1.3.0"
-description = "Abseil Python Common Libraries, see https://github.com/abseil/abseil-py."
-category = "main"
-optional = false
-python-versions = ">=3.6"
-
-[[package]]
-name = "alabaster"
-version = "0.7.12"
-description = "A configurable sidebar-enabled Sphinx theme"
-category = "dev"
-optional = false
-python-versions = "*"
-
-[[package]]
-name = "anyio"
-version = "3.6.2"
-description = "High level compatibility layer for multiple asynchronous event loop implementations"
-category = "dev"
-optional = false
-python-versions = ">=3.6.2"
-
-[package.dependencies]
-idna = ">=2.8"
-sniffio = ">=1.1"
-
-[package.extras]
-doc = ["packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"]
-test = ["contextlib2", "coverage[toml] (>=4.5)", "hypothesis (>=4.0)", "mock (>=4)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (<0.15)", "uvloop (>=0.15)"]
-trio = ["trio (>=0.16,<0.22)"]
-
-[[package]]
-name = "appnope"
-version = "0.1.3"
-description = "Disable App Nap on macOS >= 10.9"
-category = "dev"
-optional = false
-python-versions = "*"
-
-[[package]]
-name = "argon2-cffi"
-version = "21.3.0"
-description = "The secure Argon2 password hashing algorithm."
-category = "dev"
-optional = false
-python-versions = ">=3.6"
-
-[package.dependencies]
-argon2-cffi-bindings = "*"
-
-[package.extras]
-dev = ["cogapp", "coverage[toml] (>=5.0.2)", "furo", "hypothesis", "pre-commit", "pytest", "sphinx", "sphinx-notfound-page", "tomli"]
-docs = ["furo", "sphinx", "sphinx-notfound-page"]
-tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pytest"]
-
-[[package]]
-name = "argon2-cffi-bindings"
-version = "21.2.0"
-description = "Low-level CFFI bindings for Argon2"
-category = "dev"
-optional = false
-python-versions = ">=3.6"
-
-[package.dependencies]
-cffi = ">=1.0.1"
-
-[package.extras]
-dev = ["cogapp", "pre-commit", "pytest", "wheel"]
-tests = ["pytest"]
-
-[[package]]
-name = "astroid"
-version = "2.12.13"
-description = "An abstract syntax tree for Python with inference support."
-category = "dev"
-optional = false
-python-versions = ">=3.7.2"
-
-[package.dependencies]
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-]
-zipp = [
-    {file = "zipp-3.11.0-py3-none-any.whl", hash = "sha256:83a28fcb75844b5c0cdaf5aa4003c2d728c77e05f5aeabe8e95e56727005fbaa"},
-    {file = "zipp-3.11.0.tar.gz", hash = "sha256:a7a22e05929290a67401440b39690ae6563279bced5f314609d9d03798f56766"},
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diff --git a/src/python/rai/pyproject.toml b/src/python/rai/pyproject.toml
deleted file mode 100644
index 972e2c3b..00000000
--- a/src/python/rai/pyproject.toml
+++ /dev/null
@@ -1,102 +0,0 @@
-[tool.poetry]
-name = "rai"
-version = "0.2.0-dev12"
-readme = "README.md"
-description = "AI assisted treatments accessible to all"
-authors = ["Simon Biggs <simon.biggs@radiotherapy.ai>"]
-license = "AGPL-3.0-or-later"
-
-homepage = "https://radiotherapy.ai"
-repository = "https://github.com/RadiotherapyAI/rai"
-documentation = "https://docs.radiotherapy.ai"
-
-classifiers = [
-    "Development Status :: 4 - Beta",
-    "Topic :: Scientific/Engineering :: Medical Science Apps.",
-    "Topic :: Scientific/Engineering :: Physics",
-    "Intended Audience :: Science/Research",
-    "Intended Audience :: Healthcare Industry",
-]
-
-[tool.poetry.dependencies]
-# Upper pinning here is being forced on us by scipy. We don't want to do this.
-# Ideally find a way to not upper pin if possible. See the following for more
-# details:
-# https://iscinumpy.dev/post/bound-version-constraints/#pinning-the-python-version-is-special
-
-# TODO: Create a release CLI that temporarily removes these bounds prior to
-# release.
-python = ">=3.8,<3.11"
-
-# We keep all version constraints as broad as possible for the library release.
-# For the application release, all versions are pinned and tightly controlled.
-# But that is managed within the `poetry.lock` file, not here. See
-# https://iscinumpy.dev/post/app-vs-library/ and
-# https://iscinumpy.dev/post/bound-version-constraints/ for more info.
-click = "*"
-cryptography = "*"
-numba = "*"
-numpy = ">=1.23.0"
-pydicom = "*"
-scikit-image = "*"
-scipy = "*"
-shapely = "*"
-tqdm = "*"
-
-# Using directml plugin on Windows makes install nearly seamless
-tensorflow = { version = "*", markers = "platform_system != \"Windows\"" }
-tensorflow-intel = { version = "*", markers = "platform_system == \"Windows\"" }
-tensorflow-directml-plugin = { version = "*", markers = "platform_system == \"Windows\"" }
-
-# Pin while the model is likely to change significantly from one version to the
-# next, and also pinning while raicontours is utilising development releases.
-raicontours = "0.3.0-dev6"
-
-[tool.poetry.dev-dependencies]
-black = "*"
-blackdoc = "*"
-ipykernel = "*"
-jupyter-book = "*"
-matplotlib = "*"
-mypy = "*"
-pre-commit = "*"
-pylint = "*"
-pyoxidizer = "*"
-pyright = "*"
-pytest = "*"
-pytest-pylint = "*"
-tomlkit = "*"
-
-[tool.poetry.scripts]
-rai = "rai.__main__:cli"
-
-[tool.pyright]
-include = ["rai"]
-exclude = [
-    "**/node_modules",
-    "**/__pycache__",
-]
-typeCheckingMode = "strict"
-
-[tool.isort]
-multi_line_output = 3
-line_length = 88
-include_trailing_comma = true
-force_grid_wrap = 0
-use_parentheses = true
-ensure_newline_before_comments = true
-
-known_second_party = ["raicontours"]
-known_first_party = ["rai"]
-sections = [
-    "FUTURE",
-    "STDLIB",
-    "THIRDPARTY",
-    "SECOND_PARTY",
-    "FIRSTPARTY",
-    "LOCALFOLDER",
-]
-
-[build-system]
-requires = ["poetry-core>=1.0.0"]
-build-backend = "poetry.core.masonry.api"
diff --git a/src/python/rai/rai/BUILD b/src/python/rai/rai/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/rai/rai/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/rai/rai/_cli/BUILD b/src/python/rai/rai/_cli/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/rai/rai/_cli/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/rai/rai/_cli/propagate.py b/src/python/rai/rai/_cli/propagate.py
index bbcff4f8..7b4169f5 100644
--- a/src/python/rai/rai/_cli/propagate.py
+++ b/src/python/rai/rai/_cli/propagate.py
@@ -25,7 +25,7 @@
 import tomlkit
 from typing_extensions import Literal
 
-from rai._paths import RAICONTOURS_REPO_ROOT, REPO_ROOT
+from rai._paths import RAICONTOURS_DIR, REPO_ROOT
 
 PyProjectContents = Dict[
     Literal["tool"], Dict[Literal["poetry"], Dict[Literal["version"], str]]
@@ -41,7 +41,7 @@ def run():
     """Undergo data propagation."""
     _propagate_python_version(REPO_ROOT)
     _propagate_product_version(REPO_ROOT, update_docs=True)
-    _propagate_product_version(RAICONTOURS_REPO_ROOT, update_docs=False)
+    _propagate_product_version(RAICONTOURS_DIR, update_docs=False)
 
 
 def _propagate_python_version(repo_root: pathlib.Path):
diff --git a/src/python/rai/rai/_paths.py b/src/python/rai/rai/_paths.py
index 664c6a29..2225f5e8 100644
--- a/src/python/rai/rai/_paths.py
+++ b/src/python/rai/rai/_paths.py
@@ -18,14 +18,21 @@
 
 import pathlib
 
-HERE = pathlib.Path(__file__)
-REPO_ROOT = pathlib.Path(HERE.parents[4])
-DOCS_DIR = REPO_ROOT / "docs"
-LIBRARY_DIR = pathlib.Path(HERE.parents[1])
-
+HOME = pathlib.Path.home()
 RAI_HOME_DIR = pathlib.Path.home() / ".rai"
 RAI_DATA = RAI_HOME_DIR / "data"
 
-PYTHON_PACKAGES_DIR = pathlib.Path(HERE.parents[2])
-RAICONTOURS_REPO_ROOT = PYTHON_PACKAGES_DIR / "raicontours"
-RAICONTOURS_LIBRARY_DIR = RAICONTOURS_REPO_ROOT / "raicontours"
+# TODO: Need a robust way to get the repo directory when using pants
+
+REPO_ROOT = pathlib.Path("/home/runner/work/OpenSaMD/OpenSaMD")
+
+if not REPO_ROOT.exists():
+    REPO_ROOT = HOME / "git" / "OpenSaMD"
+
+DOCS_DIR = REPO_ROOT / "docs"
+PYTHON_PACKAGES_DIR = REPO_ROOT / "src" / "python"
+
+RAI_DIR = PYTHON_PACKAGES_DIR / "rai"
+RAICONTOURS_DIR = PYTHON_PACKAGES_DIR / "raicontours"
+
+TEST_RECORDS_DIR = REPO_ROOT / "records" / "tests" / "python"
diff --git a/src/python/rai/rai/data/BUILD b/src/python/rai/rai/data/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/rai/rai/data/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/rai/rai/data/download.py b/src/python/rai/rai/data/download.py
index 096ce302..b2610bff 100644
--- a/src/python/rai/rai/data/download.py
+++ b/src/python/rai/rai/data/download.py
@@ -20,7 +20,7 @@
 import pathlib
 import urllib.parse
 import urllib.request
-from typing import List, Union, NamedTuple
+from typing import List, NamedTuple, Union
 
 from rai._paths import RAI_DATA
 
diff --git a/src/python/rai/rai/dicom/BUILD b/src/python/rai/rai/dicom/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/rai/rai/dicom/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/rai/rai/mask/BUILD b/src/python/rai/rai/mask/BUILD
new file mode 100644
index 00000000..0eea8b1c
--- /dev/null
+++ b/src/python/rai/rai/mask/BUILD
@@ -0,0 +1,5 @@
+python_sources()
+
+python_tests(
+    name="tests",
+)
diff --git a/src/python/rai/rai/metrics/BUILD b/src/python/rai/rai/metrics/BUILD
new file mode 100644
index 00000000..0eea8b1c
--- /dev/null
+++ b/src/python/rai/rai/metrics/BUILD
@@ -0,0 +1,5 @@
+python_sources()
+
+python_tests(
+    name="tests",
+)
diff --git a/src/python/rai/rai/vendor/fma/BUILD b/src/python/rai/rai/vendor/fma/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/rai/rai/vendor/fma/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/rai/typings/shapely/geometry/BUILD b/src/python/rai/typings/shapely/geometry/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/rai/typings/shapely/geometry/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/rai/typings/shapely/geometry/polygon.pyi b/src/python/rai/typings/shapely/geometry/polygon.pyi
index adfa4200..545ce97d 100644
--- a/src/python/rai/typings/shapely/geometry/polygon.pyi
+++ b/src/python/rai/typings/shapely/geometry/polygon.pyi
@@ -1,6 +1,7 @@
-from numpy.typing import NDArray
 from typing import Any, Optional, Union
 
+from numpy.typing import NDArray
+
 from .base import BaseGeometry
 
 class Polygon(BaseGeometry):
diff --git a/src/python/rai/typings/skimage/draw/BUILD b/src/python/rai/typings/skimage/draw/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/rai/typings/skimage/draw/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/rai/typings/skimage/measure/BUILD b/src/python/rai/typings/skimage/measure/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/rai/typings/skimage/measure/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/raicontours b/src/python/raicontours
deleted file mode 160000
index 0e9564b8..00000000
--- a/src/python/raicontours
+++ /dev/null
@@ -1,1 +0,0 @@
-Subproject commit 0e9564b84605b978bc5017a16f640b4736582cff
diff --git a/src/python/raicontours/README.md b/src/python/raicontours/README.md
new file mode 100644
index 00000000..eac31c9c
--- /dev/null
+++ b/src/python/raicontours/README.md
@@ -0,0 +1,1 @@
+# raicontours
diff --git a/src/python/raicontours/raicontours/BUILD b/src/python/raicontours/raicontours/BUILD
new file mode 100644
index 00000000..db46e8d6
--- /dev/null
+++ b/src/python/raicontours/raicontours/BUILD
@@ -0,0 +1,1 @@
+python_sources()
diff --git a/src/python/raicontours/raicontours/__init__.py b/src/python/raicontours/raicontours/__init__.py
new file mode 100644
index 00000000..df53c632
--- /dev/null
+++ b/src/python/raicontours/raicontours/__init__.py
@@ -0,0 +1,289 @@
+# RAi, machine learning solutions in radiotherapy
+# Copyright (C) 2021-2022 Radiotherapy AI Holdings Pty Ltd
+
+# This program is free software: you can redistribute it and/or modify
+# it under the terms of the GNU Affero General Public License as
+# published by the Free Software Foundation, either version 3 of the
+# License, or (at your option) any later version.
+
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU Affero General Public License for more details.
+
+# You should have received a copy of the GNU Affero General Public License
+# along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+# pylint: disable = invalid-name, useless-import-alias
+
+"""RAiContours model package"""
+
+from __future__ import annotations
+
+import json
+import pathlib
+from enum import Enum
+from functools import lru_cache
+from typing import Set, Tuple, Union
+
+import pydicom
+from typing_extensions import TypedDict
+
+from ._version import __version__ as __version__
+from ._version import version_info as version_info
+from .tg263 import TG263 as TG263
+
+_HERE = pathlib.Path(__file__).parent.resolve()
+_model_path = _HERE / "model.h5"
+
+
+StructureName = Union[str, TG263]
+
+
+class UtilisationRecord(str, Enum):
+    """Representation of dataset training or validation"""
+
+    Training = "training"
+    Validation = "validation"
+    NotUsed = "not-used"
+
+
+def dicom_utilisation(ds: pydicom.Dataset):
+    """Determine the utilisation status of a given pydicom dataset"""
+
+    training, validation = _training_record()
+
+    study_uid = ds.StudyInstanceUID
+
+    if study_uid in training:
+        return UtilisationRecord.Training
+
+    if study_uid in validation:
+        return UtilisationRecord.Validation
+
+    return UtilisationRecord.NotUsed
+
+
+@lru_cache(maxsize=None)
+def _training_record() -> Tuple[Set[str], Set[str]]:
+    with open(_HERE / "training_record.json", encoding="utf8") as f:
+        data = json.load(f)
+
+    training: Set[str] = set(data["training"])
+    validation: Set[str] = set(data["validation"])
+
+    return training, validation
+
+
+# class ContourOptions(TypedDict, total=False):
+#     from_mask: TG263
+#     mask_level: float
+#     union: list[StructureName]
+#     difference: list[StructureName]
+#     intersection: list[StructureName]
+#     # buffer: float
+#     colour: str
+#     display: bool
+
+
+class Config(TypedDict):
+    """The model configuration"""
+
+    model_path: pathlib.Path
+    structures: list[StructureName]
+    patch_dimensions: tuple[int, int, int]
+    encoding_filter_counts: list[int]
+    decoding_filter_counts: list[int]
+    rescale_slope: float
+    rescale_intercept: float
+    reduce_block_sizes: list[tuple[int, int, int]]
+    reduce_algorithms: list[str]
+    mask_level: float
+    mask_level_overrides: dict[StructureName, float]
+    # contours: dict[StructureName, ContourOptions]
+
+
+def get_config():
+    """Get the raicontours configuration"""
+
+    # By (re)creating cfg within a function, separate cfg instances are
+    # protected from mutating each other.
+    cfg: Config = {
+        "model_path": _model_path,
+        # "structures": [
+        #     TG263.Heart,
+        #     TG263.Liver,
+        # ],
+        "structures": [
+            TG263.Eye_L,
+            TG263.Eye_R,
+            TG263.Glnd_Lacrimal_L,
+            TG263.Glnd_Lacrimal_R,
+            TG263.Lens_L,
+            TG263.Lens_R,
+            TG263.OpticChiasm,
+            TG263.OpticNrv_L,
+            TG263.OpticNrv_R,
+        ],
+        # "structures": [
+        #     TG263.Bladder,
+        #     TG263.Bone_Mandible,
+        #     TG263.Brain,
+        #     TG263.Brainstem,
+        #     TG263.Carina,
+        #     TG263.Cavity_Oral,
+        #     TG263.Cochlea_L,
+        #     TG263.Cochlea_R,
+        #     TG263.Duodenum,
+        #     TG263.Esophagus,
+        #     TG263.Eye_L,
+        #     TG263.Eye_R,
+        #     TG263.Glnd_Adrenal_L,
+        #     TG263.Glnd_Adrenal_R,
+        #     TG263.Glnd_Lacrimal_L,
+        #     TG263.Glnd_Lacrimal_R,
+        #     TG263.Glnd_Submand_L,
+        #     TG263.Glnd_Submand_R,
+        #     TG263.Heart,
+        #     TG263.Kidney_L,
+        #     TG263.Kidney_R,
+        #     TG263.Larynx,
+        #     TG263.Lens_L,
+        #     TG263.Lens_R,
+        #     TG263.Liver,
+        #     TG263.Lung_L,
+        #     TG263.Lung_R,
+        #     TG263.Musc_Constrict,
+        #     TG263.OpticChiasm,
+        #     TG263.OpticNrv_L,
+        #     TG263.OpticNrv_R,
+        #     TG263.Pancreas,
+        #     TG263.Parotid_L,
+        #     TG263.Parotid_R,
+        #     TG263.Rectum,
+        #     TG263.SpinalCanal,
+        #     TG263.SpinalCord,
+        #     TG263.Spleen,
+        #     TG263.Stomach,
+        #     TG263.Trachea,
+        # ],
+        "patch_dimensions": (64, 64, 64),
+        "encoding_filter_counts": [32, 64, 128, 256],
+        "decoding_filter_counts": [128, 64, 32, 16],
+        "rescale_slope": 4000.0,
+        "rescale_intercept": -1024.0,
+        "reduce_block_sizes": [(2, 4, 4), (1, 2, 2), (1, 1, 1)],
+        "reduce_algorithms": ["min", "mean", "median", "max"],
+        "mask_level": 127.5,
+        "mask_level_overrides": {
+            # TG263.Lens_L: 50,
+            # TG263.Lens_R: 50,
+            # TG263.OpticChiasm: 50,
+            # TG263.OpticNrv_L: 50,
+            # TG263.OpticNrv_R: 50,
+            # TG263.Eye_L: 100,
+            # TG263.Eye_R: 100,
+            # TG263.Glnd_Lacrimal_L: 50,
+            # TG263.Glnd_Lacrimal_R: 50,
+            # TG263.Glnd_Submand_L: 100,
+            # TG263.Glnd_Submand_R: 100,
+            # TG263.Musc_Constrict: 1.5,
+            # TG263.Trachea: 80,
+            # TG263.Esophagus: 80,
+            # TG263.Cochlea_L: 50,
+            # TG263.Cochlea_R: 50,
+            # TG263.Larynx: 50,
+            # TG263.Parotid_L: 70,
+            # TG263.Parotid_R: 70,
+            # TG263.Bone_Mandible: 110,
+            # TG263.Cavity_Oral: 80,
+            # TG263.Brainstem: 127.5,
+        },
+    }
+
+    return cfg
+
+
+def get_mask_level(cfg: Config, structure_name: StructureName):
+    """Determine the configuration mask level for a given structure.
+
+    This defaults to cfg['mask_level'] while taking into account the
+    individual structure overrides within cfg['mask_level_overrides'].
+    """
+
+    try:
+        mask_level = cfg["mask_level_overrides"][structure_name]
+    except KeyError:
+        mask_level = cfg["mask_level"]
+
+    return mask_level
+
+
+# The below is a mock up of what integrated config inheritance might
+# look like. The below approaches have not yet been implemented.
+
+# "contours": {
+#     TG263.Lens_L: {
+#         "from_mask": TG263.Lens_L,
+#         "mask_level": 50,
+#         "colour": "aqua blue",
+#     },
+#     TG263.Lens_R: {
+#         "from_mask": TG263.Lens_R,
+#         "mask_level": 50,
+#         "colour": "aqua green",
+#     },
+#     TG263.OpticNrv_L: {
+#         "from_mask": TG263.OpticNrv_L,
+#         "mask_level": 127.5,
+#         "colour": "deep red",
+#     },
+#     TG263.OpticNrv_R: {
+#         "from_mask": TG263.OpticNrv_R,
+#         "mask_level": 127.5,
+#         "colour": "orange red",
+#     },
+#     f"{TG263.OpticNrv_L.value} Generous": {
+#         "from_mask": TG263.OpticNrv_L,
+#         "mask_level": 50,
+#         "colour": "#2c6fbb",
+#     },
+#     f"{TG263.OpticNrv_R.value} Generous": {
+#         "from_mask": TG263.OpticNrv_R,
+#         "mask_level": 50,
+#         "colour": "#39ad48",
+#     },
+#     TG263.Eye_L: {"from_mask": TG263.Eye_L, "mask_level": 100},
+#     TG263.Eye_R: {"from_mask": TG263.Eye_R, "mask_level": 100},
+#     TG263.Glnd_Lacrimal_L: {
+#         "from_mask": TG263.Glnd_Lacrimal_L,
+#         "mask_level": 100,
+#     },
+#     TG263.Glnd_Lacrimal_R: {
+#         "from_mask": TG263.Glnd_Lacrimal_R,
+#         "mask_level": 100,
+#     },
+#     TG263.Eyes: {
+#         "union": [TG263.Eye_L, TG263.Eye_R],
+#     },
+#     # "Eyes + 3mm": {
+#     #     "union": [TG263.Eyes],
+#     #     "buffer": 3,
+#     # },
+#     # "Eyes - 3mm": {
+#     #     "union": [TG263.Eyes],
+#     #     "buffer": -3,
+#     # },
+#     # TG263.Lens: {
+#     #     "union": [TG263.Lens_L, TG263.Lens_R],
+#     #     "display": False,
+#     # },
+#     # "Lens + 3mm": {
+#     #     "union": [TG263.Lens],
+#     #     "buffer": 3,
+#     # },
+#     "Eyes - Lens": {
+#         "union": [TG263.Eyes],
+#         "difference": [TG263.Lens_L, TG263.Lens_R],
+#         "display": False,
+#     },
diff --git a/src/python/raicontours/raicontours/_version.py b/src/python/raicontours/raicontours/_version.py
new file mode 100644
index 00000000..3efada05
--- /dev/null
+++ b/src/python/raicontours/raicontours/_version.py
@@ -0,0 +1,7 @@
+# DO NOT EDIT THIS FILE!
+# This file has been autogenerated by `rai propagate`
+
+"""Package version information"""
+
+version_info = [0, 3, 0, "dev7"]
+__version__ = "0.3.0-dev7"
diff --git a/3rdparty/python/.gitkeep b/src/python/raicontours/raicontours/py.typed
similarity index 100%
rename from 3rdparty/python/.gitkeep
rename to src/python/raicontours/raicontours/py.typed
diff --git a/src/python/raicontours/raicontours/tg263.py b/src/python/raicontours/raicontours/tg263.py
new file mode 100644
index 00000000..b5103ea9
--- /dev/null
+++ b/src/python/raicontours/raicontours/tg263.py
@@ -0,0 +1,747 @@
+# RAi, machine learning solutions in radiotherapy
+# Copyright (C) 2021-2022 Radiotherapy AI Holdings Pty Ltd
+
+# This program is free software: you can redistribute it and/or modify
+# it under the terms of the GNU Affero General Public License as
+# published by the Free Software Foundation, either version 3 of the
+# License, or (at your option) any later version.
+
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU Affero General Public License for more details.
+
+# You should have received a copy of the GNU Affero General Public License
+# along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+"""Implementation of TG263 naming"""
+
+# pylint: disable = invalid-name,
+
+from enum import Enum
+
+
+class TG263(str, Enum):
+    """TG263 naming.
+
+    Based on the spreadsheet downloadable from
+    https://www.aapm.org/pubs/reports/rpt_263_supplemental/TG263_Nomenclature_Worksheet_20170815.xls
+    """
+
+    A_Aorta = "A_Aorta"
+    A_Aorta_Asc = "A_Aorta_Asc"
+    A_Brachiocephls = "A_Brachiocephls"
+    A_Carotid = "A_Carotid"
+    A_Carotid_L = "A_Carotid_L"
+    A_Carotid_R = "A_Carotid_R"
+    A_Celiac = "A_Celiac"
+    A_Coronary = "A_Coronary"
+    A_Coronary_L = "A_Coronary_L"
+    A_Coronary_R = "A_Coronary_R"
+    A_Femoral_Cflx_L = "A_Femoral_Cflx_L"
+    A_Femoral_Cflx_R = "A_Femoral_Cflx_R"
+    A_Femoral_L = "A_Femoral_L"
+    A_Femoral_R = "A_Femoral_R"
+    A_Humeral_Cflx_L = "A_Humeral_Cflx_L"
+    A_Humeral_Cflx_R = "A_Humeral_Cflx_R"
+    A_Humeral_L = "A_Humeral_L"
+    A_Humeral_R = "A_Humeral_R"
+    A_Hypophyseal_I = "A_Hypophyseal_I"
+    A_Hypophyseal_S = "A_Hypophyseal_S"
+    A_Iliac_Cflx_L = "A_Iliac_Cflx_L"
+    A_Iliac_Cflx_R = "A_Iliac_Cflx_R"
+    A_Iliac_Ext_L = "A_Iliac_Ext_L"
+    A_Iliac_Ext_R = "A_Iliac_Ext_R"
+    A_Iliac_Int_L = "A_Iliac_Int_L"
+    A_Iliac_Int_R = "A_Iliac_Int_R"
+    A_Iliac_L = "A_Iliac_L"
+    A_Iliac_R = "A_Iliac_R"
+    A_LAD = "A_LAD"
+    A_Mesenteric_I = "A_Mesenteric_I"
+    A_Mesenteric_S = "A_Mesenteric_S"
+    A_Pulmonary = "A_Pulmonary"
+    A_Subclavian = "A_Subclavian"
+    A_Subclavian_L = "A_Subclavian_L"
+    A_Subclavian_R = "A_Subclavian_R"
+    A_Vertebral = "A_Vertebral"
+    A_Vertebral_L = "A_Vertebral_L"
+    A_Vertebral_R = "A_Vertebral_R"
+    Acetabulum_L = "Acetabulum_L"
+    Acetabulum_R = "Acetabulum_R"
+    Acetabulums = "Acetabulums"
+    AirWay_Dist = "AirWay_Dist"
+    AirWay_Prox = "AirWay_Prox"
+    Anus = "Anus"
+    Appendix = "Appendix"
+    Arytenoid = "Arytenoid"
+    Arytenoid_L = "Arytenoid_L"
+    Arytenoid_R = "Arytenoid_R"
+    Atrium = "Atrium"
+    Atrium_L = "Atrium_L"
+    Atrium_R = "Atrium_R"
+    Bag_Bowel = "Bag_Bowel"
+    Bag_Ostomy = "Bag_Ostomy"
+    BileDuct_Common = "BileDuct_Common"
+    Bladder = "Bladder"
+    Bladder_Wall = "Bladder_Wall"
+    Bladder_CTV = "Bladder-CTV"
+    Body = "Body"
+    Body_PTV = "Body-PTV"
+    Bolus = "Bolus"
+    Bolus_xxmm = "Bolus_xxmm"
+    Bone = "Bone"
+    Bone_Ethmoid = "Bone_Ethmoid"
+    Bone_Frontal = "Bone_Frontal"
+    Bone_Hyoid = "Bone_Hyoid"
+    Bone_Ilium = "Bone_Ilium"
+    Bone_Ilium_L = "Bone_Ilium_L"
+    Bone_Ilium_R = "Bone_Ilium_R"
+    Bone_Incus = "Bone_Incus"
+    Bone_Incus_L = "Bone_Incus_L"
+    Bone_Incus_R = "Bone_Incus_R"
+    Bone_Ischium_L = "Bone_Ischium_L"
+    Bone_Ischium_R = "Bone_Ischium_R"
+    Bone_Lacrimal = "Bone_Lacrimal"
+    Bone_Lacrimal_L = "Bone_Lacrimal_L"
+    Bone_Lacrimal_R = "Bone_Lacrimal_R"
+    Bone_Mandible = "Bone_Mandible"
+    Bone_Mastoid = "Bone_Mastoid"
+    Bone_Mastoid_L = "Bone_Mastoid_L"
+    Bone_Mastoid_R = "Bone_Mastoid_R"
+    Bone_Nasal = "Bone_Nasal"
+    Bone_Nasal_L = "Bone_Nasal_L"
+    Bone_Nasal_R = "Bone_Nasal_R"
+    Bone_Occipital = "Bone_Occipital"
+    Bone_Palatine = "Bone_Palatine"
+    Bone_Palatine_L = "Bone_Palatine_L"
+    Bone_Palatine_R = "Bone_Palatine_R"
+    Bone_Parietal = "Bone_Parietal"
+    Bone_Parietal_L = "Bone_Parietal_L"
+    Bone_Parietal_R = "Bone_Parietal_R"
+    Bone_Pelvic = "Bone_Pelvic"
+    Bone_Pelvic_L = "Bone_Pelvic_L"
+    Bone_Pelvic_R = "Bone_Pelvic_R"
+    Bone_Sphenoid = "Bone_Sphenoid"
+    Bone_Temporal = "Bone_Temporal"
+    Bone_Temporal_L = "Bone_Temporal_L"
+    Bone_Temporal_R = "Bone_Temporal_R"
+    Bone_Zygomatic_L = "Bone_Zygomatic_L"
+    Bone_Zygomatic_R = "Bone_Zygomatic_R"
+    Bone_Zygomatics = "Bone_Zygomatics"
+    BoneMarrow = "BoneMarrow"
+    BoneMarrow_Act = "BoneMarrow_Act"
+    Boost = "Boost"
+    Bowel = "Bowel"
+    Bowel_Large = "Bowel_Large"
+    Bowel_Small = "Bowel_Small"
+    BrachialPlex_L = "BrachialPlex_L"
+    BrachialPlex_R = "BrachialPlex_R"
+    BrachialPlexs = "BrachialPlexs"
+    Brain = "Brain"
+    Brain_CTV = "Brain-CTV"
+    Brain_GTV = "Brain-GTV"
+    Brain_PTV = "Brain-PTV"
+    Brainstem = "Brainstem"
+    Brainstem_Core = "Brainstem_Core"
+    Brainstem_PRV = "Brainstem_PRV"
+    Brainstem_PRVxx = "Brainstem_PRVxx"
+    Brainstem_Surf = "Brainstem_Surf"
+    Breast_L = "Breast_L"
+    Breast_R = "Breast_R"
+    Breasts = "Breasts"
+    Bronchus = "Bronchus"
+    Bronchus_L = "Bronchus_L"
+    Bronchus_Main = "Bronchus_Main"
+    Bronchus_Main_L = "Bronchus_Main_L"
+    Bronchus_Main_R = "Bronchus_Main_R"
+    Bronchus_PRVxx = "Bronchus_PRVxx"
+    Bronchus_R = "Bronchus_R"
+    Canal_Anal = "Canal_Anal"
+    Carina = "Carina"
+    Cartlg_Thyroid = "Cartlg_Thyroid"
+    CaudaEquina = "CaudaEquina"
+    Cavernosum = "Cavernosum"
+    Cavity_Nasal = "Cavity_Nasal"
+    Cavity_Oral = "Cavity_Oral"
+    Cecum = "Cecum"
+    Cerebellum = "Cerebellum"
+    Cerebrum = "Cerebrum"
+    Cerebrum_L = "Cerebrum_L"
+    Cerebrum_R = "Cerebrum_R"
+    Cervix = "Cervix"
+    Chestwall = "Chestwall"
+    Chestwall_L = "Chestwall_L"
+    Chestwall_R = "Chestwall_R"
+    Cist_Pontine = "Cist_Pontine"
+    Cist_Suprasellar = "Cist_Suprasellar"
+    Clavicle_L = "Clavicle_L"
+    Clavicle_R = "Clavicle_R"
+    CN_III = "CN_III"
+    CN_III_L = "CN_III_L"
+    CN_III_R = "CN_III_R"
+    CN_IX = "CN_IX"
+    CN_IX_L = "CN_IX_L"
+    CN_IX_R = "CN_IX_R"
+    CN_V = "CN_V"
+    CN_V_L = "CN_V_L"
+    CN_V_R = "CN_V_R"
+    CN_VI = "CN_VI"
+    CN_VI_L = "CN_VI_L"
+    CN_VI_R = "CN_VI_R"
+    CN_VII = "CN_VII"
+    CN_VII_L = "CN_VII_L"
+    CN_VII_R = "CN_VII_R"
+    CN_VIII = "CN_VIII"
+    CN_VIII_L = "CN_VIII_L"
+    CN_VIII_R = "CN_VIII_R"
+    CN_XI = "CN_XI"
+    CN_XI_L = "CN_XI_L"
+    CN_XI_R = "CN_XI_R"
+    CN_XII = "CN_XII"
+    CN_XII_L = "CN_XII_L"
+    CN_XII_R = "CN_XII_R"
+    Cochlea = "Cochlea"
+    Cochlea_L = "Cochlea_L"
+    Cochlea_R = "Cochlea_R"
+    Colon = "Colon"
+    Colon_Ascending = "Colon_Ascending"
+    Colon_Decending = "Colon_Decending"
+    Colon_PTVxx = "Colon_PTVxx"
+    Colon_Sigmoid = "Colon_Sigmoid"
+    Colon_Transverse = "Colon_Transverse"
+    Cornea = "Cornea"
+    Cornea_L = "Cornea_L"
+    Cornea_R = "Cornea_R"
+    CribriformPlate = "CribriformPlate"
+    Cricoid = "Cricoid"
+    Cricopharyngeus = "Cricopharyngeus"
+    CTV = "CTV"
+    Dens = "Dens"
+    Diaphragm = "Diaphragm"
+    Duodenum = "Duodenum"
+    Ear_External_L = "Ear_External_L"
+    Ear_External_R = "Ear_External_R"
+    Ear_Externals = "Ear_Externals"
+    Ear_Internal_L = "Ear_Internal_L"
+    Ear_Internal_R = "Ear_Internal_R"
+    Ear_Internals = "Ear_Internals"
+    Ear_Middle = "Ear_Middle"
+    Ear_Middle_L = "Ear_Middle_L"
+    Ear_Middle_R = "Ear_Middle_R"
+    Edema = "Edema"
+    Elbow = "Elbow"
+    Elbow_L = "Elbow_L"
+    Elbow_R = "Elbow_R"
+    E_PTV_Ev05_xxxx = "E-PTV_Ev05_xxxx"
+    E_PTV_xxxx = "E-PTV_xxxx"
+    Esophagus = "Esophagus"
+    Esophagus_I = "Esophagus_I"
+    Esophagus_M = "Esophagus_M"
+    Esophagus_NAdj = "Esophagus_NAdj"
+    Esophagus_S = "Esophagus_S"
+    Eval = "Eval"
+    External = "External"
+    Eye_L = "Eye_L"
+    Eye_R = "Eye_R"
+    Eyes = "Eyes"
+    Femur_Base_L = "Femur_Base_L"
+    Femur_Base_R = "Femur_Base_R"
+    Femur_Head_L = "Femur_Head_L"
+    Femur_Head_R = "Femur_Head_R"
+    Femur_Joint_L = "Femur_Joint_L"
+    Femur_Joint_R = "Femur_Joint_R"
+    Femur_L = "Femur_L"
+    Femur_Neck_L = "Femur_Neck_L"
+    Femur_Neck_R = "Femur_Neck_R"
+    Femur_R = "Femur_R"
+    Femur_Shaft_L = "Femur_Shaft_L"
+    Femur_Shaft_R = "Femur_Shaft_R"
+    Femurs = "Femurs"
+    Fibula = "Fibula"
+    Fibula_L = "Fibula_L"
+    Fibula_R = "Fibula_R"
+    Foley = "Foley"
+    Fossa_Jugular = "Fossa_Jugular"
+    Fossa_Posterior = "Fossa_Posterior"
+    Gallbladder = "Gallbladder"
+    Genitals = "Genitals"
+    Glnd_Adrenal_L = "Glnd_Adrenal_L"
+    Glnd_Adrenal_R = "Glnd_Adrenal_R"
+    Glnd_Lacrimal = "Glnd_Lacrimal"
+    Glnd_Lacrimal_L = "Glnd_Lacrimal_L"
+    Glnd_Lacrimal_R = "Glnd_Lacrimal_R"
+    Glnd_Parathyroid = "Glnd_Parathyroid"
+    Glnd_Subling_L = "Glnd_Subling_L"
+    Glnd_Subling_R = "Glnd_Subling_R"
+    Glnd_Sublings = "Glnd_Sublings"
+    Glnd_Submand_L = "Glnd_Submand_L"
+    Glnd_Submand_R = "Glnd_Submand_R"
+    Glnd_Submands = "Glnd_Submands"
+    Glnd_Thymus = "Glnd_Thymus"
+    Glnd_Thyroid = "Glnd_Thyroid"
+    Glottis = "Glottis"
+    GreatVes = "GreatVes"
+    GreatVes_NAdj = "GreatVes_NAdj"
+    GrowthPlate_L = "GrowthPlate_L"
+    GrowthPlate_R = "GrowthPlate_R"
+    GTV = "GTV"
+    Hardpalate = "Hardpalate"
+    Heart = "Heart"
+    Hemisphere_L = "Hemisphere_L"
+    Hemisphere_R = "Hemisphere_R"
+    Hemispheres = "Hemispheres"
+    Hippocampi = "Hippocampi"
+    Hippocampus_L = "Hippocampus_L"
+    Hippocampus_R = "Hippocampus_R"
+    Humerus_L = "Humerus_L"
+    Humerus_R = "Humerus_R"
+    Hypothalmus = "Hypothalmus"
+    Hypothalmus_PRV = "Hypothalmus_PRV"
+    Hypothalmus_PRVx = "Hypothalmus_PRVx"
+    IDL = "IDL"
+    Ileum = "Ileum"
+    ITV = "ITV"
+    Jejunum = "Jejunum"
+    Jejunum_Ileum = "Jejunum_Ileum"
+    Joint_Elbow = "Joint_Elbow"
+    Joint_Elbow_L = "Joint_Elbow_L"
+    Joint_Elbow_R = "Joint_Elbow_R"
+    Joint_Glenohum = "Joint_Glenohum"
+    Joint_Glenohum_L = "Joint_Glenohum_L"
+    Joint_Glenohum_R = "Joint_Glenohum_R"
+    Joint_Surface = "Joint_Surface"
+    Joint_TM = "Joint_TM"
+    Joint_TM_L = "Joint_TM_L"
+    Joint_TM_R = "Joint_TM_R"
+    Kidney_Cortex = "Kidney_Cortex"
+    Kidney_Cortex_L = "Kidney_Cortex_L"
+    Kidney_Cortex_R = "Kidney_Cortex_R"
+    Kidney_Hilum_L = "Kidney_Hilum_L"
+    Kidney_Hilum_R = "Kidney_Hilum_R"
+    Kidney_Hilums = "Kidney_Hilums"
+    Kidney_L = "Kidney_L"
+    Kidney_L_GTV = "Kidney_L-GTV"
+    Kidney_Pelvis_L = "Kidney_Pelvis_L"
+    Kidney_Pelvis_R = "Kidney_Pelvis_R"
+    Kidney_R = "Kidney_R"
+    Kidney_R_GTV = "Kidney_R-GTV"
+    Kidney_GTV = "Kidney-GTV"
+    Kidneys = "Kidneys"
+    Knee = "Knee"
+    Knee_L = "Knee_L"
+    Knee_R = "Knee_R"
+    Laryngl_Pharynx = "Laryngl_Pharynx"
+    Larynx = "Larynx"
+    Larynx_SG = "Larynx_SG"
+    Leads = "Leads"
+    Lens = "Lens"
+    Lens_L = "Lens_L"
+    Lens_R = "Lens_R"
+    Lig_Hepatogastrc = "Lig_Hepatogastrc"
+    Lips = "Lips"
+    Liver = "Liver"
+    Liver_CTV = "Liver-CTV"
+    Liver_GTV = "Liver-GTV"
+    LN = "LN"
+    LN_Ax_Apical = "LN_Ax_Apical"
+    LN_Ax_Apical_L = "LN_Ax_Apical_L"
+    LN_Ax_Apical_R = "LN_Ax_Apical_R"
+    LN_Ax_Central_L = "LN_Ax_Central_L"
+    LN_Ax_Central_R = "LN_Ax_Central_R"
+    LN_Ax_Centrals = "LN_Ax_Centrals"
+    LN_Ax_L = "LN_Ax_L"
+    LN_Ax_L1_L = "LN_Ax_L1_L"
+    LN_Ax_L1_R = "LN_Ax_L1_R"
+    LN_Ax_L2_L = "LN_Ax_L2_L"
+    LN_Ax_L2_R = "LN_Ax_L2_R"
+    LN_Ax_L3_L = "LN_Ax_L3_L"
+    LN_Ax_L3_R = "LN_Ax_L3_R"
+    LN_Ax_Lateral_L = "LN_Ax_Lateral_L"
+    LN_Ax_Lateral_R = "LN_Ax_Lateral_R"
+    LN_Ax_Laterals = "LN_Ax_Laterals"
+    LN_Ax_Pectoral_L = "LN_Ax_Pectoral_L"
+    LN_Ax_Pectoral_R = "LN_Ax_Pectoral_R"
+    LN_Ax_Pectorals = "LN_Ax_Pectorals"
+    LN_Ax_R = "LN_Ax_R"
+    LN_Ax_Subscap_L = "LN_Ax_Subscap_L"
+    LN_Ax_Subscap_R = "LN_Ax_Subscap_R"
+    LN_Ax_Subscaps = "LN_Ax_Subscaps"
+    LN_Brachioceph_L = "LN_Brachioceph_L"
+    LN_Brachioceph_R = "LN_Brachioceph_R"
+    LN_Brachiocephs = "LN_Brachiocephs"
+    LN_Bronchpulm_L = "LN_Bronchpulm_L"
+    LN_Bronchpulm_R = "LN_Bronchpulm_R"
+    LN_Bronchpulms = "LN_Bronchpulms"
+    LN_Diaphragmatic = "LN_Diaphragmatic"
+    LN_Iliac_Ext_L = "LN_Iliac_Ext_L"
+    LN_Iliac_Ext_R = "LN_Iliac_Ext_R"
+    LN_Iliac_Int_L = "LN_Iliac_Int_L"
+    LN_Iliac_L = "LN_Iliac_L"
+    LN_Iliac_R = "LN_Iliac_R"
+    LN_IMN_L = "LN_IMN_L"
+    LN_IMN_R = "LN_IMN_R"
+    LN_IMNs = "LN_IMNs"
+    LN_Inguinofem = "LN_Inguinofem"
+    LN_Inguinofem_L = "LN_Inguinofem_L"
+    LN_Inguinofem_R = "LN_Inguinofem_R"
+    LN_Intercostals = "LN_Intercostals"
+    LN_L = "LN_L"
+    LN_Ligamentarter = "LN_Ligamentarter"
+    LN_lliac_Int_R = "LN_lliac_Int_R"
+    LN_Mediastinals = "LN_Mediastinals"
+    LN_Neck_IA_L = "LN_Neck_IA_L"
+    LN_Neck_IA_R = "LN_Neck_IA_R"
+    LN_Neck_IB_L = "LN_Neck_IB_L"
+    LN_Neck_IB_R = "LN_Neck_IB_R"
+    LN_Neck_II_L = "LN_Neck_II_L"
+    LN_Neck_II_R = "LN_Neck_II_R"
+    LN_Neck_IIA_L = "LN_Neck_IIA_L"
+    LN_Neck_IIA_R = "LN_Neck_IIA_R"
+    LN_Neck_IIB_L = "LN_Neck_IIB_L"
+    LN_Neck_IIB_R = "LN_Neck_IIB_R"
+    LN_Neck_III_L = "LN_Neck_III_L"
+    LN_Neck_III_R = "LN_Neck_III_R"
+    LN_Neck_IV_L = "LN_Neck_IV_L"
+    LN_Neck_IV_R = "LN_Neck_IV_R"
+    LN_Neck_V_L = "LN_Neck_V_L"
+    LN_Neck_V_R = "LN_Neck_V_R"
+    LN_Neck_VA_L = "LN_Neck_VA_L"
+    LN_Neck_VA_R = "LN_Neck_VA_R"
+    LN_Neck_VB_L = "LN_Neck_VB_L"
+    LN_Neck_VB_R = "LN_Neck_VB_R"
+    LN_Neck_VC_L = "LN_Neck_VC_L"
+    LN_Neck_VC_R = "LN_Neck_VC_R"
+    LN_Neck_VI_L = "LN_Neck_VI_L"
+    LN_Neck_VI_R = "LN_Neck_VI_R"
+    LN_Neck_VII_L = "LN_Neck_VII_L"
+    LN_Neck_VII_R = "LN_Neck_VII_R"
+    LN_Obturator_L = "LN_Obturator_L"
+    LN_Obturator_R = "LN_Obturator_R"
+    LN_Paraaortic = "LN_Paraaortic"
+    LN_Paramammary_L = "LN_Paramammary_L"
+    LN_Paramammary_R = "LN_Paramammary_R"
+    LN_Paramammarys = "LN_Paramammarys"
+    LN_Parasternal_L = "LN_Parasternal_L"
+    LN_Parasternal_R = "LN_Parasternal_R"
+    LN_Parasternals = "LN_Parasternals"
+    LN_Pelvic_L = "LN_Pelvic_L"
+    LN_Pelvic_R = "LN_Pelvic_R"
+    LN_Pelvics = "LN_Pelvics"
+    LN_Portahepatis = "LN_Portahepatis"
+    LN_Presacral_L = "LN_Presacral_L"
+    LN_Presacral_R = "LN_Presacral_R"
+    LN_Pulmonary_L = "LN_Pulmonary_L"
+    LN_Pulmonary_R = "LN_Pulmonary_R"
+    LN_Pulmonarys = "LN_Pulmonarys"
+    LN_R = "LN_R"
+    LN_Sclav_L = "LN_Sclav_L"
+    LN_Sclav_R = "LN_Sclav_R"
+    LN_Supmammary_L = "LN_Supmammary_L"
+    LN_Supmammary_R = "LN_Supmammary_R"
+    LN_Supmammarys = "LN_Supmammarys"
+    LN_Trachbrnchs = "LN_Trachbrnchs"
+    LN_Trachbrnchs_L = "LN_Trachbrnchs_L"
+    LN_Trachbrnchs_R = "LN_Trachbrnchs_R"
+    Lobe_Frontal = "Lobe_Frontal"
+    Lobe_Frontal_L = "Lobe_Frontal_L"
+    Lobe_Frontal_R = "Lobe_Frontal_R"
+    Lobe_Occipital = "Lobe_Occipital"
+    Lobe_Occipital_L = "Lobe_Occipital_L"
+    Lobe_Occipital_R = "Lobe_Occipital_R"
+    Lobe_Parietal = "Lobe_Parietal"
+    Lobe_Parietal_L = "Lobe_Parietal_L"
+    Lobe_Parietal_R = "Lobe_Parietal_R"
+    Lobe_Temporal = "Lobe_Temporal"
+    Lobe_Temporal_L = "Lobe_Temporal_L"
+    Lobe_Temporal_R = "Lobe_Temporal_R"
+    Lung_L = "Lung_L"
+    Lung_LLL = "Lung_LLL"
+    Lung_LUL = "Lung_LUL"
+    Lung_R = "Lung_R"
+    Lung_RLL = "Lung_RLL"
+    Lung_RML = "Lung_RML"
+    Lung_RUL = "Lung_RUL"
+    Lungs = "Lungs"
+    Lungs_CTV = "Lungs-CTV"
+    Lungs_GTV = "Lungs-GTV"
+    Lungs_ITV = "Lungs-ITV"
+    Lungs_PTV = "Lungs-PTV"
+    Malleus = "Malleus"
+    Malleus_L = "Malleus_L"
+    Malleus_R = "Malleus_R"
+    Markers = "Markers"
+    Maxilla = "Maxilla"
+    Maxilla_L = "Maxilla_L"
+    Maxilla_R = "Maxilla_R"
+    Mediastinum = "Mediastinum"
+    Musc = "Musc"
+    Musc_Constrict = "Musc_Constrict"
+    Musc_Constrict_I = "Musc_Constrict_I"
+    Musc_Constrict_M = "Musc_Constrict_M"
+    Musc_Constrict_S = "Musc_Constrict_S"
+    Musc_Digastric_L = "Musc_Digastric_L"
+    Musc_Digastric_R = "Musc_Digastric_R"
+    Musc_Masseter = "Musc_Masseter"
+    Musc_Masseter_L = "Musc_Masseter_L"
+    Musc_Masseter_R = "Musc_Masseter_R"
+    Musc_Platysma_L = "Musc_Platysma_L"
+    Musc_Platysma_R = "Musc_Platysma_R"
+    Musc_Pterygoid_L = "Musc_Pterygoid_L"
+    Musc_Pterygoid_R = "Musc_Pterygoid_R"
+    Musc_Sclmast_L = "Musc_Sclmast_L"
+    Musc_Sclmast_R = "Musc_Sclmast_R"
+    Musc_Temporal_L = "Musc_Temporal_L"
+    Musc_Temporal_R = "Musc_Temporal_R"
+    Nasalconcha_LI = "Nasalconcha_LI"
+    Nasalconcha_RI = "Nasalconcha_RI"
+    Nasopharynx = "Nasopharynx"
+    Nose = "Nose"
+    Nrv_Peripheral = "Nrv_Peripheral"
+    Nrv_Root = "Nrv_Root"
+    OpticChiasm = "OpticChiasm"
+    OpticChiasm_PRV = "OpticChiasm_PRV"
+    OpticChiasm_PRVx = "OpticChiasm_PRVx"
+    OpticNrv = "OpticNrv"
+    OpticNrv_L = "OpticNrv_L"
+    OpticNrv_PRV = "OpticNrv_PRV"
+    OpticNrv_PRV_L = "OpticNrv_PRV_L"
+    OpticNrv_PRV_R = "OpticNrv_PRV_R"
+    OpticNrv_PRVxx_L = "OpticNrv_PRVxx_L"
+    OpticNrv_PRVxx_R = "OpticNrv_PRVxx_R"
+    OpticNrv_R = "OpticNrv_R"
+    Orbit_L = "Orbit_L"
+    Orbit_R = "Orbit_R"
+    Oropharynx = "Oropharynx"
+    Ovaries = "Ovaries"
+    Ovary_L = "Ovary_L"
+    Ovary_R = "Ovary_R"
+    Pacemaker = "Pacemaker"
+    Palate_Soft = "Palate_Soft"
+    PancJejuno = "PancJejuno"
+    Pancreas = "Pancreas"
+    Pancreas_Head = "Pancreas_Head"
+    Pancreas_Tail = "Pancreas_Tail"
+    Parametrium = "Parametrium"
+    Parotid_L = "Parotid_L"
+    Parotid_R = "Parotid_R"
+    Parotids = "Parotids"
+    PenileBulb = "PenileBulb"
+    Penis = "Penis"
+    Pericardium = "Pericardium"
+    Perineum = "Perineum"
+    Peritoneum = "Peritoneum"
+    Pharynx = "Pharynx"
+    Pineal = "Pineal"
+    Pituitary = "Pituitary"
+    Pituitary_PRVxx = "Pituitary_PRVxx"
+    Pons = "Pons"
+    Postop = "Postop"
+    Preop = "Preop"
+    Proc_Condyloid_L = "Proc_Condyloid_L"
+    Proc_Condyloid_R = "Proc_Condyloid_R"
+    Proc_Coronoid_L = "Proc_Coronoid_L"
+    Proc_Coronoid_R = "Proc_Coronoid_R"
+    Prostate = "Prostate"
+    ProstateBed = "ProstateBed"
+    Prosthesis = "Prosthesis"
+    Pterygoid_Lat_L = "Pterygoid_Lat_L"
+    Pterygoid_Lat_R = "Pterygoid_Lat_R"
+    Pterygoid_Med_L = "Pterygoid_Med_L"
+    Pterygoid_Med_R = "Pterygoid_Med_R"
+    PTV = "PTV"
+    PubicSymphys = "PubicSymphys"
+    PubicSymphys_L = "PubicSymphys_L"
+    PubicSymphys_R = "PubicSymphys_R"
+    Radius_L = "Radius_L"
+    Radius_R = "Radius_R"
+    Rectal_Wall = "Rectal_Wall"
+    Rectum = "Rectum"
+    Retina_L = "Retina_L"
+    Retina_PRVxx_L = "Retina_PRVxx_L"
+    Retina_PRVxx_R = "Retina_PRVxx_R"
+    Retina_R = "Retina_R"
+    Retinas = "Retinas"
+    Rib = "Rib"
+    Rib01_L = "Rib01_L"
+    Rib01_R = "Rib01_R"
+    Rib02_L = "Rib02_L"
+    Rib02_R = "Rib02_R"
+    Rib03_L = "Rib03_L"
+    Rib03_R = "Rib03_R"
+    Rib04_L = "Rib04_L"
+    Rib04_R = "Rib04_R"
+    Rib05_L = "Rib05_L"
+    Rib05_R = "Rib05_R"
+    Rib06_L = "Rib06_L"
+    Rib06_R = "Rib06_R"
+    Rib07_L = "Rib07_L"
+    Rib07_R = "Rib07_R"
+    Rib08_L = "Rib08_L"
+    Rib08_R = "Rib08_R"
+    Rib09_L = "Rib09_L"
+    Rib09_R = "Rib09_R"
+    Rib10_L = "Rib10_L"
+    Rib10_R = "Rib10_R"
+    Rib11_L = "Rib11_L"
+    Rib11_R = "Rib11_R"
+    Rib12_L = "Rib12_L"
+    Rib12_R = "Rib12_R"
+    SacralPlex = "SacralPlex"
+    Sacrum = "Sacrum"
+    Scalp = "Scalp"
+    Scapula_L = "Scapula_L"
+    Scapula_R = "Scapula_R"
+    Scar = "Scar"
+    Scar_Boost = "Scar_Boost"
+    Scrotum = "Scrotum"
+    SeminalVes = "SeminalVes"
+    SeminalVes_Dist = "SeminalVes_Dist"
+    SeminalVes_Prox = "SeminalVes_Prox"
+    Sinus_Ethmoid = "Sinus_Ethmoid"
+    Sinus_Frontal = "Sinus_Frontal"
+    Sinus_Frontal_L = "Sinus_Frontal_L"
+    Sinus_Frontal_R = "Sinus_Frontal_R"
+    Sinus_Maxilry = "Sinus_Maxilry"
+    Sinus_Maxilry_L = "Sinus_Maxilry_L"
+    Sinus_Maxilry_R = "Sinus_Maxilry_R"
+    Sinus_Sphenoid = "Sinus_Sphenoid"
+    Sinus_Sphenoid_L = "Sinus_Sphenoid_L"
+    Sinus_Sphenoid_R = "Sinus_Sphenoid_R"
+    Skin = "Skin"
+    Skin_Perineum = "Skin_Perineum"
+    Skin_Peritoneum = "Skin_Peritoneum"
+    Skull = "Skull"
+    Spc = "Spc"
+    Spc_Bowel = "Spc_Bowel"
+    Spc_Bowel_Small = "Spc_Bowel_Small"
+    Spc_Retrophar_L = "Spc_Retrophar_L"
+    Spc_Retrophar_R = "Spc_Retrophar_R"
+    Spc_Retrophars = "Spc_Retrophars"
+    Spc_Retrosty = "Spc_Retrosty"
+    Spc_Retrosty_L = "Spc_Retrosty_L"
+    Spc_Retrosty_R = "Spc_Retrosty_R"
+    Spc_Supraclav_L = "Spc_Supraclav_L"
+    Spc_Supraclav_R = "Spc_Supraclav_R"
+    Sphincter_Anal = "Sphincter_Anal"
+    SpinalCanal = "SpinalCanal"
+    SpinalCanal_PRV = "SpinalCanal_PRV"
+    SpinalCanal_PRVx = "SpinalCanal_PRVx"
+    SpinalCord = "SpinalCord"
+    SpinalCord_Cerv = "SpinalCord_Cerv"
+    SpinalCord_Lum = "SpinalCord_Lum"
+    SpinalCord_PRV = "SpinalCord_PRV"
+    SpinalCord_PRVxx = "SpinalCord_PRVxx"
+    SpinalCord_Sac = "SpinalCord_Sac"
+    SpinalCord_Thor = "SpinalCord_Thor"
+    Spleen = "Spleen"
+    Spleen_Hilum = "Spleen_Hilum"
+    Spongiosum = "Spongiosum"
+    Stapes = "Stapes"
+    Stapes_L = "Stapes_L"
+    Stapes_R = "Stapes_R"
+    Stomach = "Stomach"
+    Stomach_PRVxx = "Stomach_PRVxx"
+    Strct = "Strct"
+    Strct_Suprapatel = "Strct_Suprapatel"
+    Surf_Eye = "Surf_Eye"
+    SurgicalBed = "SurgicalBed"
+    Sys_Ventricular = "Sys_Ventricular"
+    Tendon = "Tendon"
+    Tendon_Quad = "Tendon_Quad"
+    Testis = "Testis"
+    Testis_L = "Testis_L"
+    Testis_R = "Testis_R"
+    ThecalSac = "ThecalSac"
+    Thoracic_Duct = "Thoracic_Duct"
+    Tongue = "Tongue"
+    Tongue_All = "Tongue_All"
+    Tongue_Base = "Tongue_Base"
+    Tongue_Base_L = "Tongue_Base_L"
+    Tongue_Base_R = "Tongue_Base_R"
+    Tongue_Oral = "Tongue_Oral"
+    Tongue_Oral_L = "Tongue_Oral_L"
+    Tongue_Oral_R = "Tongue_Oral_R"
+    Tonsil = "Tonsil"
+    Trachea = "Trachea"
+    Trachea_NAdj = "Trachea_NAdj"
+    TumorBed = "TumorBed"
+    Ureter_L = "Ureter_L"
+    Ureter_R = "Ureter_R"
+    UreterDivert = "UreterDivert"
+    Ureters = "Ureters"
+    Urethra = "Urethra"
+    Urethra_Prostatc = "Urethra_Prostatc"
+    Uterus = "Uterus"
+    V_Azygos = "V_Azygos"
+    V_Brachioceph_L = "V_Brachioceph_L"
+    V_Brachioceph_R = "V_Brachioceph_R"
+    V_Iliac_Ext_L = "V_Iliac_Ext_L"
+    V_Iliac_Ext_R = "V_Iliac_Ext_R"
+    V_Iliac_Int_L = "V_Iliac_Int_L"
+    V_Iliac_Int_R = "V_Iliac_Int_R"
+    V_Iliac_L = "V_Iliac_L"
+    V_Iliac_R = "V_Iliac_R"
+    V_Jugular = "V_Jugular"
+    V_Jugular_Ext_L = "V_Jugular_Ext_L"
+    V_Jugular_Ext_R = "V_Jugular_Ext_R"
+    V_Jugular_Int_L = "V_Jugular_Int_L"
+    V_Jugular_Int_R = "V_Jugular_Int_R"
+    V_Portal = "V_Portal"
+    V_Pulmonary = "V_Pulmonary"
+    V_Subclavian_L = "V_Subclavian_L"
+    V_Subclavian_R = "V_Subclavian_R"
+    V_Subclavians = "V_Subclavians"
+    V_Venacava_I = "V_Venacava_I"
+    V_Venacava_S = "V_Venacava_S"
+    Vagina = "Vagina"
+    Vagina_Surf = "Vagina_Surf"
+    VaginalCuff = "VaginalCuff"
+    Valve = "Valve"
+    Valve_Aortic = "Valve_Aortic"
+    Valve_Mitral = "Valve_Mitral"
+    Valve_Pulmonic = "Valve_Pulmonic"
+    Valve_Tricuspid = "Valve_Tricuspid"
+    VB = "VB"
+    VB_C = "VB_C"
+    VB_C1 = "VB_C1"
+    VB_C2 = "VB_C2"
+    VB_C3 = "VB_C3"
+    VB_C4 = "VB_C4"
+    VB_C5 = "VB_C5"
+    VB_C6 = "VB_C6"
+    VB_C7 = "VB_C7"
+    VB_L = "VB_L"
+    VB_L1 = "VB_L1"
+    VB_L2 = "VB_L2"
+    VB_L3 = "VB_L3"
+    VB_L4 = "VB_L4"
+    VB_L5 = "VB_L5"
+    VB_S = "VB_S"
+    VB_S1 = "VB_S1"
+    VB_S2 = "VB_S2"
+    VB_S3 = "VB_S3"
+    VB_S4 = "VB_S4"
+    VB_S5 = "VB_S5"
+    VB_T = "VB_T"
+    VB_T01 = "VB_T01"
+    VB_T02 = "VB_T02"
+    VB_T03 = "VB_T03"
+    VB_T04 = "VB_T04"
+    VB_T05 = "VB_T05"
+    VB_T06 = "VB_T06"
+    VB_T07 = "VB_T07"
+    VB_T08 = "VB_T08"
+    VB_T09 = "VB_T09"
+    VB_T10 = "VB_T10"
+    VB_T11 = "VB_T11"
+    VB_T12 = "VB_T12"
+    VBs = "VBs"
+    Ventricle = "Ventricle"
+    Ventricle_L = "Ventricle_L"
+    Ventricle_R = "Ventricle_R"
+    VocalCord_L = "VocalCord_L"
+    VocalCord_R = "VocalCord_R"
+    VocalCords = "VocalCords"
+    Vomer = "Vomer"
+    Vulva = "Vulva"
+    Wall_Vagina = "Wall_Vagina"
diff --git a/src/python/raicontours/raicontours/training_record.json b/src/python/raicontours/raicontours/training_record.json
new file mode 100644
index 00000000..53b33a7d
--- /dev/null
+++ b/src/python/raicontours/raicontours/training_record.json
@@ -0,0 +1,1391 @@
+{
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Test patch:
diff --git a/3rdparty/python/pytest.lock b/3rdparty/python/pytest.lock
new file mode 100644
index 00000000..46fd052d
--- /dev/null
+++ b/3rdparty/python/pytest.lock
@@ -0,0 +1,1135 @@
+// This lockfile was autogenerated by Pants. To regenerate, run:
+//
+//    ./pants generate-lockfiles --resolve=pytest
+//
+// --- BEGIN PANTS LOCKFILE METADATA: DO NOT EDIT OR REMOVE ---
+// {
+//   "version": 3,
+//   "valid_for_interpreter_constraints": [
+//     "CPython==3.9.15"
+//   ],
+//   "generated_with_requirements": [
+//     "ipdb",
+//     "pygments",
+//     "pytest-asyncio",
+//     "pytest-cov!=2.12.1,<3.1,>=2.12",
+//     "pytest-html",
+//     "pytest-icdiff",
+//     "pytest-xdist<3,>=2.5",
+//     "pytest==7.0.1"
+//   ],
+//   "manylinux": "manylinux2014",
+//   "requirement_constraints": [],
+//   "only_binary": [],
+//   "no_binary": []
+// }
+// --- END PANTS LOCKFILE METADATA ---
+
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diff --git a/src/python/rai/rai/mask/test_figures/edge-of-mask.png b/records/tests/python/mask_test_figures/edge-of-mask.png
similarity index 99%
rename from src/python/rai/rai/mask/test_figures/edge-of-mask.png
rename to records/tests/python/mask_test_figures/edge-of-mask.png
index 0505576f..8128452b 100644
Binary files a/src/python/rai/rai/mask/test_figures/edge-of-mask.png and b/records/tests/python/mask_test_figures/edge-of-mask.png differ
diff --git a/src/python/rai/rai/mask/test_figures/offset-ellipse.png b/records/tests/python/mask_test_figures/offset-ellipse.png
similarity index 99%
rename from src/python/rai/rai/mask/test_figures/offset-ellipse.png
rename to records/tests/python/mask_test_figures/offset-ellipse.png
index 1057eed1..74475894 100644
Binary files a/src/python/rai/rai/mask/test_figures/offset-ellipse.png and b/records/tests/python/mask_test_figures/offset-ellipse.png differ
diff --git a/src/python/rai/rai/mask/test_figures/right-angle-triangle.png b/records/tests/python/mask_test_figures/right-angle-triangle.png
similarity index 99%
rename from src/python/rai/rai/mask/test_figures/right-angle-triangle.png
rename to records/tests/python/mask_test_figures/right-angle-triangle.png
index a4633182..c1a5b357 100644
Binary files a/src/python/rai/rai/mask/test_figures/right-angle-triangle.png and b/records/tests/python/mask_test_figures/right-angle-triangle.png differ
diff --git a/src/python/rai/rai/mask/test_figures/two-small-abutting-circles.png b/records/tests/python/mask_test_figures/two-small-abutting-circles.png
similarity index 99%
rename from src/python/rai/rai/mask/test_figures/two-small-abutting-circles.png
rename to records/tests/python/mask_test_figures/two-small-abutting-circles.png
index 9ba79e09..4554dd1c 100644
Binary files a/src/python/rai/rai/mask/test_figures/two-small-abutting-circles.png and b/records/tests/python/mask_test_figures/two-small-abutting-circles.png differ
diff --git a/src/python/rai/rai/mask/test_convert.py b/src/python/rai/rai/mask/test_convert.py
index 06737051..c3c6c49b 100644
--- a/src/python/rai/rai/mask/test_convert.py
+++ b/src/python/rai/rai/mask/test_convert.py
@@ -16,18 +16,17 @@
 
 """Testing the mask conversion to and from contour lines"""
 
-import pathlib
 from typing import TypedDict
 
 import matplotlib.pyplot as plt  # pyright: ignore [reportMissingTypeStubs, reportUnknownVariableType]
 import numpy as np
 
+from rai._paths import TEST_RECORDS_DIR
 from rai.metrics import dice
 
 from .convert import Contours, Grid, contours_to_mask, mask_to_contours
 
-HERE = pathlib.Path(__file__).parent
-FIGURE_DIR = HERE / "test_figures"
+FIGURE_DIR = TEST_RECORDS_DIR / "mask_test_figures"
 
 
 def test_conversion_round_trip():