Merge branch 'release/0.2.0'

* release/0.2.0: (80 commits)
  Bump version: 0.2.1-dev -> 0.2.1
  Bump version: 0.2.0 -> 0.2.1-dev
  Upload Pipfile.lock and docs.
  Add releasing checklist.
  Bump version: 0.2.0-dev -> 0.2.0
  Bump version: 0.1.5-dev -> 0.2.0-dev
  Fix Makefile to install dicom3tools on Linux.
  Handle no patient_birthdate better.
  Migrate to importlib.resources.
  Update lock.
  Update codes from ADA-1107.
  Sync with ADA-1107
  Add day MeasurementUnitsCodeSequence.
  Remove commented code.
  Add Longitudinal Termporal Event and Offset.
  Fix modifiers which were using body structures.
  Add UTF-8 Charachter set.
  Fix problems with Windows.
  Update SNOMED codes.
  update codes from ada-1107
  ...

.bumpversion.cfg

@@ -2,7 +2,7 @@
 commit = True
 tag = True
 tag_name = v{new_version}
-current_version = 0.1.5
+current_version = 0.2.1
 parse = (?P<major>\d+)\.(?P<minor>\d+)\.(?P<patch>\d+)(\-(?P<release>[a-z]+))?
 message = Bump version: {current_version} -> {new_version}
 serialize = 

.gitignore

@@ -5,3 +5,4 @@ build
 *.pyc
 *.egg-info
 *.dcm
+modules/dicom3tools

.pylintrc

@@ -60,16 +60,7 @@ confidence=
 # --enable=similarities". If you want to run only the classes checker, but have
 # no Warning level messages displayed, use "--disable=all --enable=classes
 # --disable=W".
-disable=print-statement,
-        parameter-unpacking,
-        unpacking-in-except,
-        old-raise-syntax,
-        backtick,
-        long-suffix,
-        old-ne-operator,
-        old-octal-literal,
-        import-star-module-level,
-        non-ascii-bytes-literal,
+disable=
         raw-checker-failed,
         bad-inline-option,
         locally-disabled,
@@ -78,67 +69,6 @@ disable=print-statement,
         useless-suppression,
         deprecated-pragma,
         use-symbolic-message-instead,
-        apply-builtin,
-        basestring-builtin,
-        buffer-builtin,
-        cmp-builtin,
-        coerce-builtin,
-        execfile-builtin,
-        file-builtin,
-        long-builtin,
-        raw_input-builtin,
-        reduce-builtin,
-        standarderror-builtin,
-        unicode-builtin,
-        xrange-builtin,
-        coerce-method,
-        delslice-method,
-        getslice-method,
-        setslice-method,
-        no-absolute-import,
-        old-division,
-        dict-iter-method,
-        dict-view-method,
-        next-method-called,
-        metaclass-assignment,
-        indexing-exception,
-        raising-string,
-        reload-builtin,
-        oct-method,
-        hex-method,
-        nonzero-method,
-        cmp-method,
-        input-builtin,
-        round-builtin,
-        intern-builtin,
-        unichr-builtin,
-        map-builtin-not-iterating,
-        zip-builtin-not-iterating,
-        range-builtin-not-iterating,
-        filter-builtin-not-iterating,
-        using-cmp-argument,
-        eq-without-hash,
-        div-method,
-        idiv-method,
-        rdiv-method,
-        exception-message-attribute,
-        invalid-str-codec,
-        sys-max-int,
-        bad-python3-import,
-        deprecated-string-function,
-        deprecated-str-translate-call,
-        deprecated-itertools-function,
-        deprecated-types-field,
-        next-method-defined,
-        dict-items-not-iterating,
-        dict-keys-not-iterating,
-        dict-values-not-iterating,
-        deprecated-operator-function,
-        deprecated-urllib-function,
-        xreadlines-attribute,
-        deprecated-sys-function,
-        exception-escape,
-        comprehension-escape
 
 # Enable the message, report, category or checker with the given id(s). You can
 # either give multiple identifier separated by comma (,) or put this option
@@ -584,5 +514,5 @@ min-public-methods=2
 
 # Exceptions that will emit a warning when being caught. Defaults to
 # "BaseException, Exception".
-overgeneral-exceptions=BaseException,
-                       Exception
+overgeneral-exceptions=builtins.BaseException,
+                       builtins.Exception

Makefile

@@ -0,0 +1,73 @@
+
+MAIN = dicom4ortho
+D3TOOLS_DIR = modules/dicom3tools
+D3TOOLS_VERSION = 1.00.snapshot.20230225185712
+D3TOOLS_BASE_URL = https://www.dclunie.com/dicom3tools/workinprogress/macexe/dicom3tools_
+D3TOOLS_FILE = dicom3tools.zip
+
+ifeq ($(OS),Windows_NT)
+	D3TOOLS_URL = $(D3TOOLS_BASE_URL)winexe_$(D3TOOLS_VERSION).zip
+else
+    UNAME_S := $(shell uname -s)
+    ifeq ($(UNAME_S),Darwin)
+		D3TOOLS_URL = $(D3TOOLS_BASE_URL)macexe_$(D3TOOLS_VERSION).zip
+    endif
+endif
+
+DIST = ./dist
+
+
+LINTER = $$(which pylint) --errors-only
+
+
+.PHONY: lint
+lint:
+	$(LINTER) setup.py
+	$(LINTER) $(MAIN)
+
+.PHONY: test
+test: install-dev
+	python3 -m unittest
+
+.PHONY: clean
+clean:
+	rm -rf $(DIST)
+	echo "Cleaned up $(DIST) folder."
+	rm -rf *.egg-info
+	echo "Removed all .egg-info files."
+	rm -f test/resources/*.dcm
+	echo "Removed *.dcm files in test/resources."
+	find . -path "*/__pycache*" -delete
+	echo "Deleted all __pycache files."
+	rm -rf $(D3TOOLS_DIR)
+
+$(DIST):
+	mkdir $@
+
+.PHONY: build
+build: lint test $(DIST)
+	python3 -m setup sdist
+
+.PHONY: deploy
+deploy:
+	echo "Deplyoing to PyPi."
+	echo "To deploy, make sure you have a token saved in ~/.pypirc . See https://pypi.org/manage/account/token/?selected_project=dicom4ortho"
+	python3 -m twine upload --repository pypi dist/*
+
+.PHONY: all
+all: clean build
+
+.PHONY: install-dev
+install-dev: $(D3TOOLS_DIR)
+ifeq ($(UNAME_S),Linux)
+install-dev:
+	sudo apt-get -y install dicom3tools
+	rm -f $(D3TOOLS_DIR)/dciodvfy
+	ln -s /usr/bin/dciodvfy $(D3TOOLS_DIR)
+else
+install-dev:
+	cd $(D3TOOLS_DIR) && curl $(D3TOOLS_URL) -o $(D3TOOLS_FILE) && unzip $(D3TOOLS_FILE) && rm $(D3TOOLS_FILE)
+endif
+
+$(D3TOOLS_DIR):
+	mkdir -p $@

Pipfile

@@ -4,6 +4,7 @@ url = "https://pypi.org/simple"
 verify_ssl = true
 
 [dev-packages]
+wrapt = "*"
 pylint = "*"
 twine = "*"
 autopep8 = "*"
@@ -18,6 +19,7 @@ dicom-photo = {path = ".", editable = true}
 # There is a vulnerability flaw in <1.26.5 of urllib3.
 urllib3 = ">=1.26.5"
 sphinx = "*"
+numpy = "*"
 
 [requires]
 python_version = "3"