Repository: npaulson/pduq (language: python)

Issue:
try to fix pytest stuff in .travis.yml

minor changes to documentation

try to fix pytest stuff in .travis.yml



Discussion / hints:

Fix patch:
diff --git a/README.rst b/README.rst
index 1b7f7e6..f69a455 100644
--- a/README.rst
+++ b/README.rst
@@ -2,14 +2,32 @@
 PDUQ
 ===============================
 
-.. image:: https://img.shields.io/travis/npaulson/pduq.svg
-        :target: https://travis-ci.org/npaulson/pduq
+.. image:: https://github.com/npaulson/pduq/actions/workflows/python-test.yml/badge.svg
+        :target: https://github.com/npaulson/pduq/actions/workflows/python-test.yml 
+        :alt: Python package test status
+    
+.. image:: https://img.shields.io/pypi/pyversions/pduq
+        :target: https://pypi.python.org/pypi/pduq
+        :alt: PyPI - Python Version 
 
-.. image:: https://img.shields.io/pypi/v/pduq.svg
+.. image:: https://img.shields.io/pypi/status/pduq
         :target: https://pypi.python.org/pypi/pduq
+        :alt: PyPI - Status 
+
+.. image:: https://img.shields.io/pypi/v/pduq.svg
+        :target: https://pypi.python.org/pypi/pduq 
+        :alt: PyPI - Version
+
+.. image:: https://img.shields.io/travis/npaulson/pduq.svg
+        :target: https://travis-ci.org/npaulson/pduq 
+        :alt: Travis CI - Build Status
 
+.. image:: https://img.shields.io/pypi/l/pduq
+        :target: https://pypi.python.org/pypi/pduq
+        :alt: PyPI - License 
 
+        
 Python package for uncertainty quantification in CALPHAD
 
 * Free software: 3-clause BSD license
-* Documentation: https://pduq.readthedocs.io/en/latest/ 
+* Documentation: https://pduq.readthedocs.io/en/latest/
diff --git a/pduq/__init__.py b/pduq/__init__.py
index 74f4e66..ecd3379 100644
--- a/pduq/__init__.py
+++ b/pduq/__init__.py
@@ -1,4 +1,3 @@
 
-from ._version import get_versions
-__version__ = get_versions()['version']
-del get_versions
+from . import _version
+__version__ = _version.get_versions()['version']
diff --git a/pduq/_version.py b/pduq/_version.py
index 7cf7fde..0d0c4d2 100644
--- a/pduq/_version.py
+++ b/pduq/_version.py
@@ -5,8 +5,9 @@
 # directories (produced by setup.py build) will contain a much shorter file
 # that just contains the computed version number.
 
-# This file is released into the public domain. Generated by
-# versioneer-0.18 (https://github.com/warner/python-versioneer)
+# This file is released into the public domain.
+# Generated by versioneer-0.29
+# https://github.com/python-versioneer/python-versioneer
 
 """Git implementation of _version.py."""
 
@@ -15,9 +16,11 @@
 import re
 import subprocess
 import sys
+from typing import Any, Callable, Dict, List, Optional, Tuple
+import functools
 
 
-def get_keywords():
+def get_keywords() -> Dict[str, str]:
     """Get the keywords needed to look up the version information."""
     # these strings will be replaced by git during git-archive.
     # setup.py/versioneer.py will grep for the variable names, so they must
@@ -33,8 +36,15 @@ def get_keywords():
 class VersioneerConfig:
     """Container for Versioneer configuration parameters."""
 
+    VCS: str
+    style: str
+    tag_prefix: str
+    parentdir_prefix: str
+    versionfile_source: str
+    verbose: bool
 
-def get_config():
+
+def get_config() -> VersioneerConfig:
     """Create, populate and return the VersioneerConfig() object."""
     # these strings are filled in when 'setup.py versioneer' creates
     # _version.py
@@ -52,13 +62,13 @@ class NotThisMethod(Exception):
     """Exception raised if a method is not valid for the current scenario."""
 
 
-LONG_VERSION_PY = {}
-HANDLERS = {}
+LONG_VERSION_PY: Dict[str, str] = {}
+HANDLERS: Dict[str, Dict[str, Callable]] = {}
 
 
-def register_vcs_handler(vcs, method):  # decorator
-    """Decorator to mark a method as the handler for a particular VCS."""
-    def decorate(f):
+def register_vcs_handler(vcs: str, method: str) -> Callable:  # decorator
+    """Create decorator to mark a method as the handler of a VCS."""
+    def decorate(f: Callable) -> Callable:
         """Store f in HANDLERS[vcs][method]."""
         if vcs not in HANDLERS:
             HANDLERS[vcs] = {}
@@ -67,22 +77,35 @@ def decorate(f):
     return decorate
 
 
-def run_command(commands, args, cwd=None, verbose=False, hide_stderr=False,
-                env=None):
+def run_command(
+    commands: List[str],
+    args: List[str],
+    cwd: Optional[str] = None,
+    verbose: bool = False,
+    hide_stderr: bool = False,
+    env: Optional[Dict[str, str]] = None,
+) -> Tuple[Optional[str], Optional[int]]:
     """Call the given command(s)."""
     assert isinstance(commands, list)
-    p = None
-    for c in commands:
+    process = None
+
+    popen_kwargs: Dict[str, Any] = {}
+    if sys.platform == "win32":
+        # This hides the console window if pythonw.exe is used
+        startupinfo = subprocess.STARTUPINFO()
+        startupinfo.dwFlags |= subprocess.STARTF_USESHOWWINDOW
+        popen_kwargs["startupinfo"] = startupinfo
+
+    for command in commands:
         try:
-            dispcmd = str([c] + args)
+            dispcmd = str([command] + args)
             # remember shell=False, so use git.cmd on windows, not just git
-            p = subprocess.Popen([c] + args, cwd=cwd, env=env,
-                                 stdout=subprocess.PIPE,
-                                 stderr=(subprocess.PIPE if hide_stderr
-                                         else None))
+            process = subprocess.Popen([command] + args, cwd=cwd, env=env,
+                                       stdout=subprocess.PIPE,
+                                       stderr=(subprocess.PIPE if hide_stderr
+                                               else None), **popen_kwargs)
             break
-        except EnvironmentError:
-            e = sys.exc_info()[1]
+        except OSError as e:
             if e.errno == errno.ENOENT:
                 continue
             if verbose:
@@ -93,18 +116,20 @@ def run_command(commands, args, cwd=None, verbose=False, hide_stderr=False,
         if verbose:
             print("unable to find command, tried %s" % (commands,))
         return None, None
-    stdout = p.communicate()[0].strip()
-    if sys.version_info[0] >= 3:
-        stdout = stdout.decode()
-    if p.returncode != 0:
+    stdout = process.communicate()[0].strip().decode()
+    if process.returncode != 0:
         if verbose:
             print("unable to run %s (error)" % dispcmd)
             print("stdout was %s" % stdout)
-        return None, p.returncode
-    return stdout, p.returncode
+        return None, process.returncode
+    return stdout, process.returncode
 
 
-def versions_from_parentdir(parentdir_prefix, root, verbose):
+def versions_from_parentdir(
+    parentdir_prefix: str,
+    root: str,
+    verbose: bool,
+) -> Dict[str, Any]:
     """Try to determine the version from the parent directory name.
 
     Source tarballs conventionally unpack into a directory that includes both
@@ -113,15 +138,14 @@ def versions_from_parentdir(parentdir_prefix, root, verbose):
     """
     rootdirs = []
 
-    for i in range(3):
+    for _ in range(3):
         dirname = os.path.basename(root)
         if dirname.startswith(parentdir_prefix):
             return {"version": dirname[len(parentdir_prefix):],
                     "full-revisionid": None,
                     "dirty": False, "error": None, "date": None}
-        else:
-            rootdirs.append(root)
-            root = os.path.dirname(root)  # up a level
+        rootdirs.append(root)
+        root = os.path.dirname(root)  # up a level
 
     if verbose:
         print("Tried directories %s but none started with prefix %s" %
@@ -130,41 +154,48 @@ def versions_from_parentdir(parentdir_prefix, root, verbose):
 
 
 @register_vcs_handler("git", "get_keywords")
-def git_get_keywords(versionfile_abs):
+def git_get_keywords(versionfile_abs: str) -> Dict[str, str]:
     """Extract version information from the given file."""
     # the code embedded in _version.py can just fetch the value of these
     # keywords. When used from setup.py, we don't want to import _version.py,
     # so we do it with a regexp instead. This function is not used from
     # _version.py.
-    keywords = {}
+    keywords: Dict[str, str] = {}
     try:
-        f = open(versionfile_abs, "r")
-        for line in f.readlines():
-            if line.strip().startswith("git_refnames ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["refnames"] = mo.group(1)
-            if line.strip().startswith("git_full ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["full"] = mo.group(1)
-            if line.strip().startswith("git_date ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["date"] = mo.group(1)
-        f.close()
-    except EnvironmentError:
+        with open(versionfile_abs, "r") as fobj:
+            for line in fobj:
+                if line.strip().startswith("git_refnames ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["refnames"] = mo.group(1)
+                if line.strip().startswith("git_full ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["full"] = mo.group(1)
+                if line.strip().startswith("git_date ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["date"] = mo.group(1)
+    except OSError:
         pass
     return keywords
 
 
 @register_vcs_handler("git", "keywords")
-def git_versions_from_keywords(keywords, tag_prefix, verbose):
+def git_versions_from_keywords(
+    keywords: Dict[str, str],
+    tag_prefix: str,
+    verbose: bool,
+) -> Dict[str, Any]:
     """Get version information from git keywords."""
-    if not keywords:
-        raise NotThisMethod("no keywords at all, weird")
+    if "refnames" not in keywords:
+        raise NotThisMethod("Short version file found")
     date = keywords.get("date")
     if date is not None:
+        # Use only the last line.  Previous lines may contain GPG signature
+        # information.
+        date = date.splitlines()[-1]
+
         # git-2.2.0 added "%cI", which expands to an ISO-8601 -compliant
         # datestamp. However we prefer "%ci" (which expands to an "ISO-8601
         # -like" string, which we must then edit to make compliant), because
@@ -177,11 +208,11 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         if verbose:
             print("keywords are unexpanded, not using")
         raise NotThisMethod("unexpanded keywords, not a git-archive tarball")
-    refs = set([r.strip() for r in refnames.strip("()").split(",")])
+    refs = {r.strip() for r in refnames.strip("()").split(",")}
     # starting in git-1.8.3, tags are listed as "tag: foo-1.0" instead of
     # just "foo-1.0". If we see a "tag: " prefix, prefer those.
     TAG = "tag: "
-    tags = set([r[len(TAG):] for r in refs if r.startswith(TAG)])
+    tags = {r[len(TAG):] for r in refs if r.startswith(TAG)}
     if not tags:
         # Either we're using git < 1.8.3, or there really are no tags. We use
         # a heuristic: assume all version tags have a digit. The old git %d
@@ -190,7 +221,7 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         # between branches and tags. By ignoring refnames without digits, we
         # filter out many common branch names like "release" and
         # "stabilization", as well as "HEAD" and "master".
-        tags = set([r for r in refs if re.search(r'\d', r)])
+        tags = {r for r in refs if re.search(r'\d', r)}
         if verbose:
             print("discarding '%s', no digits" % ",".join(refs - tags))
     if verbose:
@@ -199,6 +230,11 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         # sorting will prefer e.g. "2.0" over "2.0rc1"
         if ref.startswith(tag_prefix):
             r = ref[len(tag_prefix):]
+            # Filter out refs that exactly match prefix or that don't start
+            # with a number once the prefix is stripped (mostly a concern
+            # when prefix is '')
+            if not re.match(r'\d', r):
+                continue
             if verbose:
                 print("picking %s" % r)
             return {"version": r,
@@ -214,7 +250,12 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
 
 
 @register_vcs_handler("git", "pieces_from_vcs")
-def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
+def git_pieces_from_vcs(
+    tag_prefix: str,
+    root: str,
+    verbose: bool,
+    runner: Callable = run_command
+) -> Dict[str, Any]:
     """Get version from 'git describe' in the root of the source tree.
 
     This only gets called if the git-archive 'subst' keywords were *not*
@@ -225,8 +266,15 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
     if sys.platform == "win32":
         GITS = ["git.cmd", "git.exe"]
 
-    out, rc = run_command(GITS, ["rev-parse", "--git-dir"], cwd=root,
-                          hide_stderr=True)
+    # GIT_DIR can interfere with correct operation of Versioneer.
+    # It may be intended to be passed to the Versioneer-versioned project,
+    # but that should not change where we get our version from.
+    env = os.environ.copy()
+    env.pop("GIT_DIR", None)
+    runner = functools.partial(runner, env=env)
+
+    _, rc = runner(GITS, ["rev-parse", "--git-dir"], cwd=root,
+                   hide_stderr=not verbose)
     if rc != 0:
         if verbose:
             print("Directory %s not under git control" % root)
@@ -234,24 +282,57 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
 
     # if there is a tag matching tag_prefix, this yields TAG-NUM-gHEX[-dirty]
     # if there isn't one, this yields HEX[-dirty] (no NUM)
-    describe_out, rc = run_command(GITS, ["describe", "--tags", "--dirty",
-                                          "--always", "--long",
-                                          "--match", "%s*" % tag_prefix],
-                                   cwd=root)
+    describe_out, rc = runner(GITS, [
+        "describe", "--tags", "--dirty", "--always", "--long",
+        "--match", f"{tag_prefix}[[:digit:]]*"
+    ], cwd=root)
     # --long was added in git-1.5.5
     if describe_out is None:
         raise NotThisMethod("'git describe' failed")
     describe_out = describe_out.strip()
-    full_out, rc = run_command(GITS, ["rev-parse", "HEAD"], cwd=root)
+    full_out, rc = runner(GITS, ["rev-parse", "HEAD"], cwd=root)
     if full_out is None:
         raise NotThisMethod("'git rev-parse' failed")
     full_out = full_out.strip()
 
-    pieces = {}
+    pieces: Dict[str, Any] = {}
     pieces["long"] = full_out
     pieces["short"] = full_out[:7]  # maybe improved later
     pieces["error"] = None
 
+    branch_name, rc = runner(GITS, ["rev-parse", "--abbrev-ref", "HEAD"],
+                             cwd=root)
+    # --abbrev-ref was added in git-1.6.3
+    if rc != 0 or branch_name is None:
+        raise NotThisMethod("'git rev-parse --abbrev-ref' returned error")
+    branch_name = branch_name.strip()
+
+    if branch_name == "HEAD":
+        # If we aren't exactly on a branch, pick a branch which represents
+        # the current commit. If all else fails, we are on a branchless
+        # commit.
+        branches, rc = runner(GITS, ["branch", "--contains"], cwd=root)
+        # --contains was added in git-1.5.4
+        if rc != 0 or branches is None:
+            raise NotThisMethod("'git branch --contains' returned error")
+        branches = branches.split("\n")
+
+        # Remove the first line if we're running detached
+        if "(" in branches[0]:
+            branches.pop(0)
+
+        # Strip off the leading "* " from the list of branches.
+        branches = [branch[2:] for branch in branches]
+        if "master" in branches:
+            branch_name = "master"
+        elif not branches:
+            branch_name = None
+        else:
+            # Pick the first branch that is returned. Good or bad.
+            branch_name = branches[0]
+
+    pieces["branch"] = branch_name
+
     # parse describe_out. It will be like TAG-NUM-gHEX[-dirty] or HEX[-dirty]
     # TAG might have hyphens.
     git_describe = describe_out
@@ -268,7 +349,7 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
         # TAG-NUM-gHEX
         mo = re.search(r'^(.+)-(\d+)-g([0-9a-f]+)$', git_describe)
         if not mo:
-            # unparseable. Maybe git-describe is misbehaving?
+            # unparsable. Maybe git-describe is misbehaving?
             pieces["error"] = ("unable to parse git-describe output: '%s'"
                                % describe_out)
             return pieces
@@ -293,26 +374,27 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
     else:
         # HEX: no tags
         pieces["closest-tag"] = None
-        count_out, rc = run_command(GITS, ["rev-list", "HEAD", "--count"],
-                                    cwd=root)
-        pieces["distance"] = int(count_out)  # total number of commits
+        out, rc = runner(GITS, ["rev-list", "HEAD", "--left-right"], cwd=root)
+        pieces["distance"] = len(out.split())  # total number of commits
 
     # commit date: see ISO-8601 comment in git_versions_from_keywords()
-    date = run_command(GITS, ["show", "-s", "--format=%ci", "HEAD"],
-                       cwd=root)[0].strip()
+    date = runner(GITS, ["show", "-s", "--format=%ci", "HEAD"], cwd=root)[0].strip()
+    # Use only the last line.  Previous lines may contain GPG signature
+    # information.
+    date = date.splitlines()[-1]
     pieces["date"] = date.strip().replace(" ", "T", 1).replace(" ", "", 1)
 
     return pieces
 
 
-def plus_or_dot(pieces):
+def plus_or_dot(pieces: Dict[str, Any]) -> str:
     """Return a + if we don't already have one, else return a ."""
     if "+" in pieces.get("closest-tag", ""):
         return "."
     return "+"
 
 
-def render_pep440(pieces):
+def render_pep440(pieces: Dict[str, Any]) -> str:
     """Build up version string, with post-release "local version identifier".
 
     Our goal: TAG[+DISTANCE.gHEX[.dirty]] . Note that if you
@@ -337,23 +419,71 @@ def render_pep440(pieces):
     return rendered
 
 
-def render_pep440_pre(pieces):
-    """TAG[.post.devDISTANCE] -- No -dirty.
+def render_pep440_branch(pieces: Dict[str, Any]) -> str:
+    """TAG[[.dev0]+DISTANCE.gHEX[.dirty]] .
+
+    The ".dev0" means not master branch. Note that .dev0 sorts backwards
+    (a feature branch will appear "older" than the master branch).
 
     Exceptions:
-    1: no tags. 0.post.devDISTANCE
+    1: no tags. 0[.dev0]+untagged.DISTANCE.gHEX[.dirty]
     """
     if pieces["closest-tag"]:
         rendered = pieces["closest-tag"]
+        if pieces["distance"] or pieces["dirty"]:
+            if pieces["branch"] != "master":
+                rendered += ".dev0"
+            rendered += plus_or_dot(pieces)
+            rendered += "%d.g%s" % (pieces["distance"], pieces["short"])
+            if pieces["dirty"]:
+                rendered += ".dirty"
+    else:
+        # exception #1
+        rendered = "0"
+        if pieces["branch"] != "master":
+            rendered += ".dev0"
+        rendered += "+untagged.%d.g%s" % (pieces["distance"],
+                                          pieces["short"])
+        if pieces["dirty"]:
+            rendered += ".dirty"
+    return rendered
+
+
+def pep440_split_post(ver: str) -> Tuple[str, Optional[int]]:
+    """Split pep440 version string at the post-release segment.
+
+    Returns the release segments before the post-release and the
+    post-release version number (or -1 if no post-release segment is present).
+    """
+    vc = str.split(ver, ".post")
+    return vc[0], int(vc[1] or 0) if len(vc) == 2 else None
+
+
+def render_pep440_pre(pieces: Dict[str, Any]) -> str:
+    """TAG[.postN.devDISTANCE] -- No -dirty.
+
+    Exceptions:
+    1: no tags. 0.post0.devDISTANCE
+    """
+    if pieces["closest-tag"]:
         if pieces["distance"]:
-            rendered += ".post.dev%d" % pieces["distance"]
+            # update the post release segment
+            tag_version, post_version = pep440_split_post(pieces["closest-tag"])
+            rendered = tag_version
+            if post_version is not None:
+                rendered += ".post%d.dev%d" % (post_version + 1, pieces["distance"])
+            else:
+                rendered += ".post0.dev%d" % (pieces["distance"])
+        else:
+            # no commits, use the tag as the version
+            rendered = pieces["closest-tag"]
     else:
         # exception #1
-        rendered = "0.post.dev%d" % pieces["distance"]
+        rendered = "0.post0.dev%d" % pieces["distance"]
     return rendered
 
 
-def render_pep440_post(pieces):
+def render_pep440_post(pieces: Dict[str, Any]) -> str:
     """TAG[.postDISTANCE[.dev0]+gHEX] .
 
     The ".dev0" means dirty. Note that .dev0 sorts backwards
@@ -380,12 +510,41 @@ def render_pep440_post(pieces):
     return rendered
 
 
-def render_pep440_old(pieces):
+def render_pep440_post_branch(pieces: Dict[str, Any]) -> str:
+    """TAG[.postDISTANCE[.dev0]+gHEX[.dirty]] .
+
+    The ".dev0" means not master branch.
+
+    Exceptions:
+    1: no tags. 0.postDISTANCE[.dev0]+gHEX[.dirty]
+    """
+    if pieces["closest-tag"]:
+        rendered = pieces["closest-tag"]
+        if pieces["distance"] or pieces["dirty"]:
+            rendered += ".post%d" % pieces["distance"]
+            if pieces["branch"] != "master":
+                rendered += ".dev0"
+            rendered += plus_or_dot(pieces)
+            rendered += "g%s" % pieces["short"]
+            if pieces["dirty"]:
+                rendered += ".dirty"
+    else:
+        # exception #1
+        rendered = "0.post%d" % pieces["distance"]
+        if pieces["branch"] != "master":
+            rendered += ".dev0"
+        rendered += "+g%s" % pieces["short"]
+        if pieces["dirty"]:
+            rendered += ".dirty"
+    return rendered
+
+
+def render_pep440_old(pieces: Dict[str, Any]) -> str:
     """TAG[.postDISTANCE[.dev0]] .
 
     The ".dev0" means dirty.
 
-    Eexceptions:
+    Exceptions:
     1: no tags. 0.postDISTANCE[.dev0]
     """
     if pieces["closest-tag"]:
@@ -402,7 +561,7 @@ def render_pep440_old(pieces):
     return rendered
 
 
-def render_git_describe(pieces):
+def render_git_describe(pieces: Dict[str, Any]) -> str:
     """TAG[-DISTANCE-gHEX][-dirty].
 
     Like 'git describe --tags --dirty --always'.
@@ -422,7 +581,7 @@ def render_git_describe(pieces):
     return rendered
 
 
-def render_git_describe_long(pieces):
+def render_git_describe_long(pieces: Dict[str, Any]) -> str:
     """TAG-DISTANCE-gHEX[-dirty].
 
     Like 'git describe --tags --dirty --always -long'.
@@ -442,7 +601,7 @@ def render_git_describe_long(pieces):
     return rendered
 
 
-def render(pieces, style):
+def render(pieces: Dict[str, Any], style: str) -> Dict[str, Any]:
     """Render the given version pieces into the requested style."""
     if pieces["error"]:
         return {"version": "unknown",
@@ -456,10 +615,14 @@ def render(pieces, style):
 
     if style == "pep440":
         rendered = render_pep440(pieces)
+    elif style == "pep440-branch":
+        rendered = render_pep440_branch(pieces)
     elif style == "pep440-pre":
         rendered = render_pep440_pre(pieces)
     elif style == "pep440-post":
         rendered = render_pep440_post(pieces)
+    elif style == "pep440-post-branch":
+        rendered = render_pep440_post_branch(pieces)
     elif style == "pep440-old":
         rendered = render_pep440_old(pieces)
     elif style == "git-describe":
@@ -474,7 +637,7 @@ def render(pieces, style):
             "date": pieces.get("date")}
 
 
-def get_versions():
+def get_versions() -> Dict[str, Any]:
     """Get version information or return default if unable to do so."""
     # I am in _version.py, which lives at ROOT/VERSIONFILE_SOURCE. If we have
     # __file__, we can work backwards from there to the root. Some
@@ -495,7 +658,7 @@ def get_versions():
         # versionfile_source is the relative path from the top of the source
         # tree (where the .git directory might live) to this file. Invert
         # this to find the root from __file__.
-        for i in cfg.versionfile_source.split('/'):
+        for _ in cfg.versionfile_source.split('/'):
             root = os.path.dirname(root)
     except NameError:
         return {"version": "0+unknown", "full-revisionid": None,
diff --git a/pduq/dbf_calc.py b/pduq/dbf_calc.py
index 0dec6a3..83ec97f 100644
--- a/pduq/dbf_calc.py
+++ b/pduq/dbf_calc.py
@@ -1,14 +1,14 @@
 import logging
 import pickle
-import sympy
+#import sympy
 import numpy as np
 import pycalphad.variables as v
 import xarray as xr
 from collections import OrderedDict
-from espei.utils import database_symbols_to_fit
+from .utils import database_symbols_to_fit
 from itertools import chain
 from pycalphad import equilibrium  #, variables as v
-from pycalphad.codegen.callables import build_callables
+#from pycalphad.codegen.callables import build_callables
 from pycalphad.core.utils import instantiate_models
 from time import time
 logging.basicConfig(filename='pduq.log', level=logging.INFO)
@@ -23,7 +23,13 @@ def eq_calc_(dbf, comps, phases, conds,
 
     parameters = OrderedDict(sorted(param_dict.items(), key=str))
 
-    eq_result = equilibrium(dbf, comps, phases, conds,
+    if eq_callables == None:
+        
+        eq_result = equilibrium(dbf, comps, phases, conds,
+                                parameters=parameters)
+    else:
+    
+        eq_result = equilibrium(dbf, comps, phases, conds,
                             parameters=parameters, callables=eq_callables)
 
     return eq_result
@@ -188,23 +194,24 @@ def eq_calc_samples(
 
     return eqC
 
+## build_callables deprecated in Pycalphad
+# def get_eq_callables_(dbf, comps, phases, symbols_to_fit):
 
-def get_eq_callables_(dbf, comps, phases, symbols_to_fit):
-
-    for x in symbols_to_fit:
-        if isinstance(dbf.symbols[x], sympy.Piecewise):
-            dbf.symbols[x] = dbf.symbols[x].args[0].expr
-
-    models = instantiate_models(
-        dbf, comps, phases,
-        parameters=dict(zip(symbols_to_fit, [0]*len(symbols_to_fit))))
+#     for x in symbols_to_fit:
+#         if isinstance(dbf.symbols[x], sympy.Piecewise):
+#             dbf.symbols[x] = dbf.symbols[x].args[0].expr
 
-    eq_callables = build_callables(
-        dbf, comps, phases, models,
-        parameter_symbols=symbols_to_fit,
-        build_gradients=True, build_hessians=False,
-        additional_statevars={v.N, v.P, v.T})
+#     models = instantiate_models(
+#         dbf, comps, phases,
+#         parameters=dict(zip(symbols_to_fit, [0]*len(symbols_to_fit))))
 
-    logging.info('callables have been created')
+    
+#     eq_callables = build_callables(
+#         dbf, comps, phases, models,
+#         parameter_symbols=symbols_to_fit,
+#         build_gradients=True, build_hessians=False,
+#         additional_statevars={v.N, v.P, v.T})
+    
+#     logging.info('callables have been created')
 
-    return eq_callables
+#     return eq_callables
diff --git a/pduq/invariant_calc.py b/pduq/invariant_calc.py
index 55d52b5..467876b 100644
--- a/pduq/invariant_calc.py
+++ b/pduq/invariant_calc.py
@@ -1,7 +1,7 @@
 import logging
 import numpy as np
 from .dbf_calc import eq_calc_  # , get_eq_callables_
-from espei.utils import database_symbols_to_fit
+from .utils import database_symbols_to_fit
 from pycalphad import variables as v
 logging.basicConfig(filename='pduq.log', level=logging.INFO)
 
diff --git a/pduq/uq_plot.py b/pduq/uq_plot.py
index 6cc5b8c..4b70e03 100644
--- a/pduq/uq_plot.py
+++ b/pduq/uq_plot.py
@@ -4,10 +4,11 @@
 import seaborn as sns
 import xarray as xr
 # from espei.core_utils import get_data
-from espei.utils import database_symbols_to_fit
+from .utils import database_symbols_to_fit
 from collections import OrderedDict
 from scipy.stats import gaussian_kde
-sns.set(color_codes=True)
+#
+sns.set_theme(color_codes=True)
 
 
 def get_label(cplt):
@@ -187,7 +188,7 @@ def plot_dist(eq, coordD, phaseregL, phase, typ, figsize=None):
     """
 
     compL = np.array([])  # array to collect property of interest
-    for ii in range(eq.dims['sample']):
+    for ii in range(eq.sizes['sample']):
         # eq_: equilibrium object for sample ii
         eq_ = eq.sel({'sample': ii}).sel(coordD)
 
@@ -208,7 +209,7 @@ def plot_dist(eq, coordD, phaseregL, phase, typ, figsize=None):
             compL = np.append(compL, val)
 
     plt.figure(figsize=figsize)
-    sns.distplot(compL, norm_hist=True)
+    sns.histplot(compL, stat='density', kde=True)
     xlabeld = {'NP': '%s phase fraction' % phase,
                'X': r'$\mathrm{x_{%s}}$' % coordD['component'],
                'GM': 'Molar Gibbs energy',
@@ -680,7 +681,7 @@ def plot_phasefracline(eq, coordD, xlabel=None,
     max_sz = 0
     for dim in list(eq.dims):
         if dim not in rmlist:
-            dim_sz = eq.dims[dim]
+            dim_sz = eq.sizes[dim]
             if dim_sz > max_sz:
                 max_sz = dim_sz
                 dim_max = dim
diff --git a/pduq/utils.py b/pduq/utils.py
new file mode 100644
index 0000000..d039d6e
--- /dev/null
+++ b/pduq/utils.py
@@ -0,0 +1,25 @@
+"""
+Utilities for PDUQ
+
+Classes and functions defined here should have some reuse potential.
+"""
+import re
+
+def database_symbols_to_fit(dbf, symbol_regex="^V[V]?([0-9]+)$"):
+    """
+    Return names of the symbols to fit that match the regular expression
+
+    Parameters
+    ----------
+    dbf : Database
+        pycalphad Database
+    symbol_regex : str
+        Regular expression of the fitting symbols. Defaults to V or VV followed by one or more numbers.
+
+    Returns
+    -------
+    dict
+        Context dictionary for different methods of calculation the error.
+    """
+    pattern = re.compile(symbol_regex)
+    return sorted([x for x in sorted(dbf.symbols.keys()) if pattern.match(x)])
\ No newline at end of file
diff --git a/requirements.txt b/requirements.txt
index 5289505..0e0b54c 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -1,1 +1,7 @@
 # List required packages in this file, one per line.
+numpy>=1.20
+pycalphad>=0.11.0
+scipy
+seaborn
+dask[complete]>=2
+numpy>=1.20
\ No newline at end of file
diff --git a/setup.py b/setup.py
index bdc1997..2c4de96 100644
--- a/setup.py
+++ b/setup.py
@@ -27,22 +27,21 @@
 with open(path.join(here, 'README.rst'), encoding='utf-8') as readme_file:
     readme = readme_file.read()
 
-with open(path.join(here, 'requirements.txt')) as requirements_file:
-    # Parse requirements.txt, ignoring any commented-out lines.
-    requirements = [line for line in requirements_file.read().splitlines()
-                    if not line.startswith('#')]
-
 
 setup(
     name='pduq',
     version=versioneer.get_version(),
     cmdclass=versioneer.get_cmdclass(),
     description="Python package for uncertainty quantification in CALPHAD",
-    long_description=readme,
+    long_description=open('README.rst').read(),  # Point to README.rst
+    long_description_content_type='text/x-rst',  # Specify ReStructuredText content type
     author="Argonne National Laboratory",
-    author_email='npaulson@anl.gov',
-    url='https://github.com/npaulson/pduq',
-    python_requires='>={}'.format('.'.join(str(n) for n in min_version)),
+    author_email=(
+        'Guannan Tang <tguannan@anl.gov>, '
+        'Noah Paulson <npaulson@anl.gov>, '
+    ),
+    url='https://github.com/npaulson/pduq/tree/GT_fix_ver',
+    python_requires='>={}'.format('.'.join(str(n) for n in min_version)) + ',<3.13',
     packages=find_packages(exclude=['docs', 'tests']),
     entry_points={
         'console_scripts': [
@@ -59,11 +58,23 @@
             'pduq/tests/CU-MG_param_gen.tdb'
             ]
         },
-    install_requires=requirements,
+    install_requires=[
+        'dask[complete]>=2',
+        'distributed',
+        'pycalphad>=0.11.0',
+        'numpy>=1.20',
+        'scipy',
+        'seaborn',
+    ],
     license="BSD (3-clause)",
     classifiers=[
         'Development Status :: 2 - Pre-Alpha',
         'Natural Language :: English',
+        'License :: OSI Approved :: BSD License',
         'Programming Language :: Python :: 3',
+        'Programming Language :: Python :: 3.9',
+        'Programming Language :: Python :: 3.10',
+        'Programming Language :: Python :: 3.11',
+        'Programming Language :: Python :: 3.12',
     ],
 )
diff --git a/versioneer.py b/versioneer.py
index 64fea1c..1e3753e 100644
--- a/versioneer.py
+++ b/versioneer.py
@@ -1,5 +1,5 @@
 
-# Version: 0.18
+# Version: 0.29
 
 """The Versioneer - like a rocketeer, but for versions.
 
@@ -7,18 +7,14 @@
 ==============
 
 * like a rocketeer, but for versions!
-* https://github.com/warner/python-versioneer
+* https://github.com/python-versioneer/python-versioneer
 * Brian Warner
-* License: Public Domain
-* Compatible With: python2.6, 2.7, 3.2, 3.3, 3.4, 3.5, 3.6, and pypy
-* [![Latest Version]
-(https://pypip.in/version/versioneer/badge.svg?style=flat)
-](https://pypi.python.org/pypi/versioneer/)
-* [![Build Status]
-(https://travis-ci.org/warner/python-versioneer.png?branch=master)
-](https://travis-ci.org/warner/python-versioneer)
-
-This is a tool for managing a recorded version number in distutils-based
+* License: Public Domain (Unlicense)
+* Compatible with: Python 3.7, 3.8, 3.9, 3.10, 3.11 and pypy3
+* [![Latest Version][pypi-image]][pypi-url]
+* [![Build Status][travis-image]][travis-url]
+
+This is a tool for managing a recorded version number in setuptools-based
 python projects. The goal is to remove the tedious and error-prone "update
 the embedded version string" step from your release process. Making a new
 release should be as easy as recording a new tag in your version-control
@@ -27,9 +23,38 @@
 
 ## Quick Install
 
-* `pip install versioneer` to somewhere to your $PATH
-* add a `[versioneer]` section to your setup.cfg (see below)
-* run `versioneer install` in your source tree, commit the results
+Versioneer provides two installation modes. The "classic" vendored mode installs
+a copy of versioneer into your repository. The experimental build-time dependency mode
+is intended to allow you to skip this step and simplify the process of upgrading.
+
+### Vendored mode
+
+* `pip install versioneer` to somewhere in your $PATH
+   * A [conda-forge recipe](https://github.com/conda-forge/versioneer-feedstock) is
+     available, so you can also use `conda install -c conda-forge versioneer`
+* add a `[tool.versioneer]` section to your `pyproject.toml` or a
+  `[versioneer]` section to your `setup.cfg` (see [Install](INSTALL.md))
+   * Note that you will need to add `tomli; python_version < "3.11"` to your
+     build-time dependencies if you use `pyproject.toml`
+* run `versioneer install --vendor` in your source tree, commit the results
+* verify version information with `python setup.py version`
+
+### Build-time dependency mode
+
+* `pip install versioneer` to somewhere in your $PATH
+   * A [conda-forge recipe](https://github.com/conda-forge/versioneer-feedstock) is
+     available, so you can also use `conda install -c conda-forge versioneer`
+* add a `[tool.versioneer]` section to your `pyproject.toml` or a
+  `[versioneer]` section to your `setup.cfg` (see [Install](INSTALL.md))
+* add `versioneer` (with `[toml]` extra, if configuring in `pyproject.toml`)
+  to the `requires` key of the `build-system` table in `pyproject.toml`:
+  ```toml
+  [build-system]
+  requires = ["setuptools", "versioneer[toml]"]
+  build-backend = "setuptools.build_meta"
+  ```
+* run `versioneer install --no-vendor` in your source tree, commit the results
+* verify version information with `python setup.py version`
 
 ## Version Identifiers
 
@@ -61,7 +86,7 @@
 for example `git describe --tags --dirty --always` reports things like
 "0.7-1-g574ab98-dirty" to indicate that the checkout is one revision past the
 0.7 tag, has a unique revision id of "574ab98", and is "dirty" (it has
-uncommitted changes.
+uncommitted changes).
 
 The version identifier is used for multiple purposes:
 
@@ -166,7 +191,7 @@
 
 Some situations are known to cause problems for Versioneer. This details the
 most significant ones. More can be found on Github
-[issues page](https://github.com/warner/python-versioneer/issues).
+[issues page](https://github.com/python-versioneer/python-versioneer/issues).
 
 ### Subprojects
 
@@ -180,7 +205,7 @@
   `setup.cfg`, and `tox.ini`. Projects like these produce multiple PyPI
   distributions (and upload multiple independently-installable tarballs).
 * Source trees whose main purpose is to contain a C library, but which also
-  provide bindings to Python (and perhaps other langauges) in subdirectories.
+  provide bindings to Python (and perhaps other languages) in subdirectories.
 
 Versioneer will look for `.git` in parent directories, and most operations
 should get the right version string. However `pip` and `setuptools` have bugs
@@ -194,9 +219,9 @@
 Pip-8.1.1 is known to have this problem, but hopefully it will get fixed in
 some later version.
 
-[Bug #38](https://github.com/warner/python-versioneer/issues/38) is tracking
+[Bug #38](https://github.com/python-versioneer/python-versioneer/issues/38) is tracking
 this issue. The discussion in
-[PR #61](https://github.com/warner/python-versioneer/pull/61) describes the
+[PR #61](https://github.com/python-versioneer/python-versioneer/pull/61) describes the
 issue from the Versioneer side in more detail.
 [pip PR#3176](https://github.com/pypa/pip/pull/3176) and
 [pip PR#3615](https://github.com/pypa/pip/pull/3615) contain work to improve
@@ -224,31 +249,20 @@
 cause egg_info to be rebuilt (including `sdist`, `wheel`, and installing into
 a different virtualenv), so this can be surprising.
 
-[Bug #83](https://github.com/warner/python-versioneer/issues/83) describes
+[Bug #83](https://github.com/python-versioneer/python-versioneer/issues/83) describes
 this one, but upgrading to a newer version of setuptools should probably
 resolve it.
 
-### Unicode version strings
-
-While Versioneer works (and is continually tested) with both Python 2 and
-Python 3, it is not entirely consistent with bytes-vs-unicode distinctions.
-Newer releases probably generate unicode version strings on py2. It's not
-clear that this is wrong, but it may be surprising for applications when then
-write these strings to a network connection or include them in bytes-oriented
-APIs like cryptographic checksums.
-
-[Bug #71](https://github.com/warner/python-versioneer/issues/71) investigates
-this question.
-
 
 ## Updating Versioneer
 
 To upgrade your project to a new release of Versioneer, do the following:
 
 * install the new Versioneer (`pip install -U versioneer` or equivalent)
-* edit `setup.cfg`, if necessary, to include any new configuration settings
-  indicated by the release notes. See [UPGRADING](./UPGRADING.md) for details.
-* re-run `versioneer install` in your source tree, to replace
+* edit `setup.cfg` and `pyproject.toml`, if necessary,
+  to include any new configuration settings indicated by the release notes.
+  See [UPGRADING](./UPGRADING.md) for details.
+* re-run `versioneer install --[no-]vendor` in your source tree, to replace
   `SRC/_version.py`
 * commit any changed files
 
@@ -265,35 +279,70 @@
 direction and include code from all supported VCS systems, reducing the
 number of intermediate scripts.
 
+## Similar projects
+
+* [setuptools_scm](https://github.com/pypa/setuptools_scm/) - a non-vendored build-time
+  dependency
+* [minver](https://github.com/jbweston/miniver) - a lightweight reimplementation of
+  versioneer
+* [versioningit](https://github.com/jwodder/versioningit) - a PEP 518-based setuptools
+  plugin
 
 ## License
 
 To make Versioneer easier to embed, all its code is dedicated to the public
 domain. The `_version.py` that it creates is also in the public domain.
-Specifically, both are released under the Creative Commons "Public Domain
-Dedication" license (CC0-1.0), as described in
-https://creativecommons.org/publicdomain/zero/1.0/ .
+Specifically, both are released under the "Unlicense", as described in
+https://unlicense.org/.
+
+[pypi-image]: https://img.shields.io/pypi/v/versioneer.svg
+[pypi-url]: https://pypi.python.org/pypi/versioneer/
+[travis-image]:
+https://img.shields.io/travis/com/python-versioneer/python-versioneer.svg
+[travis-url]: https://travis-ci.com/github/python-versioneer/python-versioneer
 
 """
+# pylint:disable=invalid-name,import-outside-toplevel,missing-function-docstring
+# pylint:disable=missing-class-docstring,too-many-branches,too-many-statements
+# pylint:disable=raise-missing-from,too-many-lines,too-many-locals,import-error
+# pylint:disable=too-few-public-methods,redefined-outer-name,consider-using-with
+# pylint:disable=attribute-defined-outside-init,too-many-arguments
 
-from __future__ import print_function
-try:
-    import configparser
-except ImportError:
-    import ConfigParser as configparser
+import configparser
 import errno
 import json
 import os
 import re
 import subprocess
 import sys
+from pathlib import Path
+from typing import Any, Callable, cast, Dict, List, Optional, Tuple, Union
+from typing import NoReturn
+import functools
+
+have_tomllib = True
+if sys.version_info >= (3, 11):
+    import tomllib
+else:
+    try:
+        import tomli as tomllib
+    except ImportError:
+        have_tomllib = False
 
 
 class VersioneerConfig:
     """Container for Versioneer configuration parameters."""
 
+    VCS: str
+    style: str
+    tag_prefix: str
+    versionfile_source: str
+    versionfile_build: Optional[str]
+    parentdir_prefix: Optional[str]
+    verbose: Optional[bool]
+
 
-def get_root():
+def get_root() -> str:
     """Get the project root directory.
 
     We require that all commands are run from the project root, i.e. the
@@ -301,13 +350,23 @@ def get_root():
     """
     root = os.path.realpath(os.path.abspath(os.getcwd()))
     setup_py = os.path.join(root, "setup.py")
+    pyproject_toml = os.path.join(root, "pyproject.toml")
     versioneer_py = os.path.join(root, "versioneer.py")
-    if not (os.path.exists(setup_py) or os.path.exists(versioneer_py)):
+    if not (
+        os.path.exists(setup_py)
+        or os.path.exists(pyproject_toml)
+        or os.path.exists(versioneer_py)
+    ):
         # allow 'python path/to/setup.py COMMAND'
         root = os.path.dirname(os.path.realpath(os.path.abspath(sys.argv[0])))
         setup_py = os.path.join(root, "setup.py")
+        pyproject_toml = os.path.join(root, "pyproject.toml")
         versioneer_py = os.path.join(root, "versioneer.py")
-    if not (os.path.exists(setup_py) or os.path.exists(versioneer_py)):
+    if not (
+        os.path.exists(setup_py)
+        or os.path.exists(pyproject_toml)
+        or os.path.exists(versioneer_py)
+    ):
         err = ("Versioneer was unable to run the project root directory. "
                "Versioneer requires setup.py to be executed from "
                "its immediate directory (like 'python setup.py COMMAND'), "
@@ -321,43 +380,62 @@ def get_root():
         # module-import table will cache the first one. So we can't use
         # os.path.dirname(__file__), as that will find whichever
         # versioneer.py was first imported, even in later projects.
-        me = os.path.realpath(os.path.abspath(__file__))
-        me_dir = os.path.normcase(os.path.splitext(me)[0])
+        my_path = os.path.realpath(os.path.abspath(__file__))
+        me_dir = os.path.normcase(os.path.splitext(my_path)[0])
         vsr_dir = os.path.normcase(os.path.splitext(versioneer_py)[0])
-        if me_dir != vsr_dir:
+        if me_dir != vsr_dir and "VERSIONEER_PEP518" not in globals():
             print("Warning: build in %s is using versioneer.py from %s"
-                  % (os.path.dirname(me), versioneer_py))
+                  % (os.path.dirname(my_path), versioneer_py))
     except NameError:
         pass
     return root
 
 
-def get_config_from_root(root):
+def get_config_from_root(root: str) -> VersioneerConfig:
     """Read the project setup.cfg file to determine Versioneer config."""
-    # This might raise EnvironmentError (if setup.cfg is missing), or
+    # This might raise OSError (if setup.cfg is missing), or
     # configparser.NoSectionError (if it lacks a [versioneer] section), or
     # configparser.NoOptionError (if it lacks "VCS="). See the docstring at
     # the top of versioneer.py for instructions on writing your setup.cfg .
-    setup_cfg = os.path.join(root, "setup.cfg")
-    parser = configparser.SafeConfigParser()
-    with open(setup_cfg, "r") as f:
-        parser.readfp(f)
-    VCS = parser.get("versioneer", "VCS")  # mandatory
-
-    def get(parser, name):
-        if parser.has_option("versioneer", name):
-            return parser.get("versioneer", name)
-        return None
+    root_pth = Path(root)
+    pyproject_toml = root_pth / "pyproject.toml"
+    setup_cfg = root_pth / "setup.cfg"
+    section: Union[Dict[str, Any], configparser.SectionProxy, None] = None
+    if pyproject_toml.exists() and have_tomllib:
+        try:
+            with open(pyproject_toml, 'rb') as fobj:
+                pp = tomllib.load(fobj)
+            section = pp['tool']['versioneer']
+        except (tomllib.TOMLDecodeError, KeyError) as e:
+            print(f"Failed to load config from {pyproject_toml}: {e}")
+            print("Try to load it from setup.cfg")
+    if not section:
+        parser = configparser.ConfigParser()
+        with open(setup_cfg) as cfg_file:
+            parser.read_file(cfg_file)
+        parser.get("versioneer", "VCS")  # raise error if missing
+
+        section = parser["versioneer"]
+
+    # `cast`` really shouldn't be used, but its simplest for the
+    # common VersioneerConfig users at the moment. We verify against
+    # `None` values elsewhere where it matters
+
     cfg = VersioneerConfig()
-    cfg.VCS = VCS
-    cfg.style = get(parser, "style") or ""
-    cfg.versionfile_source = get(parser, "versionfile_source")
-    cfg.versionfile_build = get(parser, "versionfile_build")
-    cfg.tag_prefix = get(parser, "tag_prefix")
-    if cfg.tag_prefix in ("''", '""'):
+    cfg.VCS = section['VCS']
+    cfg.style = section.get("style", "")
+    cfg.versionfile_source = cast(str, section.get("versionfile_source"))
+    cfg.versionfile_build = section.get("versionfile_build")
+    cfg.tag_prefix = cast(str, section.get("tag_prefix"))
+    if cfg.tag_prefix in ("''", '""', None):
         cfg.tag_prefix = ""
-    cfg.parentdir_prefix = get(parser, "parentdir_prefix")
-    cfg.verbose = get(parser, "verbose")
+    cfg.parentdir_prefix = section.get("parentdir_prefix")
+    if isinstance(section, configparser.SectionProxy):
+        # Make sure configparser translates to bool
+        cfg.verbose = section.getboolean("verbose")
+    else:
+        cfg.verbose = section.get("verbose")
+
     return cfg
 
 
@@ -366,37 +444,48 @@ class NotThisMethod(Exception):
 
 
 # these dictionaries contain VCS-specific tools
-LONG_VERSION_PY = {}
-HANDLERS = {}
+LONG_VERSION_PY: Dict[str, str] = {}
+HANDLERS: Dict[str, Dict[str, Callable]] = {}
 
 
-def register_vcs_handler(vcs, method):  # decorator
-    """Decorator to mark a method as the handler for a particular VCS."""
-    def decorate(f):
+def register_vcs_handler(vcs: str, method: str) -> Callable:  # decorator
+    """Create decorator to mark a method as the handler of a VCS."""
+    def decorate(f: Callable) -> Callable:
         """Store f in HANDLERS[vcs][method]."""
-        if vcs not in HANDLERS:
-            HANDLERS[vcs] = {}
-        HANDLERS[vcs][method] = f
+        HANDLERS.setdefault(vcs, {})[method] = f
         return f
     return decorate
 
 
-def run_command(commands, args, cwd=None, verbose=False, hide_stderr=False,
-                env=None):
+def run_command(
+    commands: List[str],
+    args: List[str],
+    cwd: Optional[str] = None,
+    verbose: bool = False,
+    hide_stderr: bool = False,
+    env: Optional[Dict[str, str]] = None,
+) -> Tuple[Optional[str], Optional[int]]:
     """Call the given command(s)."""
     assert isinstance(commands, list)
-    p = None
-    for c in commands:
+    process = None
+
+    popen_kwargs: Dict[str, Any] = {}
+    if sys.platform == "win32":
+        # This hides the console window if pythonw.exe is used
+        startupinfo = subprocess.STARTUPINFO()
+        startupinfo.dwFlags |= subprocess.STARTF_USESHOWWINDOW
+        popen_kwargs["startupinfo"] = startupinfo
+
+    for command in commands:
         try:
-            dispcmd = str([c] + args)
+            dispcmd = str([command] + args)
             # remember shell=False, so use git.cmd on windows, not just git
-            p = subprocess.Popen([c] + args, cwd=cwd, env=env,
-                                 stdout=subprocess.PIPE,
-                                 stderr=(subprocess.PIPE if hide_stderr
-                                         else None))
+            process = subprocess.Popen([command] + args, cwd=cwd, env=env,
+                                       stdout=subprocess.PIPE,
+                                       stderr=(subprocess.PIPE if hide_stderr
+                                               else None), **popen_kwargs)
             break
-        except EnvironmentError:
-            e = sys.exc_info()[1]
+        except OSError as e:
             if e.errno == errno.ENOENT:
                 continue
             if verbose:
@@ -407,26 +496,25 @@ def run_command(commands, args, cwd=None, verbose=False, hide_stderr=False,
         if verbose:
             print("unable to find command, tried %s" % (commands,))
         return None, None
-    stdout = p.communicate()[0].strip()
-    if sys.version_info[0] >= 3:
-        stdout = stdout.decode()
-    if p.returncode != 0:
+    stdout = process.communicate()[0].strip().decode()
+    if process.returncode != 0:
         if verbose:
             print("unable to run %s (error)" % dispcmd)
             print("stdout was %s" % stdout)
-        return None, p.returncode
-    return stdout, p.returncode
+        return None, process.returncode
+    return stdout, process.returncode
 
 
-LONG_VERSION_PY['git'] = '''
+LONG_VERSION_PY['git'] = r'''
 # This file helps to compute a version number in source trees obtained from
 # git-archive tarball (such as those provided by githubs download-from-tag
 # feature). Distribution tarballs (built by setup.py sdist) and build
 # directories (produced by setup.py build) will contain a much shorter file
 # that just contains the computed version number.
 
-# This file is released into the public domain. Generated by
-# versioneer-0.18 (https://github.com/warner/python-versioneer)
+# This file is released into the public domain.
+# Generated by versioneer-0.29
+# https://github.com/python-versioneer/python-versioneer
 
 """Git implementation of _version.py."""
 
@@ -435,9 +523,11 @@ def run_command(commands, args, cwd=None, verbose=False, hide_stderr=False,
 import re
 import subprocess
 import sys
+from typing import Any, Callable, Dict, List, Optional, Tuple
+import functools
 
 
-def get_keywords():
+def get_keywords() -> Dict[str, str]:
     """Get the keywords needed to look up the version information."""
     # these strings will be replaced by git during git-archive.
     # setup.py/versioneer.py will grep for the variable names, so they must
@@ -453,8 +543,15 @@ def get_keywords():
 class VersioneerConfig:
     """Container for Versioneer configuration parameters."""
 
+    VCS: str
+    style: str
+    tag_prefix: str
+    parentdir_prefix: str
+    versionfile_source: str
+    verbose: bool
+
 
-def get_config():
+def get_config() -> VersioneerConfig:
     """Create, populate and return the VersioneerConfig() object."""
     # these strings are filled in when 'setup.py versioneer' creates
     # _version.py
@@ -472,13 +569,13 @@ class NotThisMethod(Exception):
     """Exception raised if a method is not valid for the current scenario."""
 
 
-LONG_VERSION_PY = {}
-HANDLERS = {}
+LONG_VERSION_PY: Dict[str, str] = {}
+HANDLERS: Dict[str, Dict[str, Callable]] = {}
 
 
-def register_vcs_handler(vcs, method):  # decorator
-    """Decorator to mark a method as the handler for a particular VCS."""
-    def decorate(f):
+def register_vcs_handler(vcs: str, method: str) -> Callable:  # decorator
+    """Create decorator to mark a method as the handler of a VCS."""
+    def decorate(f: Callable) -> Callable:
         """Store f in HANDLERS[vcs][method]."""
         if vcs not in HANDLERS:
             HANDLERS[vcs] = {}
@@ -487,22 +584,35 @@ def decorate(f):
     return decorate
 
 
-def run_command(commands, args, cwd=None, verbose=False, hide_stderr=False,
-                env=None):
+def run_command(
+    commands: List[str],
+    args: List[str],
+    cwd: Optional[str] = None,
+    verbose: bool = False,
+    hide_stderr: bool = False,
+    env: Optional[Dict[str, str]] = None,
+) -> Tuple[Optional[str], Optional[int]]:
     """Call the given command(s)."""
     assert isinstance(commands, list)
-    p = None
-    for c in commands:
+    process = None
+
+    popen_kwargs: Dict[str, Any] = {}
+    if sys.platform == "win32":
+        # This hides the console window if pythonw.exe is used
+        startupinfo = subprocess.STARTUPINFO()
+        startupinfo.dwFlags |= subprocess.STARTF_USESHOWWINDOW
+        popen_kwargs["startupinfo"] = startupinfo
+
+    for command in commands:
         try:
-            dispcmd = str([c] + args)
+            dispcmd = str([command] + args)
             # remember shell=False, so use git.cmd on windows, not just git
-            p = subprocess.Popen([c] + args, cwd=cwd, env=env,
-                                 stdout=subprocess.PIPE,
-                                 stderr=(subprocess.PIPE if hide_stderr
-                                         else None))
+            process = subprocess.Popen([command] + args, cwd=cwd, env=env,
+                                       stdout=subprocess.PIPE,
+                                       stderr=(subprocess.PIPE if hide_stderr
+                                               else None), **popen_kwargs)
             break
-        except EnvironmentError:
-            e = sys.exc_info()[1]
+        except OSError as e:
             if e.errno == errno.ENOENT:
                 continue
             if verbose:
@@ -513,18 +623,20 @@ def run_command(commands, args, cwd=None, verbose=False, hide_stderr=False,
         if verbose:
             print("unable to find command, tried %%s" %% (commands,))
         return None, None
-    stdout = p.communicate()[0].strip()
-    if sys.version_info[0] >= 3:
-        stdout = stdout.decode()
-    if p.returncode != 0:
+    stdout = process.communicate()[0].strip().decode()
+    if process.returncode != 0:
         if verbose:
             print("unable to run %%s (error)" %% dispcmd)
             print("stdout was %%s" %% stdout)
-        return None, p.returncode
-    return stdout, p.returncode
+        return None, process.returncode
+    return stdout, process.returncode
 
 
-def versions_from_parentdir(parentdir_prefix, root, verbose):
+def versions_from_parentdir(
+    parentdir_prefix: str,
+    root: str,
+    verbose: bool,
+) -> Dict[str, Any]:
     """Try to determine the version from the parent directory name.
 
     Source tarballs conventionally unpack into a directory that includes both
@@ -533,15 +645,14 @@ def versions_from_parentdir(parentdir_prefix, root, verbose):
     """
     rootdirs = []
 
-    for i in range(3):
+    for _ in range(3):
         dirname = os.path.basename(root)
         if dirname.startswith(parentdir_prefix):
             return {"version": dirname[len(parentdir_prefix):],
                     "full-revisionid": None,
                     "dirty": False, "error": None, "date": None}
-        else:
-            rootdirs.append(root)
-            root = os.path.dirname(root)  # up a level
+        rootdirs.append(root)
+        root = os.path.dirname(root)  # up a level
 
     if verbose:
         print("Tried directories %%s but none started with prefix %%s" %%
@@ -550,41 +661,48 @@ def versions_from_parentdir(parentdir_prefix, root, verbose):
 
 
 @register_vcs_handler("git", "get_keywords")
-def git_get_keywords(versionfile_abs):
+def git_get_keywords(versionfile_abs: str) -> Dict[str, str]:
     """Extract version information from the given file."""
     # the code embedded in _version.py can just fetch the value of these
     # keywords. When used from setup.py, we don't want to import _version.py,
     # so we do it with a regexp instead. This function is not used from
     # _version.py.
-    keywords = {}
+    keywords: Dict[str, str] = {}
     try:
-        f = open(versionfile_abs, "r")
-        for line in f.readlines():
-            if line.strip().startswith("git_refnames ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["refnames"] = mo.group(1)
-            if line.strip().startswith("git_full ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["full"] = mo.group(1)
-            if line.strip().startswith("git_date ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["date"] = mo.group(1)
-        f.close()
-    except EnvironmentError:
+        with open(versionfile_abs, "r") as fobj:
+            for line in fobj:
+                if line.strip().startswith("git_refnames ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["refnames"] = mo.group(1)
+                if line.strip().startswith("git_full ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["full"] = mo.group(1)
+                if line.strip().startswith("git_date ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["date"] = mo.group(1)
+    except OSError:
         pass
     return keywords
 
 
 @register_vcs_handler("git", "keywords")
-def git_versions_from_keywords(keywords, tag_prefix, verbose):
+def git_versions_from_keywords(
+    keywords: Dict[str, str],
+    tag_prefix: str,
+    verbose: bool,
+) -> Dict[str, Any]:
     """Get version information from git keywords."""
-    if not keywords:
-        raise NotThisMethod("no keywords at all, weird")
+    if "refnames" not in keywords:
+        raise NotThisMethod("Short version file found")
     date = keywords.get("date")
     if date is not None:
+        # Use only the last line.  Previous lines may contain GPG signature
+        # information.
+        date = date.splitlines()[-1]
+
         # git-2.2.0 added "%%cI", which expands to an ISO-8601 -compliant
         # datestamp. However we prefer "%%ci" (which expands to an "ISO-8601
         # -like" string, which we must then edit to make compliant), because
@@ -597,11 +715,11 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         if verbose:
             print("keywords are unexpanded, not using")
         raise NotThisMethod("unexpanded keywords, not a git-archive tarball")
-    refs = set([r.strip() for r in refnames.strip("()").split(",")])
+    refs = {r.strip() for r in refnames.strip("()").split(",")}
     # starting in git-1.8.3, tags are listed as "tag: foo-1.0" instead of
     # just "foo-1.0". If we see a "tag: " prefix, prefer those.
     TAG = "tag: "
-    tags = set([r[len(TAG):] for r in refs if r.startswith(TAG)])
+    tags = {r[len(TAG):] for r in refs if r.startswith(TAG)}
     if not tags:
         # Either we're using git < 1.8.3, or there really are no tags. We use
         # a heuristic: assume all version tags have a digit. The old git %%d
@@ -610,7 +728,7 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         # between branches and tags. By ignoring refnames without digits, we
         # filter out many common branch names like "release" and
         # "stabilization", as well as "HEAD" and "master".
-        tags = set([r for r in refs if re.search(r'\d', r)])
+        tags = {r for r in refs if re.search(r'\d', r)}
         if verbose:
             print("discarding '%%s', no digits" %% ",".join(refs - tags))
     if verbose:
@@ -619,6 +737,11 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         # sorting will prefer e.g. "2.0" over "2.0rc1"
         if ref.startswith(tag_prefix):
             r = ref[len(tag_prefix):]
+            # Filter out refs that exactly match prefix or that don't start
+            # with a number once the prefix is stripped (mostly a concern
+            # when prefix is '')
+            if not re.match(r'\d', r):
+                continue
             if verbose:
                 print("picking %%s" %% r)
             return {"version": r,
@@ -634,7 +757,12 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
 
 
 @register_vcs_handler("git", "pieces_from_vcs")
-def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
+def git_pieces_from_vcs(
+    tag_prefix: str,
+    root: str,
+    verbose: bool,
+    runner: Callable = run_command
+) -> Dict[str, Any]:
     """Get version from 'git describe' in the root of the source tree.
 
     This only gets called if the git-archive 'subst' keywords were *not*
@@ -645,8 +773,15 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
     if sys.platform == "win32":
         GITS = ["git.cmd", "git.exe"]
 
-    out, rc = run_command(GITS, ["rev-parse", "--git-dir"], cwd=root,
-                          hide_stderr=True)
+    # GIT_DIR can interfere with correct operation of Versioneer.
+    # It may be intended to be passed to the Versioneer-versioned project,
+    # but that should not change where we get our version from.
+    env = os.environ.copy()
+    env.pop("GIT_DIR", None)
+    runner = functools.partial(runner, env=env)
+
+    _, rc = runner(GITS, ["rev-parse", "--git-dir"], cwd=root,
+                   hide_stderr=not verbose)
     if rc != 0:
         if verbose:
             print("Directory %%s not under git control" %% root)
@@ -654,24 +789,57 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
 
     # if there is a tag matching tag_prefix, this yields TAG-NUM-gHEX[-dirty]
     # if there isn't one, this yields HEX[-dirty] (no NUM)
-    describe_out, rc = run_command(GITS, ["describe", "--tags", "--dirty",
-                                          "--always", "--long",
-                                          "--match", "%%s*" %% tag_prefix],
-                                   cwd=root)
+    describe_out, rc = runner(GITS, [
+        "describe", "--tags", "--dirty", "--always", "--long",
+        "--match", f"{tag_prefix}[[:digit:]]*"
+    ], cwd=root)
     # --long was added in git-1.5.5
     if describe_out is None:
         raise NotThisMethod("'git describe' failed")
     describe_out = describe_out.strip()
-    full_out, rc = run_command(GITS, ["rev-parse", "HEAD"], cwd=root)
+    full_out, rc = runner(GITS, ["rev-parse", "HEAD"], cwd=root)
     if full_out is None:
         raise NotThisMethod("'git rev-parse' failed")
     full_out = full_out.strip()
 
-    pieces = {}
+    pieces: Dict[str, Any] = {}
     pieces["long"] = full_out
     pieces["short"] = full_out[:7]  # maybe improved later
     pieces["error"] = None
 
+    branch_name, rc = runner(GITS, ["rev-parse", "--abbrev-ref", "HEAD"],
+                             cwd=root)
+    # --abbrev-ref was added in git-1.6.3
+    if rc != 0 or branch_name is None:
+        raise NotThisMethod("'git rev-parse --abbrev-ref' returned error")
+    branch_name = branch_name.strip()
+
+    if branch_name == "HEAD":
+        # If we aren't exactly on a branch, pick a branch which represents
+        # the current commit. If all else fails, we are on a branchless
+        # commit.
+        branches, rc = runner(GITS, ["branch", "--contains"], cwd=root)
+        # --contains was added in git-1.5.4
+        if rc != 0 or branches is None:
+            raise NotThisMethod("'git branch --contains' returned error")
+        branches = branches.split("\n")
+
+        # Remove the first line if we're running detached
+        if "(" in branches[0]:
+            branches.pop(0)
+
+        # Strip off the leading "* " from the list of branches.
+        branches = [branch[2:] for branch in branches]
+        if "master" in branches:
+            branch_name = "master"
+        elif not branches:
+            branch_name = None
+        else:
+            # Pick the first branch that is returned. Good or bad.
+            branch_name = branches[0]
+
+    pieces["branch"] = branch_name
+
     # parse describe_out. It will be like TAG-NUM-gHEX[-dirty] or HEX[-dirty]
     # TAG might have hyphens.
     git_describe = describe_out
@@ -688,7 +856,7 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
         # TAG-NUM-gHEX
         mo = re.search(r'^(.+)-(\d+)-g([0-9a-f]+)$', git_describe)
         if not mo:
-            # unparseable. Maybe git-describe is misbehaving?
+            # unparsable. Maybe git-describe is misbehaving?
             pieces["error"] = ("unable to parse git-describe output: '%%s'"
                                %% describe_out)
             return pieces
@@ -713,26 +881,27 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
     else:
         # HEX: no tags
         pieces["closest-tag"] = None
-        count_out, rc = run_command(GITS, ["rev-list", "HEAD", "--count"],
-                                    cwd=root)
-        pieces["distance"] = int(count_out)  # total number of commits
+        out, rc = runner(GITS, ["rev-list", "HEAD", "--left-right"], cwd=root)
+        pieces["distance"] = len(out.split())  # total number of commits
 
     # commit date: see ISO-8601 comment in git_versions_from_keywords()
-    date = run_command(GITS, ["show", "-s", "--format=%%ci", "HEAD"],
-                       cwd=root)[0].strip()
+    date = runner(GITS, ["show", "-s", "--format=%%ci", "HEAD"], cwd=root)[0].strip()
+    # Use only the last line.  Previous lines may contain GPG signature
+    # information.
+    date = date.splitlines()[-1]
     pieces["date"] = date.strip().replace(" ", "T", 1).replace(" ", "", 1)
 
     return pieces
 
 
-def plus_or_dot(pieces):
+def plus_or_dot(pieces: Dict[str, Any]) -> str:
     """Return a + if we don't already have one, else return a ."""
     if "+" in pieces.get("closest-tag", ""):
         return "."
     return "+"
 
 
-def render_pep440(pieces):
+def render_pep440(pieces: Dict[str, Any]) -> str:
     """Build up version string, with post-release "local version identifier".
 
     Our goal: TAG[+DISTANCE.gHEX[.dirty]] . Note that if you
@@ -757,23 +926,71 @@ def render_pep440(pieces):
     return rendered
 
 
-def render_pep440_pre(pieces):
-    """TAG[.post.devDISTANCE] -- No -dirty.
+def render_pep440_branch(pieces: Dict[str, Any]) -> str:
+    """TAG[[.dev0]+DISTANCE.gHEX[.dirty]] .
+
+    The ".dev0" means not master branch. Note that .dev0 sorts backwards
+    (a feature branch will appear "older" than the master branch).
 
     Exceptions:
-    1: no tags. 0.post.devDISTANCE
+    1: no tags. 0[.dev0]+untagged.DISTANCE.gHEX[.dirty]
     """
     if pieces["closest-tag"]:
         rendered = pieces["closest-tag"]
+        if pieces["distance"] or pieces["dirty"]:
+            if pieces["branch"] != "master":
+                rendered += ".dev0"
+            rendered += plus_or_dot(pieces)
+            rendered += "%%d.g%%s" %% (pieces["distance"], pieces["short"])
+            if pieces["dirty"]:
+                rendered += ".dirty"
+    else:
+        # exception #1
+        rendered = "0"
+        if pieces["branch"] != "master":
+            rendered += ".dev0"
+        rendered += "+untagged.%%d.g%%s" %% (pieces["distance"],
+                                          pieces["short"])
+        if pieces["dirty"]:
+            rendered += ".dirty"
+    return rendered
+
+
+def pep440_split_post(ver: str) -> Tuple[str, Optional[int]]:
+    """Split pep440 version string at the post-release segment.
+
+    Returns the release segments before the post-release and the
+    post-release version number (or -1 if no post-release segment is present).
+    """
+    vc = str.split(ver, ".post")
+    return vc[0], int(vc[1] or 0) if len(vc) == 2 else None
+
+
+def render_pep440_pre(pieces: Dict[str, Any]) -> str:
+    """TAG[.postN.devDISTANCE] -- No -dirty.
+
+    Exceptions:
+    1: no tags. 0.post0.devDISTANCE
+    """
+    if pieces["closest-tag"]:
         if pieces["distance"]:
-            rendered += ".post.dev%%d" %% pieces["distance"]
+            # update the post release segment
+            tag_version, post_version = pep440_split_post(pieces["closest-tag"])
+            rendered = tag_version
+            if post_version is not None:
+                rendered += ".post%%d.dev%%d" %% (post_version + 1, pieces["distance"])
+            else:
+                rendered += ".post0.dev%%d" %% (pieces["distance"])
+        else:
+            # no commits, use the tag as the version
+            rendered = pieces["closest-tag"]
     else:
         # exception #1
-        rendered = "0.post.dev%%d" %% pieces["distance"]
+        rendered = "0.post0.dev%%d" %% pieces["distance"]
     return rendered
 
 
-def render_pep440_post(pieces):
+def render_pep440_post(pieces: Dict[str, Any]) -> str:
     """TAG[.postDISTANCE[.dev0]+gHEX] .
 
     The ".dev0" means dirty. Note that .dev0 sorts backwards
@@ -800,12 +1017,41 @@ def render_pep440_post(pieces):
     return rendered
 
 
-def render_pep440_old(pieces):
+def render_pep440_post_branch(pieces: Dict[str, Any]) -> str:
+    """TAG[.postDISTANCE[.dev0]+gHEX[.dirty]] .
+
+    The ".dev0" means not master branch.
+
+    Exceptions:
+    1: no tags. 0.postDISTANCE[.dev0]+gHEX[.dirty]
+    """
+    if pieces["closest-tag"]:
+        rendered = pieces["closest-tag"]
+        if pieces["distance"] or pieces["dirty"]:
+            rendered += ".post%%d" %% pieces["distance"]
+            if pieces["branch"] != "master":
+                rendered += ".dev0"
+            rendered += plus_or_dot(pieces)
+            rendered += "g%%s" %% pieces["short"]
+            if pieces["dirty"]:
+                rendered += ".dirty"
+    else:
+        # exception #1
+        rendered = "0.post%%d" %% pieces["distance"]
+        if pieces["branch"] != "master":
+            rendered += ".dev0"
+        rendered += "+g%%s" %% pieces["short"]
+        if pieces["dirty"]:
+            rendered += ".dirty"
+    return rendered
+
+
+def render_pep440_old(pieces: Dict[str, Any]) -> str:
     """TAG[.postDISTANCE[.dev0]] .
 
     The ".dev0" means dirty.
 
-    Eexceptions:
+    Exceptions:
     1: no tags. 0.postDISTANCE[.dev0]
     """
     if pieces["closest-tag"]:
@@ -822,7 +1068,7 @@ def render_pep440_old(pieces):
     return rendered
 
 
-def render_git_describe(pieces):
+def render_git_describe(pieces: Dict[str, Any]) -> str:
     """TAG[-DISTANCE-gHEX][-dirty].
 
     Like 'git describe --tags --dirty --always'.
@@ -842,7 +1088,7 @@ def render_git_describe(pieces):
     return rendered
 
 
-def render_git_describe_long(pieces):
+def render_git_describe_long(pieces: Dict[str, Any]) -> str:
     """TAG-DISTANCE-gHEX[-dirty].
 
     Like 'git describe --tags --dirty --always -long'.
@@ -862,7 +1108,7 @@ def render_git_describe_long(pieces):
     return rendered
 
 
-def render(pieces, style):
+def render(pieces: Dict[str, Any], style: str) -> Dict[str, Any]:
     """Render the given version pieces into the requested style."""
     if pieces["error"]:
         return {"version": "unknown",
@@ -876,10 +1122,14 @@ def render(pieces, style):
 
     if style == "pep440":
         rendered = render_pep440(pieces)
+    elif style == "pep440-branch":
+        rendered = render_pep440_branch(pieces)
     elif style == "pep440-pre":
         rendered = render_pep440_pre(pieces)
     elif style == "pep440-post":
         rendered = render_pep440_post(pieces)
+    elif style == "pep440-post-branch":
+        rendered = render_pep440_post_branch(pieces)
     elif style == "pep440-old":
         rendered = render_pep440_old(pieces)
     elif style == "git-describe":
@@ -894,7 +1144,7 @@ def render(pieces, style):
             "date": pieces.get("date")}
 
 
-def get_versions():
+def get_versions() -> Dict[str, Any]:
     """Get version information or return default if unable to do so."""
     # I am in _version.py, which lives at ROOT/VERSIONFILE_SOURCE. If we have
     # __file__, we can work backwards from there to the root. Some
@@ -915,7 +1165,7 @@ def get_versions():
         # versionfile_source is the relative path from the top of the source
         # tree (where the .git directory might live) to this file. Invert
         # this to find the root from __file__.
-        for i in cfg.versionfile_source.split('/'):
+        for _ in cfg.versionfile_source.split('/'):
             root = os.path.dirname(root)
     except NameError:
         return {"version": "0+unknown", "full-revisionid": None,
@@ -942,41 +1192,48 @@ def get_versions():
 
 
 @register_vcs_handler("git", "get_keywords")
-def git_get_keywords(versionfile_abs):
+def git_get_keywords(versionfile_abs: str) -> Dict[str, str]:
     """Extract version information from the given file."""
     # the code embedded in _version.py can just fetch the value of these
     # keywords. When used from setup.py, we don't want to import _version.py,
     # so we do it with a regexp instead. This function is not used from
     # _version.py.
-    keywords = {}
+    keywords: Dict[str, str] = {}
     try:
-        f = open(versionfile_abs, "r")
-        for line in f.readlines():
-            if line.strip().startswith("git_refnames ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["refnames"] = mo.group(1)
-            if line.strip().startswith("git_full ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["full"] = mo.group(1)
-            if line.strip().startswith("git_date ="):
-                mo = re.search(r'=\s*"(.*)"', line)
-                if mo:
-                    keywords["date"] = mo.group(1)
-        f.close()
-    except EnvironmentError:
+        with open(versionfile_abs, "r") as fobj:
+            for line in fobj:
+                if line.strip().startswith("git_refnames ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["refnames"] = mo.group(1)
+                if line.strip().startswith("git_full ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["full"] = mo.group(1)
+                if line.strip().startswith("git_date ="):
+                    mo = re.search(r'=\s*"(.*)"', line)
+                    if mo:
+                        keywords["date"] = mo.group(1)
+    except OSError:
         pass
     return keywords
 
 
 @register_vcs_handler("git", "keywords")
-def git_versions_from_keywords(keywords, tag_prefix, verbose):
+def git_versions_from_keywords(
+    keywords: Dict[str, str],
+    tag_prefix: str,
+    verbose: bool,
+) -> Dict[str, Any]:
     """Get version information from git keywords."""
-    if not keywords:
-        raise NotThisMethod("no keywords at all, weird")
+    if "refnames" not in keywords:
+        raise NotThisMethod("Short version file found")
     date = keywords.get("date")
     if date is not None:
+        # Use only the last line.  Previous lines may contain GPG signature
+        # information.
+        date = date.splitlines()[-1]
+
         # git-2.2.0 added "%cI", which expands to an ISO-8601 -compliant
         # datestamp. However we prefer "%ci" (which expands to an "ISO-8601
         # -like" string, which we must then edit to make compliant), because
@@ -989,11 +1246,11 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         if verbose:
             print("keywords are unexpanded, not using")
         raise NotThisMethod("unexpanded keywords, not a git-archive tarball")
-    refs = set([r.strip() for r in refnames.strip("()").split(",")])
+    refs = {r.strip() for r in refnames.strip("()").split(",")}
     # starting in git-1.8.3, tags are listed as "tag: foo-1.0" instead of
     # just "foo-1.0". If we see a "tag: " prefix, prefer those.
     TAG = "tag: "
-    tags = set([r[len(TAG):] for r in refs if r.startswith(TAG)])
+    tags = {r[len(TAG):] for r in refs if r.startswith(TAG)}
     if not tags:
         # Either we're using git < 1.8.3, or there really are no tags. We use
         # a heuristic: assume all version tags have a digit. The old git %d
@@ -1002,7 +1259,7 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         # between branches and tags. By ignoring refnames without digits, we
         # filter out many common branch names like "release" and
         # "stabilization", as well as "HEAD" and "master".
-        tags = set([r for r in refs if re.search(r'\d', r)])
+        tags = {r for r in refs if re.search(r'\d', r)}
         if verbose:
             print("discarding '%s', no digits" % ",".join(refs - tags))
     if verbose:
@@ -1011,6 +1268,11 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
         # sorting will prefer e.g. "2.0" over "2.0rc1"
         if ref.startswith(tag_prefix):
             r = ref[len(tag_prefix):]
+            # Filter out refs that exactly match prefix or that don't start
+            # with a number once the prefix is stripped (mostly a concern
+            # when prefix is '')
+            if not re.match(r'\d', r):
+                continue
             if verbose:
                 print("picking %s" % r)
             return {"version": r,
@@ -1026,7 +1288,12 @@ def git_versions_from_keywords(keywords, tag_prefix, verbose):
 
 
 @register_vcs_handler("git", "pieces_from_vcs")
-def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
+def git_pieces_from_vcs(
+    tag_prefix: str,
+    root: str,
+    verbose: bool,
+    runner: Callable = run_command
+) -> Dict[str, Any]:
     """Get version from 'git describe' in the root of the source tree.
 
     This only gets called if the git-archive 'subst' keywords were *not*
@@ -1037,8 +1304,15 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
     if sys.platform == "win32":
         GITS = ["git.cmd", "git.exe"]
 
-    out, rc = run_command(GITS, ["rev-parse", "--git-dir"], cwd=root,
-                          hide_stderr=True)
+    # GIT_DIR can interfere with correct operation of Versioneer.
+    # It may be intended to be passed to the Versioneer-versioned project,
+    # but that should not change where we get our version from.
+    env = os.environ.copy()
+    env.pop("GIT_DIR", None)
+    runner = functools.partial(runner, env=env)
+
+    _, rc = runner(GITS, ["rev-parse", "--git-dir"], cwd=root,
+                   hide_stderr=not verbose)
     if rc != 0:
         if verbose:
             print("Directory %s not under git control" % root)
@@ -1046,24 +1320,57 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
 
     # if there is a tag matching tag_prefix, this yields TAG-NUM-gHEX[-dirty]
     # if there isn't one, this yields HEX[-dirty] (no NUM)
-    describe_out, rc = run_command(GITS, ["describe", "--tags", "--dirty",
-                                          "--always", "--long",
-                                          "--match", "%s*" % tag_prefix],
-                                   cwd=root)
+    describe_out, rc = runner(GITS, [
+        "describe", "--tags", "--dirty", "--always", "--long",
+        "--match", f"{tag_prefix}[[:digit:]]*"
+    ], cwd=root)
     # --long was added in git-1.5.5
     if describe_out is None:
         raise NotThisMethod("'git describe' failed")
     describe_out = describe_out.strip()
-    full_out, rc = run_command(GITS, ["rev-parse", "HEAD"], cwd=root)
+    full_out, rc = runner(GITS, ["rev-parse", "HEAD"], cwd=root)
     if full_out is None:
         raise NotThisMethod("'git rev-parse' failed")
     full_out = full_out.strip()
 
-    pieces = {}
+    pieces: Dict[str, Any] = {}
     pieces["long"] = full_out
     pieces["short"] = full_out[:7]  # maybe improved later
     pieces["error"] = None
 
+    branch_name, rc = runner(GITS, ["rev-parse", "--abbrev-ref", "HEAD"],
+                             cwd=root)
+    # --abbrev-ref was added in git-1.6.3
+    if rc != 0 or branch_name is None:
+        raise NotThisMethod("'git rev-parse --abbrev-ref' returned error")
+    branch_name = branch_name.strip()
+
+    if branch_name == "HEAD":
+        # If we aren't exactly on a branch, pick a branch which represents
+        # the current commit. If all else fails, we are on a branchless
+        # commit.
+        branches, rc = runner(GITS, ["branch", "--contains"], cwd=root)
+        # --contains was added in git-1.5.4
+        if rc != 0 or branches is None:
+            raise NotThisMethod("'git branch --contains' returned error")
+        branches = branches.split("\n")
+
+        # Remove the first line if we're running detached
+        if "(" in branches[0]:
+            branches.pop(0)
+
+        # Strip off the leading "* " from the list of branches.
+        branches = [branch[2:] for branch in branches]
+        if "master" in branches:
+            branch_name = "master"
+        elif not branches:
+            branch_name = None
+        else:
+            # Pick the first branch that is returned. Good or bad.
+            branch_name = branches[0]
+
+    pieces["branch"] = branch_name
+
     # parse describe_out. It will be like TAG-NUM-gHEX[-dirty] or HEX[-dirty]
     # TAG might have hyphens.
     git_describe = describe_out
@@ -1080,7 +1387,7 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
         # TAG-NUM-gHEX
         mo = re.search(r'^(.+)-(\d+)-g([0-9a-f]+)$', git_describe)
         if not mo:
-            # unparseable. Maybe git-describe is misbehaving?
+            # unparsable. Maybe git-describe is misbehaving?
             pieces["error"] = ("unable to parse git-describe output: '%s'"
                                % describe_out)
             return pieces
@@ -1105,19 +1412,20 @@ def git_pieces_from_vcs(tag_prefix, root, verbose, run_command=run_command):
     else:
         # HEX: no tags
         pieces["closest-tag"] = None
-        count_out, rc = run_command(GITS, ["rev-list", "HEAD", "--count"],
-                                    cwd=root)
-        pieces["distance"] = int(count_out)  # total number of commits
+        out, rc = runner(GITS, ["rev-list", "HEAD", "--left-right"], cwd=root)
+        pieces["distance"] = len(out.split())  # total number of commits
 
     # commit date: see ISO-8601 comment in git_versions_from_keywords()
-    date = run_command(GITS, ["show", "-s", "--format=%ci", "HEAD"],
-                       cwd=root)[0].strip()
+    date = runner(GITS, ["show", "-s", "--format=%ci", "HEAD"], cwd=root)[0].strip()
+    # Use only the last line.  Previous lines may contain GPG signature
+    # information.
+    date = date.splitlines()[-1]
     pieces["date"] = date.strip().replace(" ", "T", 1).replace(" ", "", 1)
 
     return pieces
 
 
-def do_vcs_install(manifest_in, versionfile_source, ipy):
+def do_vcs_install(versionfile_source: str, ipy: Optional[str]) -> None:
     """Git-specific installation logic for Versioneer.
 
     For Git, this means creating/changing .gitattributes to mark _version.py
@@ -1126,36 +1434,40 @@ def do_vcs_install(manifest_in, versionfile_source, ipy):
     GITS = ["git"]
     if sys.platform == "win32":
         GITS = ["git.cmd", "git.exe"]
-    files = [manifest_in, versionfile_source]
+    files = [versionfile_source]
     if ipy:
         files.append(ipy)
-    try:
-        me = __file__
-        if me.endswith(".pyc") or me.endswith(".pyo"):
-            me = os.path.splitext(me)[0] + ".py"
-        versioneer_file = os.path.relpath(me)
-    except NameError:
-        versioneer_file = "versioneer.py"
-    files.append(versioneer_file)
+    if "VERSIONEER_PEP518" not in globals():
+        try:
+            my_path = __file__
+            if my_path.endswith((".pyc", ".pyo")):
+                my_path = os.path.splitext(my_path)[0] + ".py"
+            versioneer_file = os.path.relpath(my_path)
+        except NameError:
+            versioneer_file = "versioneer.py"
+        files.append(versioneer_file)
     present = False
     try:
-        f = open(".gitattributes", "r")
-        for line in f.readlines():
-            if line.strip().startswith(versionfile_source):
-                if "export-subst" in line.strip().split()[1:]:
-                    present = True
-        f.close()
-    except EnvironmentError:
+        with open(".gitattributes", "r") as fobj:
+            for line in fobj:
+                if line.strip().startswith(versionfile_source):
+                    if "export-subst" in line.strip().split()[1:]:
+                        present = True
+                        break
+    except OSError:
         pass
     if not present:
-        f = open(".gitattributes", "a+")
-        f.write("%s export-subst\n" % versionfile_source)
-        f.close()
+        with open(".gitattributes", "a+") as fobj:
+            fobj.write(f"{versionfile_source} export-subst\n")
         files.append(".gitattributes")
     run_command(GITS, ["add", "--"] + files)
 
 
-def versions_from_parentdir(parentdir_prefix, root, verbose):
+def versions_from_parentdir(
+    parentdir_prefix: str,
+    root: str,
+    verbose: bool,
+) -> Dict[str, Any]:
     """Try to determine the version from the parent directory name.
 
     Source tarballs conventionally unpack into a directory that includes both
@@ -1164,15 +1476,14 @@ def versions_from_parentdir(parentdir_prefix, root, verbose):
     """
     rootdirs = []
 
-    for i in range(3):
+    for _ in range(3):
         dirname = os.path.basename(root)
         if dirname.startswith(parentdir_prefix):
             return {"version": dirname[len(parentdir_prefix):],
                     "full-revisionid": None,
                     "dirty": False, "error": None, "date": None}
-        else:
-            rootdirs.append(root)
-            root = os.path.dirname(root)  # up a level
+        rootdirs.append(root)
+        root = os.path.dirname(root)  # up a level
 
     if verbose:
         print("Tried directories %s but none started with prefix %s" %
@@ -1181,7 +1492,7 @@ def versions_from_parentdir(parentdir_prefix, root, verbose):
 
 
 SHORT_VERSION_PY = """
-# This file was generated by 'versioneer.py' (0.18) from
+# This file was generated by 'versioneer.py' (0.29) from
 # revision-control system data, or from the parent directory name of an
 # unpacked source archive. Distribution tarballs contain a pre-generated copy
 # of this file.
@@ -1198,12 +1509,12 @@ def get_versions():
 """
 
 
-def versions_from_file(filename):
+def versions_from_file(filename: str) -> Dict[str, Any]:
     """Try to determine the version from _version.py if present."""
     try:
         with open(filename) as f:
             contents = f.read()
-    except EnvironmentError:
+    except OSError:
         raise NotThisMethod("unable to read _version.py")
     mo = re.search(r"version_json = '''\n(.*)'''  # END VERSION_JSON",
                    contents, re.M | re.S)
@@ -1215,9 +1526,8 @@ def versions_from_file(filename):
     return json.loads(mo.group(1))
 
 
-def write_to_version_file(filename, versions):
+def write_to_version_file(filename: str, versions: Dict[str, Any]) -> None:
     """Write the given version number to the given _version.py file."""
-    os.unlink(filename)
     contents = json.dumps(versions, sort_keys=True,
                           indent=1, separators=(",", ": "))
     with open(filename, "w") as f:
@@ -1226,14 +1536,14 @@ def write_to_version_file(filename, versions):
     print("set %s to '%s'" % (filename, versions["version"]))
 
 
-def plus_or_dot(pieces):
+def plus_or_dot(pieces: Dict[str, Any]) -> str:
     """Return a + if we don't already have one, else return a ."""
     if "+" in pieces.get("closest-tag", ""):
         return "."
     return "+"
 
 
-def render_pep440(pieces):
+def render_pep440(pieces: Dict[str, Any]) -> str:
     """Build up version string, with post-release "local version identifier".
 
     Our goal: TAG[+DISTANCE.gHEX[.dirty]] . Note that if you
@@ -1258,23 +1568,71 @@ def render_pep440(pieces):
     return rendered
 
 
-def render_pep440_pre(pieces):
-    """TAG[.post.devDISTANCE] -- No -dirty.
+def render_pep440_branch(pieces: Dict[str, Any]) -> str:
+    """TAG[[.dev0]+DISTANCE.gHEX[.dirty]] .
+
+    The ".dev0" means not master branch. Note that .dev0 sorts backwards
+    (a feature branch will appear "older" than the master branch).
 
     Exceptions:
-    1: no tags. 0.post.devDISTANCE
+    1: no tags. 0[.dev0]+untagged.DISTANCE.gHEX[.dirty]
     """
     if pieces["closest-tag"]:
         rendered = pieces["closest-tag"]
+        if pieces["distance"] or pieces["dirty"]:
+            if pieces["branch"] != "master":
+                rendered += ".dev0"
+            rendered += plus_or_dot(pieces)
+            rendered += "%d.g%s" % (pieces["distance"], pieces["short"])
+            if pieces["dirty"]:
+                rendered += ".dirty"
+    else:
+        # exception #1
+        rendered = "0"
+        if pieces["branch"] != "master":
+            rendered += ".dev0"
+        rendered += "+untagged.%d.g%s" % (pieces["distance"],
+                                          pieces["short"])
+        if pieces["dirty"]:
+            rendered += ".dirty"
+    return rendered
+
+
+def pep440_split_post(ver: str) -> Tuple[str, Optional[int]]:
+    """Split pep440 version string at the post-release segment.
+
+    Returns the release segments before the post-release and the
+    post-release version number (or -1 if no post-release segment is present).
+    """
+    vc = str.split(ver, ".post")
+    return vc[0], int(vc[1] or 0) if len(vc) == 2 else None
+
+
+def render_pep440_pre(pieces: Dict[str, Any]) -> str:
+    """TAG[.postN.devDISTANCE] -- No -dirty.
+
+    Exceptions:
+    1: no tags. 0.post0.devDISTANCE
+    """
+    if pieces["closest-tag"]:
         if pieces["distance"]:
-            rendered += ".post.dev%d" % pieces["distance"]
+            # update the post release segment
+            tag_version, post_version = pep440_split_post(pieces["closest-tag"])
+            rendered = tag_version
+            if post_version is not None:
+                rendered += ".post%d.dev%d" % (post_version + 1, pieces["distance"])
+            else:
+                rendered += ".post0.dev%d" % (pieces["distance"])
+        else:
+            # no commits, use the tag as the version
+            rendered = pieces["closest-tag"]
     else:
         # exception #1
-        rendered = "0.post.dev%d" % pieces["distance"]
+        rendered = "0.post0.dev%d" % pieces["distance"]
     return rendered
 
 
-def render_pep440_post(pieces):
+def render_pep440_post(pieces: Dict[str, Any]) -> str:
     """TAG[.postDISTANCE[.dev0]+gHEX] .
 
     The ".dev0" means dirty. Note that .dev0 sorts backwards
@@ -1301,12 +1659,41 @@ def render_pep440_post(pieces):
     return rendered
 
 
-def render_pep440_old(pieces):
+def render_pep440_post_branch(pieces: Dict[str, Any]) -> str:
+    """TAG[.postDISTANCE[.dev0]+gHEX[.dirty]] .
+
+    The ".dev0" means not master branch.
+
+    Exceptions:
+    1: no tags. 0.postDISTANCE[.dev0]+gHEX[.dirty]
+    """
+    if pieces["closest-tag"]:
+        rendered = pieces["closest-tag"]
+        if pieces["distance"] or pieces["dirty"]:
+            rendered += ".post%d" % pieces["distance"]
+            if pieces["branch"] != "master":
+                rendered += ".dev0"
+            rendered += plus_or_dot(pieces)
+            rendered += "g%s" % pieces["short"]
+            if pieces["dirty"]:
+                rendered += ".dirty"
+    else:
+        # exception #1
+        rendered = "0.post%d" % pieces["distance"]
+        if pieces["branch"] != "master":
+            rendered += ".dev0"
+        rendered += "+g%s" % pieces["short"]
+        if pieces["dirty"]:
+            rendered += ".dirty"
+    return rendered
+
+
+def render_pep440_old(pieces: Dict[str, Any]) -> str:
     """TAG[.postDISTANCE[.dev0]] .
 
     The ".dev0" means dirty.
 
-    Eexceptions:
+    Exceptions:
     1: no tags. 0.postDISTANCE[.dev0]
     """
     if pieces["closest-tag"]:
@@ -1323,7 +1710,7 @@ def render_pep440_old(pieces):
     return rendered
 
 
-def render_git_describe(pieces):
+def render_git_describe(pieces: Dict[str, Any]) -> str:
     """TAG[-DISTANCE-gHEX][-dirty].
 
     Like 'git describe --tags --dirty --always'.
@@ -1343,7 +1730,7 @@ def render_git_describe(pieces):
     return rendered
 
 
-def render_git_describe_long(pieces):
+def render_git_describe_long(pieces: Dict[str, Any]) -> str:
     """TAG-DISTANCE-gHEX[-dirty].
 
     Like 'git describe --tags --dirty --always -long'.
@@ -1363,7 +1750,7 @@ def render_git_describe_long(pieces):
     return rendered
 
 
-def render(pieces, style):
+def render(pieces: Dict[str, Any], style: str) -> Dict[str, Any]:
     """Render the given version pieces into the requested style."""
     if pieces["error"]:
         return {"version": "unknown",
@@ -1377,10 +1764,14 @@ def render(pieces, style):
 
     if style == "pep440":
         rendered = render_pep440(pieces)
+    elif style == "pep440-branch":
+        rendered = render_pep440_branch(pieces)
     elif style == "pep440-pre":
         rendered = render_pep440_pre(pieces)
     elif style == "pep440-post":
         rendered = render_pep440_post(pieces)
+    elif style == "pep440-post-branch":
+        rendered = render_pep440_post_branch(pieces)
     elif style == "pep440-old":
         rendered = render_pep440_old(pieces)
     elif style == "git-describe":
@@ -1399,7 +1790,7 @@ class VersioneerBadRootError(Exception):
     """The project root directory is unknown or missing key files."""
 
 
-def get_versions(verbose=False):
+def get_versions(verbose: bool = False) -> Dict[str, Any]:
     """Get the project version from whatever source is available.
 
     Returns dict with two keys: 'version' and 'full'.
@@ -1414,7 +1805,7 @@ def get_versions(verbose=False):
     assert cfg.VCS is not None, "please set [versioneer]VCS= in setup.cfg"
     handlers = HANDLERS.get(cfg.VCS)
     assert handlers, "unrecognized VCS '%s'" % cfg.VCS
-    verbose = verbose or cfg.verbose
+    verbose = verbose or bool(cfg.verbose)  # `bool()` used to avoid `None`
     assert cfg.versionfile_source is not None, \
         "please set versioneer.versionfile_source"
     assert cfg.tag_prefix is not None, "please set versioneer.tag_prefix"
@@ -1475,13 +1866,17 @@ def get_versions(verbose=False):
             "date": None}
 
 
-def get_version():
+def get_version() -> str:
     """Get the short version string for this project."""
     return get_versions()["version"]
 
 
-def get_cmdclass():
-    """Get the custom setuptools/distutils subclasses used by Versioneer."""
+def get_cmdclass(cmdclass: Optional[Dict[str, Any]] = None):
+    """Get the custom setuptools subclasses used by Versioneer.
+
+    If the package uses a different cmdclass (e.g. one from numpy), it
+    should be provide as an argument.
+    """
     if "versioneer" in sys.modules:
         del sys.modules["versioneer"]
         # this fixes the "python setup.py develop" case (also 'install' and
@@ -1495,25 +1890,25 @@ def get_cmdclass():
         # parent is protected against the child's "import versioneer". By
         # removing ourselves from sys.modules here, before the child build
         # happens, we protect the child from the parent's versioneer too.
-        # Also see https://github.com/warner/python-versioneer/issues/52
+        # Also see https://github.com/python-versioneer/python-versioneer/issues/52
 
-    cmds = {}
+    cmds = {} if cmdclass is None else cmdclass.copy()
 
-    # we add "version" to both distutils and setuptools
-    from distutils.core import Command
+    # we add "version" to setuptools
+    from setuptools import Command
 
     class cmd_version(Command):
         description = "report generated version string"
-        user_options = []
-        boolean_options = []
+        user_options: List[Tuple[str, str, str]] = []
+        boolean_options: List[str] = []
 
-        def initialize_options(self):
+        def initialize_options(self) -> None:
             pass
 
-        def finalize_options(self):
+        def finalize_options(self) -> None:
             pass
 
-        def run(self):
+        def run(self) -> None:
             vers = get_versions(verbose=True)
             print("Version: %s" % vers["version"])
             print(" full-revisionid: %s" % vers.get("full-revisionid"))
@@ -1523,7 +1918,7 @@ def run(self):
                 print(" error: %s" % vers["error"])
     cmds["version"] = cmd_version
 
-    # we override "build_py" in both distutils and setuptools
+    # we override "build_py" in setuptools
     #
     # most invocation pathways end up running build_py:
     #  distutils/build -> build_py
@@ -1538,18 +1933,25 @@ def run(self):
     #   then does setup.py bdist_wheel, or sometimes setup.py install
     #  setup.py egg_info -> ?
 
+    # pip install -e . and setuptool/editable_wheel will invoke build_py
+    # but the build_py command is not expected to copy any files.
+
     # we override different "build_py" commands for both environments
-    if "setuptools" in sys.modules:
-        from setuptools.command.build_py import build_py as _build_py
+    if 'build_py' in cmds:
+        _build_py: Any = cmds['build_py']
     else:
-        from distutils.command.build_py import build_py as _build_py
+        from setuptools.command.build_py import build_py as _build_py
 
     class cmd_build_py(_build_py):
-        def run(self):
+        def run(self) -> None:
             root = get_root()
             cfg = get_config_from_root(root)
             versions = get_versions()
             _build_py.run(self)
+            if getattr(self, "editable_mode", False):
+                # During editable installs `.py` and data files are
+                # not copied to build_lib
+                return
             # now locate _version.py in the new build/ directory and replace
             # it with an updated value
             if cfg.versionfile_build:
@@ -1559,8 +1961,40 @@ def run(self):
                 write_to_version_file(target_versionfile, versions)
     cmds["build_py"] = cmd_build_py
 
+    if 'build_ext' in cmds:
+        _build_ext: Any = cmds['build_ext']
+    else:
+        from setuptools.command.build_ext import build_ext as _build_ext
+
+    class cmd_build_ext(_build_ext):
+        def run(self) -> None:
+            root = get_root()
+            cfg = get_config_from_root(root)
+            versions = get_versions()
+            _build_ext.run(self)
+            if self.inplace:
+                # build_ext --inplace will only build extensions in
+                # build/lib<..> dir with no _version.py to write to.
+                # As in place builds will already have a _version.py
+                # in the module dir, we do not need to write one.
+                return
+            # now locate _version.py in the new build/ directory and replace
+            # it with an updated value
+            if not cfg.versionfile_build:
+                return
+            target_versionfile = os.path.join(self.build_lib,
+                                              cfg.versionfile_build)
+            if not os.path.exists(target_versionfile):
+                print(f"Warning: {target_versionfile} does not exist, skipping "
+                      "version update. This can happen if you are running build_ext "
+                      "without first running build_py.")
+                return
+            print("UPDATING %s" % target_versionfile)
+            write_to_version_file(target_versionfile, versions)
+    cmds["build_ext"] = cmd_build_ext
+
     if "cx_Freeze" in sys.modules:  # cx_freeze enabled?
-        from cx_Freeze.dist import build_exe as _build_exe
+        from cx_Freeze.dist import build_exe as _build_exe  # type: ignore
         # nczeczulin reports that py2exe won't like the pep440-style string
         # as FILEVERSION, but it can be used for PRODUCTVERSION, e.g.
         # setup(console=[{
@@ -1569,7 +2003,7 @@ def run(self):
         #   ...
 
         class cmd_build_exe(_build_exe):
-            def run(self):
+            def run(self) -> None:
                 root = get_root()
                 cfg = get_config_from_root(root)
                 versions = get_versions()
@@ -1593,12 +2027,12 @@ def run(self):
 
     if 'py2exe' in sys.modules:  # py2exe enabled?
         try:
-            from py2exe.distutils_buildexe import py2exe as _py2exe  # py3
+            from py2exe.setuptools_buildexe import py2exe as _py2exe  # type: ignore
         except ImportError:
-            from py2exe.build_exe import py2exe as _py2exe  # py2
+            from py2exe.distutils_buildexe import py2exe as _py2exe  # type: ignore
 
         class cmd_py2exe(_py2exe):
-            def run(self):
+            def run(self) -> None:
                 root = get_root()
                 cfg = get_config_from_root(root)
                 versions = get_versions()
@@ -1619,14 +2053,51 @@ def run(self):
                              })
         cmds["py2exe"] = cmd_py2exe
 
+    # sdist farms its file list building out to egg_info
+    if 'egg_info' in cmds:
+        _egg_info: Any = cmds['egg_info']
+    else:
+        from setuptools.command.egg_info import egg_info as _egg_info
+
+    class cmd_egg_info(_egg_info):
+        def find_sources(self) -> None:
+            # egg_info.find_sources builds the manifest list and writes it
+            # in one shot
+            super().find_sources()
+
+            # Modify the filelist and normalize it
+            root = get_root()
+            cfg = get_config_from_root(root)
+            self.filelist.append('versioneer.py')
+            if cfg.versionfile_source:
+                # There are rare cases where versionfile_source might not be
+                # included by default, so we must be explicit
+                self.filelist.append(cfg.versionfile_source)
+            self.filelist.sort()
+            self.filelist.remove_duplicates()
+
+            # The write method is hidden in the manifest_maker instance that
+            # generated the filelist and was thrown away
+            # We will instead replicate their final normalization (to unicode,
+            # and POSIX-style paths)
+            from setuptools import unicode_utils
+            normalized = [unicode_utils.filesys_decode(f).replace(os.sep, '/')
+                          for f in self.filelist.files]
+
+            manifest_filename = os.path.join(self.egg_info, 'SOURCES.txt')
+            with open(manifest_filename, 'w') as fobj:
+                fobj.write('\n'.join(normalized))
+
+    cmds['egg_info'] = cmd_egg_info
+
     # we override different "sdist" commands for both environments
-    if "setuptools" in sys.modules:
-        from setuptools.command.sdist import sdist as _sdist
+    if 'sdist' in cmds:
+        _sdist: Any = cmds['sdist']
     else:
-        from distutils.command.sdist import sdist as _sdist
+        from setuptools.command.sdist import sdist as _sdist
 
     class cmd_sdist(_sdist):
-        def run(self):
+        def run(self) -> None:
             versions = get_versions()
             self._versioneer_generated_versions = versions
             # unless we update this, the command will keep using the old
@@ -1634,7 +2105,7 @@ def run(self):
             self.distribution.metadata.version = versions["version"]
             return _sdist.run(self)
 
-        def make_release_tree(self, base_dir, files):
+        def make_release_tree(self, base_dir: str, files: List[str]) -> None:
             root = get_root()
             cfg = get_config_from_root(root)
             _sdist.make_release_tree(self, base_dir, files)
@@ -1687,21 +2158,26 @@ def make_release_tree(self, base_dir, files):
 
 """
 
-INIT_PY_SNIPPET = """
+OLD_SNIPPET = """
 from ._version import get_versions
 __version__ = get_versions()['version']
 del get_versions
 """
 
+INIT_PY_SNIPPET = """
+from . import {0}
+__version__ = {0}.get_versions()['version']
+"""
 
-def do_setup():
-    """Main VCS-independent setup function for installing Versioneer."""
+
+def do_setup() -> int:
+    """Do main VCS-independent setup function for installing Versioneer."""
     root = get_root()
     try:
         cfg = get_config_from_root(root)
-    except (EnvironmentError, configparser.NoSectionError,
+    except (OSError, configparser.NoSectionError,
             configparser.NoOptionError) as e:
-        if isinstance(e, (EnvironmentError, configparser.NoSectionError)):
+        if isinstance(e, (OSError, configparser.NoSectionError)):
             print("Adding sample versioneer config to setup.cfg",
                   file=sys.stderr)
             with open(os.path.join(root, "setup.cfg"), "a") as f:
@@ -1721,62 +2197,37 @@ def do_setup():
 
     ipy = os.path.join(os.path.dirname(cfg.versionfile_source),
                        "__init__.py")
+    maybe_ipy: Optional[str] = ipy
     if os.path.exists(ipy):
         try:
             with open(ipy, "r") as f:
                 old = f.read()
-        except EnvironmentError:
+        except OSError:
             old = ""
-        if INIT_PY_SNIPPET not in old:
+        module = os.path.splitext(os.path.basename(cfg.versionfile_source))[0]
+        snippet = INIT_PY_SNIPPET.format(module)
+        if OLD_SNIPPET in old:
+            print(" replacing boilerplate in %s" % ipy)
+            with open(ipy, "w") as f:
+                f.write(old.replace(OLD_SNIPPET, snippet))
+        elif snippet not in old:
             print(" appending to %s" % ipy)
             with open(ipy, "a") as f:
-                f.write(INIT_PY_SNIPPET)
+                f.write(snippet)
         else:
             print(" %s unmodified" % ipy)
     else:
         print(" %s doesn't exist, ok" % ipy)
-        ipy = None
-
-    # Make sure both the top-level "versioneer.py" and versionfile_source
-    # (PKG/_version.py, used by runtime code) are in MANIFEST.in, so
-    # they'll be copied into source distributions. Pip won't be able to
-    # install the package without this.
-    manifest_in = os.path.join(root, "MANIFEST.in")
-    simple_includes = set()
-    try:
-        with open(manifest_in, "r") as f:
-            for line in f:
-                if line.startswith("include "):
-                    for include in line.split()[1:]:
-                        simple_includes.add(include)
-    except EnvironmentError:
-        pass
-    # That doesn't cover everything MANIFEST.in can do
-    # (http://docs.python.org/2/distutils/sourcedist.html#commands), so
-    # it might give some false negatives. Appending redundant 'include'
-    # lines is safe, though.
-    if "versioneer.py" not in simple_includes:
-        print(" appending 'versioneer.py' to MANIFEST.in")
-        with open(manifest_in, "a") as f:
-            f.write("include versioneer.py\n")
-    else:
-        print(" 'versioneer.py' already in MANIFEST.in")
-    if cfg.versionfile_source not in simple_includes:
-        print(" appending versionfile_source ('%s') to MANIFEST.in" %
-              cfg.versionfile_source)
-        with open(manifest_in, "a") as f:
-            f.write("include %s\n" % cfg.versionfile_source)
-    else:
-        print(" versionfile_source already in MANIFEST.in")
+        maybe_ipy = None
 
     # Make VCS-specific changes. For git, this means creating/changing
     # .gitattributes to mark _version.py for export-subst keyword
     # substitution.
-    do_vcs_install(manifest_in, cfg.versionfile_source, ipy)
+    do_vcs_install(cfg.versionfile_source, maybe_ipy)
     return 0
 
 
-def scan_setup_py():
+def scan_setup_py() -> int:
     """Validate the contents of setup.py against Versioneer's expectations."""
     found = set()
     setters = False
@@ -1813,10 +2264,14 @@ def scan_setup_py():
     return errors
 
 
+def setup_command() -> NoReturn:
+    """Set up Versioneer and exit with appropriate error code."""
+    errors = do_setup()
+    errors += scan_setup_py()
+    sys.exit(1 if errors else 0)
+
+
 if __name__ == "__main__":
     cmd = sys.argv[1]
     if cmd == "setup":
-        errors = do_setup()
-        errors += scan_setup_py()
-        if errors:
-            sys.exit(1)
+        setup_command()


Test patch:
diff --git a/.github/workflows/python-test b/.github/workflows/python-test.yml
similarity index 67%
rename from .github/workflows/python-test
rename to .github/workflows/python-test.yml
index 40c6b56..9bc3fa7 100644
--- a/.github/workflows/python-test
+++ b/.github/workflows/python-test.yml
@@ -15,7 +15,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ['3.8', '3.9', '3.10', '3.11',"3.12"]
+        python-version: ['3', '3.9', '3.10', '3.11',"3.12"]
 
     steps:
     - name: Checkout code
@@ -31,10 +31,10 @@ jobs:
         python -m pip install --upgrade pip
         pip install .
 
-    - name: Run tests for dask_example.py
+    - name: Run tests for test_dask.py
       run: |
-        PYTHONPATH=. pytest pduq/tests/test_dask_example.py
+        PYTHONPATH=. pytest ./pduq/tests/test_dask.py
 
-    - name: Run tests for test_dbf_invariant.py
+    - name: Run tests for test_invariant_.py
       run: |
-        PYTHONPATH=. pytest pduq/tests/test_invariant_.py
+        PYTHONPATH=. pytest ./pduq/tests/test_invariant_.py
diff --git a/pduq/tests/test_dask.py b/pduq/tests/test_dask.py
new file mode 100644
index 0000000..4c8f015
--- /dev/null
+++ b/pduq/tests/test_dask.py
@@ -0,0 +1,39 @@
+import numpy as np
+import pycalphad.variables as v
+from dask.distributed import Client, LocalCluster
+from pycalphad import Database
+from pduq.dbf_calc import eq_calc_samples
+from pduq.uq_plot import get_phase_prob, plot_dist
+from pkg_resources import resource_filename
+
+
+def test_eq_calc_samples():
+    tdbfile = resource_filename('pduq.tests', 'CU-MG_param_gen.tdb')
+    dbf = Database(tdbfile)
+    
+    paramfile = resource_filename('pduq.tests', 'trace.csv')
+    params = np.loadtxt(paramfile, delimiter=',')
+    
+    c = LocalCluster(n_workers=2, threads_per_worker=1)
+    client = Client(c)
+    
+    # Define the equilibrium conditions including pressure (Pa), temperature (K), and molar composition Mg
+    conds = {v.P: 101325, v.T: 1003, v.X('MG'): 0.214}
+    
+    # Perform the equilibrium calculation for all parameter sets
+    eqC = eq_calc_samples(dbf, conds, params, client=client)
+
+    # Check that the dimensions of eqC match the expected values
+    assert eqC.dims == {
+        'sample': 10, 
+        'N': 1, 
+        'P': 1, 
+        'T': 1, 
+        'X_MG': 1,
+        'vertex': 3, 
+        'component': 2, 
+        'internal_dof': 4
+    }
+
+    # Clean up the Dask client
+    client.close()
diff --git a/pduq/tests/test_dbf_invariant.py b/pduq/tests/test_dbf_invariant.py
index dc26ac6..6a2b0cb 100644
--- a/pduq/tests/test_dbf_invariant.py
+++ b/pduq/tests/test_dbf_invariant.py
@@ -22,8 +22,7 @@ def test_eq_calc_samples():
 
     assert eqC.dims == {'sample': 2, 'N': 1, 'P': 1, 'T': 1, 'X_MG': 1,
         'vertex': 3, 'component': 2, 'internal_dof': 4}
-
-    assert list(np.squeeze(tst).values) == [0., 1.]
+    assert np.isclose(np.squeeze(tst).values,[0., 1.],atol=1e-05,equal_nan=False).all()
 
 
 def test_invariant_samples():
@@ -50,6 +49,5 @@ def test_invariant_samples():
 
 
 if __name__ == '__main__':
-
     test_eq_calc_samples()
     test_invariant_samples()
diff --git a/pduq/tests/test_invariant_.py b/pduq/tests/test_invariant_.py
new file mode 100644
index 0000000..e0744f0
--- /dev/null
+++ b/pduq/tests/test_invariant_.py
@@ -0,0 +1,64 @@
+import numpy as np
+import pycalphad.variables as v
+from pkg_resources import resource_filename
+from pycalphad import Database
+from pduq.dbf_calc import eq_calc_samples
+from pduq.invariant_calc import invariant_samples
+
+
+def test_eq_calc_samples():
+    tdbfile = resource_filename('pduq.tests', 'CU-MG_param_gen.tdb')
+    dbf = Database(tdbfile)
+
+    paramfile = resource_filename('pduq.tests', 'trace.csv')
+    params = np.loadtxt(paramfile, delimiter=',')
+
+    conds = {v.P: 101325, v.T: 1003, v.X('MG'): 0.214}
+
+    eqC = eq_calc_samples(dbf, conds, params[-2:, :])
+
+    tst = eqC.NP.where(eqC.Phase == 'LIQUID').sum(dim='vertex')
+
+    # Check the dimensions of eqC
+    assert eqC.dims == {
+        'sample': 2, 
+        'N': 1, 
+        'P': 1, 
+        'T': 1, 
+        'X_MG': 1,
+        'vertex': 3, 
+        'component': 2, 
+        'internal_dof': 4
+    }
+
+    # Check the value of tst against expected values
+    assert np.isclose(
+        np.squeeze(tst).values,
+        [0., 1.],
+        atol=1e-5,
+        equal_nan=False
+    ).all()
+
+
+def test_invariant_samples():
+    tdbfile = resource_filename('pduq.tests', 'CU-MG_param_gen.tdb')
+    dbf = Database(tdbfile)
+
+    paramfile = resource_filename('pduq.tests', 'trace.csv')
+    params = np.loadtxt(paramfile, delimiter=',')
+
+    Tv, phv, bndv = invariant_samples(
+        dbf, params[-2:, :],
+        X=.2, P=101325, Tl=600, Tu=1400, comp='MG'
+    )
+
+    Tv_ref = [1008.35571289, 993.95141602]
+    phv_ref = [['FCC_A1', 'LIQUID', 'LAVES_C15'],
+               ['FCC_A1', 'LIQUID', 'LAVES_C15']]
+    bndv_ref = [[0.04006727, 0.21171107, 0.33261726],
+                [0.04097448, 0.21717864, 0.33295806]]
+
+    # Check that the calculated invariant samples are close to the references
+    assert np.all(np.isclose(Tv, Tv_ref, atol=1e-5))
+    assert np.all(phv == phv_ref)
+    assert np.all(np.isclose(bndv, bndv_ref, atol=1e-5))