diff --git a/setup.py b/setup.py
index 197cec1e..9d9f1d64 100644
--- a/setup.py
+++ b/setup.py
@@ -1,6 +1,7 @@
 import codecs
 import os.path
 from setuptools import setup
+import subprocess
 
 def read(rel_path):
     here = os.path.abspath(os.path.dirname(__file__))
@@ -11,17 +12,44 @@ def get_version(rel_path):
     for line in read(rel_path).splitlines():
         if line.startswith('__version__'):
             delim = '"' if '"' in line else "'"
-            return line.split(delim)[1]
+            vers = line.split(delim)[1]
+            if vers.endswith('-dev'):
+                vers += '0+' + _get_repo_hash()
+            return vers
     else:
         raise RuntimeError("Unable to find version string.")
 
+def _get_repo_hash():
+    """
+    Talk to git and find out the tag/hash of our latest commit
+    Add '_uc' to the end if the repo has uncommited changes
+    """
+    try:
+        p = subprocess.Popen("git rev-parse --short HEAD".split(' '),
+                            stdout=subprocess.PIPE)
+    except EnvironmentError:
+        print("Couldn't run git to get a version number for setup.py")
+        return "detached"
+
+    ver = p.communicate()[0].decode().strip()
+    try:
+        p = subprocess.Popen("git diff --exit-code".split(' '),
+                            stdout=subprocess.PIPE)
+        p.communicate()
+        if p.returncode:
+            ver += '_uc'
+    except EnvironmentError:
+        pass
+
+    return ver
+
 
 setup(
     name='Truvari',
     version=get_version('truvari/__init__.py'),
     author="ACEnglish",
     author_email="acenglish@gmail.com",
-    url="https://github.com/spiralgenetics/truvari",
+    url="https://github.com/ACEnglish/truvari",
     packages=['truvari', 'truvari/annotations'],
     license='MIT',
     description="Structural variant comparison tool for VCFs",
diff --git a/truvari/__main__.py b/truvari/__main__.py
index 148c40ec..6d906ae0 100755
--- a/truvari/__main__.py
+++ b/truvari/__main__.py
@@ -23,7 +23,8 @@
 
 def version(args):
     """Print the version"""
-    print(f"Truvari v{__version__}")
+    from importlib.metadata import version
+    print(f"Truvari v{version('truvari')}")
 
 
 TOOLS = {'bench': bench_main,
diff --git a/truvari/annotations/bpovl.py b/truvari/annotations/bpovl.py
index 1b366ff5..24c992a9 100644
--- a/truvari/annotations/bpovl.py
+++ b/truvari/annotations/bpovl.py
@@ -53,7 +53,7 @@ def parse_args(args):
     else:
         args.anno_psets = [args.sequence, args.begin, args.end,
                            args.one_based, args.comment]
-    truvari.setup_logging()
+    truvari.setup_logging(show_version=True)
     return args
 
 
diff --git a/truvari/annotations/density.py b/truvari/annotations/density.py
index 7cf0a3a2..ebc4d996 100644
--- a/truvari/annotations/density.py
+++ b/truvari/annotations/density.py
@@ -30,7 +30,7 @@ def parse_args(args):
     parser.add_argument("-t", "--threshold", type=float, default=3,
                         help="std for identifying 'dense' regions (%(default)s)")
     args = parser.parse_args(args)
-    truvari.setup_logging()
+    truvari.setup_logging(show_version=True)
     return args
 
 def density_main(args):
diff --git a/truvari/annotations/dpcnt.py b/truvari/annotations/dpcnt.py
index 55172f36..bf627e1a 100644
--- a/truvari/annotations/dpcnt.py
+++ b/truvari/annotations/dpcnt.py
@@ -25,7 +25,7 @@ def parse_args(args):
                         help="Only count sites with present (non ./.) genotypes")
     parser.add_argument("-o", "--output", type=str, default="/dev/stdout",
                         help="Output filename (stdout)")
-    truvari.setup_logging()
+    truvari.setup_logging(show_version=True)
     return parser.parse_args(args)
 
 
diff --git a/truvari/annotations/gccontent.py b/truvari/annotations/gccontent.py
index 91eda4e5..571f6052 100644
--- a/truvari/annotations/gccontent.py
+++ b/truvari/annotations/gccontent.py
@@ -21,7 +21,7 @@ def parse_args(args):
                         help="Output filename (stdout)")
     parser.add_argument("-r", "--reference", type=str, required=True,
                         help="Reference fasta")
-    truvari.setup_logging()
+    truvari.setup_logging(show_version=True)
     return parser.parse_args(args)
 
 
diff --git a/truvari/annotations/grm.py b/truvari/annotations/grm.py
index e4e26b53..96d35300 100644
--- a/truvari/annotations/grm.py
+++ b/truvari/annotations/grm.py
@@ -176,7 +176,7 @@ def parse_args(args):
     parser.add_argument("--debug", action="store_true",
                         help="Verbose logging")
     args = parser.parse_args(args)
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     return args
 
 
diff --git a/truvari/annotations/grpaf.py b/truvari/annotations/grpaf.py
index f2621c7d..c8ddf1a3 100644
--- a/truvari/annotations/grpaf.py
+++ b/truvari/annotations/grpaf.py
@@ -30,7 +30,7 @@ def parse_args(args):
     parser.add_argument("--debug", action="store_true",
                         help="Verbose logging")
     args = parser.parse_args(args)
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     return args
 
 
diff --git a/truvari/annotations/gtcnt.py b/truvari/annotations/gtcnt.py
index 33250711..e7998164 100644
--- a/truvari/annotations/gtcnt.py
+++ b/truvari/annotations/gtcnt.py
@@ -18,7 +18,7 @@ def parse_args(args):
                         help="VCF to annotate (stdin)")
     parser.add_argument("-o", "--output", type=str, default="/dev/stdout",
                         help="Output filename (stdout)")
-    truvari.setup_logging()
+    truvari.setup_logging(show_version=True)
     return parser.parse_args(args)
 
 
diff --git a/truvari/annotations/hompct.py b/truvari/annotations/hompct.py
index 6a1566b6..02b42cbe 100644
--- a/truvari/annotations/hompct.py
+++ b/truvari/annotations/hompct.py
@@ -30,7 +30,7 @@ def parse_args(args):
     parser.add_argument("--debug", action="store_true",
                         help="Verbose logging")
     args = parser.parse_args(args)
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     return args
 
 
diff --git a/truvari/annotations/lcr.py b/truvari/annotations/lcr.py
index 2973ea15..aabc060e 100644
--- a/truvari/annotations/lcr.py
+++ b/truvari/annotations/lcr.py
@@ -86,7 +86,7 @@ def parse_args(args):
                         help="VCF to annotate (stdin)")
     parser.add_argument("-o", "--output", type=str, default="/dev/stdout",
                         help="Output filename (stdout)")
-    truvari.setup_logging()
+    truvari.setup_logging(show_version=True)
     return parser.parse_args(args)
 
 def lcr_main(cmdargs):
diff --git a/truvari/annotations/numneigh.py b/truvari/annotations/numneigh.py
index 5511916e..1247c396 100644
--- a/truvari/annotations/numneigh.py
+++ b/truvari/annotations/numneigh.py
@@ -38,7 +38,7 @@ def parse_args(args):
     parser.add_argument("--debug", action="store_true", default=False,
                         help="Verbose logging")
     args = parser.parse_args(args)
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     return args
 
 
diff --git a/truvari/annotations/remap.py b/truvari/annotations/remap.py
index abf4e848..64f789e1 100644
--- a/truvari/annotations/remap.py
+++ b/truvari/annotations/remap.py
@@ -162,7 +162,7 @@ def parse_args(args):
     parser.add_argument("--debug", action="store_true",
                         help="Verbose logging")
     args = parser.parse_args(args)
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     return args
 
 
diff --git a/truvari/annotations/repmask.py b/truvari/annotations/repmask.py
index d0a9abe6..75ed1cb7 100644
--- a/truvari/annotations/repmask.py
+++ b/truvari/annotations/repmask.py
@@ -195,7 +195,7 @@ def parse_args(args):
     parser.add_argument("--debug", action="store_true",
                         help="Verbose logging")
     args = parser.parse_args(args)
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     return args
 
 
diff --git a/truvari/annotations/svinfo.py b/truvari/annotations/svinfo.py
index fb6ca9cb..ed777ee5 100644
--- a/truvari/annotations/svinfo.py
+++ b/truvari/annotations/svinfo.py
@@ -20,7 +20,7 @@ def parse_args(args):
                         help="Output filename (stdout)")
     parser.add_argument("-m", "--minsize", type=truvari.restricted_int, default=50,
                         help="Minimum size of entry to annotate (%(default)s)")
-    truvari.setup_logging()
+    truvari.setup_logging(show_version=True)
     return parser.parse_args(args)
 
 
diff --git a/truvari/annotations/trf.py b/truvari/annotations/trf.py
index adbafa85..dc802dca 100644
--- a/truvari/annotations/trf.py
+++ b/truvari/annotations/trf.py
@@ -582,7 +582,7 @@ def parse_args(args):
                         help="Verbose logging")
 
     args = parser.parse_args(args)
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     return args
 
 def check_params(args):
diff --git a/truvari/bench.py b/truvari/bench.py
index 9012f15f..7a9b302d 100644
--- a/truvari/bench.py
+++ b/truvari/bench.py
@@ -438,9 +438,8 @@ def setup_outputs(args):
     """
     os.mkdir(args.output)
     truvari.setup_logging(args.debug, truvari.LogFileStderr(
-        os.path.join(args.output, "log.txt")))
+        os.path.join(args.output, "log.txt")), show_version=True)
     logging.info("Params:\n%s", json.dumps(vars(args), indent=4))
-    logging.info(f"Truvari version: {truvari.__version__}")
 
     outputs = {}
     outputs["vcf_base"] = pysam.VariantFile(args.base)
diff --git a/truvari/collapse.py b/truvari/collapse.py
index f8d8b21e..a625621e 100644
--- a/truvari/collapse.py
+++ b/truvari/collapse.py
@@ -349,7 +349,7 @@ def setup_outputs(args):
     Makes all of the output files
     return a ... to get to each of the
     """
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     logging.info("Params:\n%s", json.dumps(vars(args), indent=4))
 
     outputs = {}
diff --git a/truvari/divide.py b/truvari/divide.py
index 0c20d262..9ad9a5fe 100644
--- a/truvari/divide.py
+++ b/truvari/divide.py
@@ -31,7 +31,7 @@ def parse_args(args):
     parser.add_argument("-T", "--threads", type=int, default=1,
                         help="Number of threads for compressing/indexing sub-VCFs (%(default)s)")
     args = parser.parse_args(args)
-    truvari.setup_logging(False)
+    truvari.setup_logging(show_version=True)
     return args
 
 def flush_stack(in_vcf, stack, out_name, compress=True):
diff --git a/truvari/phab.py b/truvari/phab.py
index 8b5db759..bdb38a88 100644
--- a/truvari/phab.py
+++ b/truvari/phab.py
@@ -225,7 +225,7 @@ def phab_main(cmdargs):
     Main
     """
     args = parse_args(cmdargs)
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     if check_requirements():
         sys.exit(1)
     #if check_params(args):
diff --git a/truvari/segmentation.py b/truvari/segmentation.py
index d61af988..3f80ae69 100644
--- a/truvari/segmentation.py
+++ b/truvari/segmentation.py
@@ -28,7 +28,7 @@ def parse_args(args):
     # parser.add_argument("--alter", action="store_true",
     # help="Add SEG Format field to all variants (false)")
     args = parser.parse_args(args)
-    truvari.setup_logging()
+    truvari.setup_logging(show_version=True)
     return args
 
 
diff --git a/truvari/utils.py b/truvari/utils.py
index 3c5b84ff..3373424e 100644
--- a/truvari/utils.py
+++ b/truvari/utils.py
@@ -124,7 +124,9 @@ def flush(self):
         self.file_handler.flush()
 
 
-def setup_logging(debug=False, stream=sys.stderr, log_format="%(asctime)s [%(levelname)s] %(message)s"):
+def setup_logging(debug=False, stream=sys.stderr,
+                  log_format="%(asctime)s [%(levelname)s] %(message)s",
+                  show_version=False):
     """
     Create default logger
 
@@ -134,10 +136,15 @@ def setup_logging(debug=False, stream=sys.stderr, log_format="%(asctime)s [%(lev
     :type `stream`: file handler, optional
     :param `log_format`: Format of log lines
     :type `log_format`: string, optional
+    :param `show_version`: Start log with truvari version and command line args
+    :type `show_version`: bool, optional
     """
     logLevel = logging.DEBUG if debug else logging.INFO
     logging.basicConfig(stream=stream, level=logLevel, format=log_format)
-    logging.info("Running %s", " ".join(sys.argv))
+    if show_version:
+        from importlib.metadata import version
+        logging.info(f"Truvari v{version('truvari')}")
+        logging.info("Command %s", " ".join(sys.argv))
 
     def sendWarningsToLog(message, category, filename, lineno, *args, **kwargs):  # pylint: disable=unused-argument
         """
diff --git a/truvari/vcf2df.py b/truvari/vcf2df.py
index 89ace22e..d7faaa8e 100644
--- a/truvari/vcf2df.py
+++ b/truvari/vcf2df.py
@@ -403,7 +403,7 @@ def parse_args(args):
     if args.sample:
         args.sample = args.sample.split(',')
 
-    truvari.setup_logging(args.debug)
+    truvari.setup_logging(args.debug, show_version=True)
     if args.compress not in range(10):
         logging.warning('--compress must be between 0-9. Setting to 3')
         args.compress = 3