Changing version management

setup.py

@@ -9,6 +9,8 @@ def readme():
     with open(os.path.join(os.path.dirname(__file__), 'README.md')) as f:
         return f.read()
 
+# Set __version__
+exec(open('src/bioconda2biocontainer/__init__.py').read())
 
 setup(
     name='bioconda2biocontainer',
@@ -17,7 +19,8 @@ def readme():
         '': 'src',
     },
     data_files=[('', ['README.md'])],
-    version='0.0.4',
+    use_scm_version=True,
+    setup_requires=['wheel', 'setuptools_scm'],
     description='Tools to synchronize bioconda packages and versions with Biocontainer images',
     long_description=readme(),
     long_description_content_type='text/markdown',

src/bioconda2biocontainer/__init__.py

@@ -0,0 +1,8 @@
+from pkg_resources import DistributionNotFound
+
+try:
+    _distribution = __import__('pkg_resources').get_distribution("bioconda2biocontainer")
+except DistributionNotFound:  # Likely, running from working dir without installed dist
+    __version__ = 'SNAPSHOT'
+else:
+    __version__ = _distribution.version if _distribution else 'SNAPSHOT'

src/bioconda2biocontainer/entry_point.py

@@ -2,6 +2,7 @@
 import argparse
 import json
 
+from bioconda2biocontainer import __version__
 from bioconda2biocontainer.biocontainer import find_package_by_name, find_latest_image
 
 
@@ -53,6 +54,8 @@ def main():
     parser = argparse.ArgumentParser(
         description='Find Biocontainers images from Bioconda packages')
 
+    parser.add_argument('-v', '--version', action='version',
+                        version='PM4NGS version: {}'.format(__version__))
     parser.add_argument('--package_name', help='Bioconda package name',
                         required=True)
     parser.add_argument('--package_version', help='Bioconda package version',

src/bioconda2biocontainer/entry_point_search.py

@@ -2,6 +2,7 @@
 import argparse
 import json
 
+from bioconda2biocontainer import __version__
 from bioconda2biocontainer.biocontainer import find_package_by_term
 
 
@@ -20,6 +21,8 @@ def main():
     parser = argparse.ArgumentParser(
         description='Find Biocontainers tools')
 
+    parser.add_argument('-v', '--version', action='version',
+                        version='PM4NGS version: {}'.format(__version__))
     parser.add_argument('--search_term', help='Search term',
                         required=True)
     parser.add_argument('--json', help='Print json format', action='store_true',

src/bioconda2biocontainer/entry_point_update_cwl_docker.py

@@ -3,13 +3,16 @@
 
 import yaml
 
+from bioconda2biocontainer import __version__
 from bioconda2biocontainer.update_cwl_docker_image import update_cwl_docker_from_tool_name
 
 
 def main():
     parser = argparse.ArgumentParser(
         description='Replace Docker image in CWL from conda env yaml file')
 
+    parser.add_argument('-v', '--version', action='version',
+                        version='PM4NGS version: {}'.format(__version__))
     parser.add_argument('--conda_env_file', help='Conda env yaml file',
                         required=True)
     parser.add_argument('--cwl_path', help='Path to the CWL directory',