Merge pull request #198 from mmore500/cli-version

Add version info to cli

hstrat/_auxiliary_lib/_alifestd_as_newick_asexual.py

@@ -143,7 +143,9 @@ def alifestd_as_newick_asexual(
     return result
 
 
-_raw_description = """Convert Alife standard phylogeny data to Newick format.
+_raw_description = f"""{os.path.basename(__file__)} | (hstrat v{get_hstrat_version()})
+
+Convert Alife standard phylogeny data to Newick format.
 
 Note that this CLI entrypoint is experimental and may be subject to change.
 """

hstrat/_auxiliary_lib/_alifestd_downsample_tips_asexual.py

@@ -1,9 +1,11 @@
 import argparse
 import functools
 import logging
+import os
 import sys
 import typing
 
+import joinem
 from joinem._dataframe_cli import _add_parser_base, _run_dataframe_cli
 import numpy as np
 import pandas as pd
@@ -75,7 +77,9 @@ def alifestd_downsample_tips_asexual(
     return impl(phylogeny_df, n_downsample)
 
 
-_raw_description = """Create a subsample phylogeny containing `num_tips` tips.
+_raw_description = f"""{os.path.basename(__file__)} | (hstrat v{get_hstrat_version()}/joinem v{joinem.__version__})
+
+Create a subsample phylogeny containing `num_tips` tips.
 
 If `num_tips` is greater than the number of tips in the phylogeny, the whole phylogeny is returned.
 

hstrat/_auxiliary_lib/_alifestd_try_add_ancestor_list_col.py

@@ -1,7 +1,9 @@
 import argparse
 import logging
+import os
 import warnings
 
+import joinem
 from joinem._dataframe_cli import _add_parser_base, _run_dataframe_cli
 import pandas as pd
 import polars as pl
@@ -58,7 +60,9 @@ def alifestd_try_add_ancestor_list_col(
     return phylogeny_df
 
 
-_raw_description = """Create 'ancestor_list' column, if not already present, to comply with Alife standard phylogeny data format.
+_raw_description = f"""{os.path.basename(__file__)} | (hstrat v{get_hstrat_version()}/joinem v{joinem.__version__})
+
+Create 'ancestor_list' column, if not already present, to comply with Alife standard phylogeny data format.
 
 Additional Notes
 ================

hstrat/dataframe/surface_build_tree.py

@@ -1,7 +1,9 @@
 import argparse
 import functools
 import logging
+import os
 
+import joinem
 from joinem._dataframe_cli import _add_parser_base, _run_dataframe_cli
 
 from .. import hstrat
@@ -13,7 +15,9 @@
 )
 from ._surface_build_tree import surface_build_tree
 
-raw_message = """End-to-end interface to tree reconstruction for surface-based genome annotations.
+raw_message = f"""{os.path.basename(__file__)} | (hstrat v{get_hstrat_version()}/joinem v{joinem.__version__})
+
+End-to-end interface to tree reconstruction for surface-based genome annotations.
 Reads raw hex genome data from tabular data file(s) and writes postprocessed phylogeny data to output file in alife standard format.
 
 

hstrat/dataframe/surface_postprocess_trie.py

@@ -1,7 +1,9 @@
 import argparse
 import functools
 import logging
+import os
 
+import joinem
 from joinem._dataframe_cli import _add_parser_base, _run_dataframe_cli
 
 from .. import hstrat
@@ -13,7 +15,9 @@
 )
 from ._surface_postprocess_trie import surface_postprocess_trie
 
-raw_message = """Second component of raw interface to tree reconstruction for surface-based genome annotations.
+raw_message = f"""{os.path.basename(__file__)} | (hstrat v{get_hstrat_version()}/joinem v{joinem.__version__})
+
+Second component of raw interface to tree reconstruction for surface-based genome annotations.
 Reads raw phylogeny reconstruction data from reconstruction in tabular data file(s) and writes postprocessed phylogeny data to output file in alife standard format.
 
 

hstrat/dataframe/surface_unpack_reconstruct.py

@@ -1,7 +1,9 @@
 import argparse
 import functools
 import logging
+import os
 
+import joinem
 from joinem._dataframe_cli import _add_parser_base, _run_dataframe_cli
 
 from .._auxiliary_lib import (
@@ -12,7 +14,9 @@
 )
 from ._surface_unpack_reconstruct import surface_unpack_reconstruct
 
-raw_message = """First component of raw interface to tree reconstruction for surface-based genome annotations.
+raw_message = f"""{os.path.basename(__file__)} | (hstrat v{get_hstrat_version()}/joinem v{joinem.__version__})
+
+First component of raw interface to tree reconstruction for surface-based genome annotations.
 Reads raw genome data from tabular data file(s) and writes reconstructed phylogeny data to output file in alife standard format.