fix(cli): Missing entrypoint.

Author: aaronmussig

README.md

@@ -1,3 +1,17 @@
 # gtdb-itol-decorate
 
 Creates iTOL files for tree decoration, given a set of GTDB genomes.
+
+## Installation
+
+```bash
+pip install gtdb-itol-decorate
+```
+
+## Usage
+
+Note: The taxonomy file is available from the GTDB data repository.
+
+```bash
+gtdb_itol_decorate /path/to/tree.tree /path/to/taxonomy.tsv /path/to/output
+```

gtdb_itol_decorate/__main__.py

@@ -1,15 +1,12 @@
-import os
 from pathlib import Path
 
-import dendropy
 import typer
 
-from gtdb_itol_decorate.decorate import decorate_tree
 from gtdb_itol_decorate.gtdb import load_taxonomy_file, get_taxon_to_phylum
 from gtdb_itol_decorate.itol import get_phylum_to_lca, get_phylum_colours, write_color_datastrip, \
     get_internal_nodes_with_labels, write_internal_node_labels, write_tree_colours, write_collapse_file, \
     write_popup_file
-from gtdb_itol_decorate.newick import load_newick_file, load_newick_to_tree, validate_dendropy_namespace, \
+from gtdb_itol_decorate.newick import load_newick_to_tree, validate_dendropy_namespace, \
     get_canonical_mapping, validate_sets, strip_tree_labels, set_node_desc_taxa, set_taxon_label_for_internal_nodes
 from gtdb_itol_decorate.util import log
 
@@ -65,5 +62,9 @@ def main(tree_path: Path, tax_path: Path, out_dir: Path):
     log('Done.')
 
 
+def app():
+    typer.run(main)
+
+
 if __name__ == "__main__":
     typer.run(main)

setup.py

@@ -33,7 +33,7 @@ def readme():
       },
       entry_points={
           'console_scripts': [
-              'gtdb_itol_decorate = gtdb_itol_decorate.__main__:run'
+              'gtdb_itol_decorate = gtdb_itol_decorate.__main__:app'
           ]
       },
       classifiers=[