mafutils 0.1.1__py3-none-any.whl

mafutils/__init__.py

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+"""Reusable MAF toolkit package for indexing, fetching, and summarizing MAFs."""
+
+__all__ = ["cli", "fetch", "index", "stats"]

mafutils/__main__.py

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+from .cli import main
+
+
+if __name__ == "__main__":
+    main()

mafutils/_version.py

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+# file generated by vcs-versioning
+# don't change, don't track in version control
+from __future__ import annotations
+
+__all__ = [
+    "__version__",
+    "__version_tuple__",
+    "version",
+    "version_tuple",
+    "__commit_id__",
+    "commit_id",
+]
+
+version: str
+__version__: str
+__version_tuple__: tuple[int | str, ...]
+version_tuple: tuple[int | str, ...]
+commit_id: str | None
+__commit_id__: str | None
+
+__version__ = version = '0.1.1'
+__version_tuple__ = version_tuple = (0, 1, 1)
+
+__commit_id__ = commit_id = None

mafutils/cli.py

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+import typer
+
+from . import fetch as fetch_mod
+from . import index as index_mod
+from . import stats as stats_mod
+
+
+app = typer.Typer(
+    help="MAF toolkit for indexing, fetching, and summarizing MAF alignments.",
+    no_args_is_help=True,
+    pretty_exceptions_show_locals=False,
+    context_settings={"help_option_names": ["-h", "--help"]},
+)
+app.command("fetch", help="Fetch alignment blocks from a MAF using a BED file and an existing index.")(fetch_mod.fetch_command)
+app.command("index", help="Create block and scaffold indexes for a MAF file.")(index_mod.index_command)
+app.command("stats", help="Summarize an indexed MAF at overall, species, and block levels.")(stats_mod.stats_command)
+
+
+def main() -> None:
+    app()