Utilities Module
===============

.. automodule:: funannotate2.utilities
   :members:
   :undoc-members:
   :show-inheritance:

The utilities module provides utility functions used by other modules.

Key Functions
------------

create_directories
~~~~~~~~~~~~~~~

.. autofunction:: funannotate2.utilities.create_directories

Creates the necessary directories for the annotation process.

create_tmpdir
~~~~~~~~~~

.. autofunction:: funannotate2.utilities.create_tmpdir

Creates a temporary directory for the annotation process.

checkfile
~~~~~~~

.. autofunction:: funannotate2.utilities.checkfile

Checks if a file exists and is not empty.

find_files
~~~~~~~~

.. autofunction:: funannotate2.utilities.find_files

Finds files matching a pattern in a directory.

merge_coordinates
~~~~~~~~~~~~~~

.. autofunction:: funannotate2.utilities.merge_coordinates

Merges overlapping coordinates.

system_info
~~~~~~~~~

.. autofunction:: funannotate2.utilities.system_info

Gets information about the system.

readBlocks
~~~~~~~~

.. autofunction:: funannotate2.utilities.readBlocks

Reads blocks of text from a source.