Removes unecessary tests

tests/test_basic_regression.py

@@ -154,67 +154,3 @@ def test_regression(pdb, options, tmp_path):
     if ref_path is not None:
         compare_output(pdb, tmp_path, ref_path)
 
-
-def run_propka_stream(options, input_file, filename, tmp_path):
-    """Run PROPKA software.
-
-    Args:
-        options:  list of PROPKA options
-        input_file:  file-like PDB object
-        tmp_path:  path for working directory
-    """
-    options += [filename]
-    args = loadOptions(options)
-    try:
-        _LOGGER.warning(
-            "Working in tmpdir {0:s} because of PROPKA file output; "
-            "need to fix this.".format(str(tmp_path)))
-        cwd = Path.cwd()
-        os.chdir(tmp_path)
-        parameters = read_parameter_file(args.parameters, Parameters())
-        molecule = MolecularContainer(parameters, args)
-        molecule = read_molecule_file(input_file, molecule,
-                                      filename=filename)
-        molecule.calculate_pka()
-        molecule.write_pka()
-        if args.generate_propka_input:
-            molecule.write_propka()
-    finally:
-        os.chdir(cwd)
-
-
-@pytest.mark.parametrize("pdb, options", [
-    pytest.param("1FTJ-Chain-A", [], id="1FTJ-Chain-A: no options"),
-    pytest.param('1HPX', [], id="1HPX: no options"),
-    pytest.param('4DFR', [], id="4DFR: no options"),
-    pytest.param('3SGB', [], id="3SGB: no options"),
-    pytest.param('3SGB-subset', [
-        "--titrate_only",
-        "E:17,E:18,E:19,E:29,E:44,E:45,E:46,E:118,E:119,E:120,E:139"],
-                 id="3SGB: --titrate_only"),
-    pytest.param('1HPX-warn', ['--quiet'], id="1HPX-warn: --quiet")])
-def test_filestream_regression(pdb, options, tmp_path):
-    """Basic regression but using streams for the input PDB file"""
-    path_dict = get_test_dirs()
-    ref_path = path_dict["results"] / ("{0:s}.dat".format(pdb))
-    if ref_path.is_file():
-        ref_path = ref_path.resolve()
-    else:
-        _LOGGER.warning("Missing results file for comparison: {0:s}".format(
-                        str(ref_path)))
-        ref_path = None
-    pdb_path = path_dict["pdbs"] / ("{0:s}.pdb".format(pdb))
-    if pdb_path.is_file():
-        pdb_path = pdb_path.resolve()
-        #input_file = open(pdb_path)
-        with open(pdb_path, 'r') as writer:
-            io_file = StringIO(writer.read())
-    else:
-        errstr = "Missing PDB file: {0:s}".format(pdb_path)
-        raise FileNotFoundError(errstr)
-    tmp_path = Path(tmp_path).resolve()
-
-    run_propka_stream(options, io_file, f"{pdb}.pdb", tmp_path)
-
-    if ref_path is not None:
-        compare_output(pdb, tmp_path, ref_path)