[pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

rsciio/blockfile/_api.py

@@ -450,9 +450,7 @@ def file_writer(
         np.asanyarray(navigator).tofile(f)
         # Zero pad until next data block
         if f.tell() > int(header["Data_offset_2"][0]):
-            raise ValueError(
-                "Signal navigation size does not match " "data dimensions."
-            )
+            raise ValueError("Signal navigation size does not match data dimensions.")
         zero_pad = int(header["Data_offset_2"][0]) - f.tell()
         np.zeros((zero_pad,), np.byte).tofile(f)
         file_location = f.tell()

rsciio/digitalmicrograph/_api.py

@@ -631,8 +631,7 @@ def size(self):
         if self.imdict.ImageData.DataType in (27, 28):  # Packed complex
             if self.imdict.ImageData.Data.size % 2:
                 raise IOError(
-                    "ImageData.Data.size should be an even integer for "
-                    "this datatype."
+                    "ImageData.Data.size should be an even integer for this datatype."
                 )
             else:
                 return int(self.imdict.ImageData.Data.size / 2)

rsciio/edax/_api.py

@@ -851,7 +851,7 @@ def spd_reader(
     # Read the .ipr header (if possible)
     if read_ipr:
         with open(ipr_fname, "rb") as f:
-            _logger.debug(" From .spd reader - " "reading .ipr {}".format(ipr_fname))
+            _logger.debug(" From .spd reader - reading .ipr {}".format(ipr_fname))
             ipr_header = __get_ipr_header(f, endianess)
             original_metadata["ipr_header"] = sarray2dict(ipr_header)
 
@@ -872,7 +872,7 @@ def spd_reader(
     # Read the .spc header (if possible)
     if read_spc:
         with open(spc_fname, "rb") as f:
-            _logger.debug(" From .spd reader - " "reading .spc {}".format(spc_fname))
+            _logger.debug(" From .spd reader - reading .spc {}".format(spc_fname))
             spc_header = __get_spc_header(f, endianess, load_all_spc)
             spc_dict = sarray2dict(spc_header)
             original_metadata["spc_header"] = spc_dict

rsciio/emd/_emd_ncem.py

@@ -76,8 +76,7 @@ def read_file(self, file, lazy=None, dataset_path=None, stack_group=None):
         if isinstance(dataset_path, list):
             if stack_group:
                 _logger.warning(
-                    "The argument 'dataset_path' and "
-                    "'stack_group' are not compatible."
+                    "The argument 'dataset_path' and 'stack_group' are not compatible."
                 )
             stack_group = False
             dataset_path = dataset_path.copy()

rsciio/empad/_api.py

@@ -76,9 +76,7 @@ def _parse_xml(filename):
             }
         )
     else:
-        raise IOError(
-            "Unsupported Empad file: the scan parameters cannot " "be imported."
-        )
+        raise IOError("Unsupported Empad file: the scan parameters cannot be imported.")
 
     return om, info
 

rsciio/hspy/_api.py

@@ -230,7 +230,7 @@ def file_writer(
         # will be flushed with using 'w' mode
         mode = kwds.get("mode", "w" if write_dataset else "a")
         if mode != "a" and not write_dataset:
-            raise ValueError("`mode='a'` is required to use " "`write_dataset=False`.")
+            raise ValueError("`mode='a'` is required to use `write_dataset=False`.")
         f = h5py.File(filename, mode=mode)
 
     f.attrs["file_format"] = "HyperSpy"

rsciio/jeol/_api.py

@@ -367,7 +367,7 @@ def _check_divisor(factor, number, string):
         if isinstance(downsample, Iterable):
             if len(downsample) > 2:
                 raise ValueError(
-                    "`downsample` can't be an iterable of length " "different from 2."
+                    "`downsample` can't be an iterable of length different from 2."
                 )
             downsample_width = downsample[0]
             downsample_height = downsample[1]

rsciio/netcdf/_api.py

@@ -130,7 +130,7 @@ def nc_hyperspy_reader_0dot1(ncfile, filename):
                 calibration_dict[attrib[0]] = value
         else:
             _logger.warning(
-                "Warning: the attribute '%s' is not defined in " "the file '%s'",
+                "Warning: the attribute '%s' is not defined in the file '%s'",
                 attrib[0],
                 filename,
             )
@@ -143,7 +143,7 @@ def nc_hyperspy_reader_0dot1(ncfile, filename):
                 acquisition_dict[attrib[0]] = value
         else:
             _logger.warning(
-                "Warning: the attribute '%s' is not defined in " "the file '%s'",
+                "Warning: the attribute '%s' is not defined in the file '%s'",
                 attrib[0],
                 filename,
             )
@@ -152,7 +152,7 @@ def nc_hyperspy_reader_0dot1(ncfile, filename):
             treatments_dict[attrib[0]] = eval("dc." + attrib[1])
         else:
             _logger.warning(
-                "Warning: the attribute '%s' is not defined in " "the file '%s'",
+                "Warning: the attribute '%s' is not defined in the file '%s'",
                 attrib[0],
                 filename,
             )

rsciio/nexus/_api.py

@@ -705,7 +705,7 @@ def _check_search_keys(search_keys):
     elif search_keys is None:
         return search_keys
     else:
-        raise ValueError("search keys must be None, a string, " "or a list of strings")
+        raise ValueError("search keys must be None, a string, or a list of strings")
 
 
 def _find_data(group, search_keys=None, hardlinks_only=False, absolute_path=None):

rsciio/pantarhei/_api.py

@@ -223,7 +223,7 @@ def _navigation_first(i):
                     meta_data[key].append(item_in_numpy_order[new_order[i]])
                 except Exception as e:  # pragma: no cover
                     raise Exception(
-                        f"Could not load meta data: {key} " f"in hyperspy file: {e}."
+                        f"Could not load meta data: {key} in hyperspy file: {e}."
                     )
     axes = []
     for i, (label, calib) in enumerate(zip(data_labels, calibration_ordered)):

rsciio/renishaw/_api.py

@@ -553,8 +553,7 @@ def _check_block_exists(self, block_name):
     def _check_block_size(name, error_area, expected_size, actual_size):
         if expected_size < actual_size:
             _logger.warning(
-                f"Unexpected size of {name} Block."
-                f"{error_area} may be read incorrectly."
+                f"Unexpected size of {name} Block.{error_area} may be read incorrectly."
             )
         elif expected_size > actual_size:
             if name == "WXDA_0":
@@ -1062,8 +1061,7 @@ def _set_nav_via_ORGN(self, orgn_data):
                 else:
                     reason = "Non-ordered axis is not supported"
                 _logger.warning(
-                    f"{reason}, a default axis with scale 1 "
-                    "and offset 0 will be used."
+                    f"{reason}, a default axis with scale 1 and offset 0 will be used."
                 )
                 del nav_dict[axis]["units"]
             else:

rsciio/semper/_api.py

@@ -346,7 +346,7 @@ def _check_format(cls, data):
             iform = 4  # int32
         else:
             supported_formats = [np.dtype(i).name for i in cls.IFORM_DICT.values()]
-            msg = "The SEMPER file format does not support " "{} data type. ".format(
+            msg = "The SEMPER file format does not support {} data type. ".format(
                 data.dtype.name
             )
             msg += "Supported data types are: " + ", ".join(supported_formats)
@@ -375,9 +375,9 @@ def load_from_unf(cls, filename, lazy=False):
             rec_length = np.fromfile(f, dtype="<i4", count=1)[0]  # length of header
             header = np.fromfile(f, dtype=cls.HEADER_DTYPES[: rec_length // 2], count=1)
             metadata.update(sarray2dict(header))
-            assert (
-                np.frombuffer(f.read(4), dtype=np.int32)[0] == rec_length
-            ), "Error while reading the header (length is not correct)!"
+            assert np.frombuffer(f.read(4), dtype=np.int32)[0] == rec_length, (
+                "Error while reading the header (length is not correct)!"
+            )
             data_format = cls.IFORM_DICT[metadata["IFORM"]]
             iversn, remain = divmod(metadata["IFLAG"], 10000)
             ilabel, ntitle = divmod(remain, 1000)
@@ -396,7 +396,7 @@ def load_from_unf(cls, filename, lazy=False):
                 try:
                     metadata.update(cls._read_label(f))
                 except Exception as e:
-                    warning = "Could not read label, trying to proceed " "without it!"
+                    warning = "Could not read label, trying to proceed without it!"
                     warning += " (Error message: {})".format(str(e))
                     warnings.warn(warning)
             # Read picture data:

rsciio/tests/test_ripple.py

@@ -175,7 +175,7 @@ def test_data(pdict, tmp_path):
                     "Acquisition_instrument.TEM.Stage.tilt_alpha",
                     "Acquisition_instrument.TEM.Detector.EDS.azimuth_angle",
                     "Acquisition_instrument.TEM.Detector.EDS.elevation_angle",
-                    "Acquisition_instrument.TEM.Detector." "EDS.energy_resolution_MnKa",
+                    "Acquisition_instrument.TEM.Detector.EDS.energy_resolution_MnKa",
                     "Acquisition_instrument.TEM.Detector.EDS.live_time",
                 )
             if metadata:

rsciio/tia/_api.py

@@ -213,7 +213,7 @@ def parse_ExperimentalDescription(et, dictree):
             value = float(value) if units else value
         except ValueError:
             _logger.warning(
-                f"Expected decimal value for {label}, " f"but received {value} instead"
+                f"Expected decimal value for {label}, but received {value} instead"
             )
         dictree[item] = value
 

rsciio/tvips/_api.py

@@ -132,7 +132,7 @@ def _get_main_header_from_signal(signal, version=2, frame_header_extra_bytes=0):
         offsety = round((offsety * _UREG(unit)).to(to_unit).magnitude)
     else:
         warnings.warn(
-            "Image scale units could not be converted, " "saving axes scales as is.",
+            "Image scale units could not be converted, saving axes scales as is.",
             UserWarning,
         )
     metadata = DTBox(signal["metadata"], box_dots=True)
@@ -291,7 +291,7 @@ def file_reader(
         f.seek(0)
         # read the main header in file 0
         header = np.fromfile(f, dtype=TVIPS_RECORDER_GENERAL_HEADER, count=1)
-        dtype = np.dtype(f"u{header['bitsperpixel'][0]//8}")
+        dtype = np.dtype(f"u{header['bitsperpixel'][0] // 8}")
         dimx = header["dimx"][0]
         dimy = header["dimy"][0]
         # the size of the frame header varies with version
@@ -377,8 +377,8 @@ def file_reader(
             final_frame = scan_start_frame + total_scan_frames
             if final_frame > max_frame_index:
                 raise ValueError(
-                    f"Shape {scan_shape} requires image index {final_frame-1} "
-                    f"which is out of bounds. Final frame index: {max_frame_index-1}."
+                    f"Shape {scan_shape} requires image index {final_frame - 1} "
+                    f"which is out of bounds. Final frame index: {max_frame_index - 1}."
                 )
             indices = np.arange(scan_start_frame, final_frame).reshape(scan_shape)
 

rsciio/usid/_api.py

@@ -87,7 +87,7 @@ def _get_dim_dict(labels, units, val_func, ignore_non_uniform_dims=True):
             except ValueError:
                 # non-uniform dimension! - see notes above
                 if ignore_non_uniform_dims:
-                    warn("Ignoring non-uniformity of dimension: " "{}".format(dim_name))
+                    warn("Ignoring non-uniformity of dimension: {}".format(dim_name))
                     step_size = 1
                     dim_vals[0] = 0
                 else:
@@ -267,7 +267,7 @@ def _usidataset_to_signal_dict(h5_main, ignore_non_uniform_dims=True, lazy=False
     num_spec_dims = len(spec_dict)
     num_pos_dims = len(pos_dict)
     _logger.info(
-        "Dimensions: Positions: {}, Spectroscopic: {}" ".".format(
+        "Dimensions: Positions: {}, Spectroscopic: {}.".format(
             num_pos_dims, num_spec_dims
         )
     )