tomwer 1.3.7__py3-none-any.whl → 1.3.8__py3-none-any.whl

tomwer/core/process/reconstruction/nabu/test/test_nabunormalization.py

@@ -1,222 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2016-2017 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "29/03/2022"
-
-
-import configparser
-from collections import namedtuple
-
-import numpy
-import pytest
-from silx.io.url import DataUrl
-from tomoscan.io import HDF5File
-from nabu.pipeline.config import get_default_nabu_config
-from nabu.pipeline.fullfield.nabu_config import (
-    nabu_config as nabu_fullfield_default_config,
-)
-from tomwer.core.process.reconstruction.nabu import settings as nabu_settings
-from tomwer.core.process.reconstruction.nabu.nabuslices import NabuSlicesTask
-from tomwer.core.process.reconstruction.normalization.normalization import (
-    SinoNormalizationTask,
-)
-from tomwer.core.process.reconstruction.normalization.params import (
-    SinoNormalizationParams,
-)
-from tomwer.core.utils.scanutils import MockNXtomo
-from tomwer.core.process.reconstruction.output import PROCESS_FOLDER_NAME
-
-try:
-    import nabu
-except ImportError:
-    has_nabu = False
-else:
-    has_nabu = True
-import os
-
-_norm_setting = namedtuple("_norm_setting", ["method", "source", "extra_infos"])
-
-_nabu_norm_field = namedtuple(
-    "_nabu_norm_field",
-    ["sino_normalization", "has_sino_normalization_file"],
-)
-
-
-normalization_config_test = (
-    # no normalization
-    (
-        _norm_setting(method="none", source=None, extra_infos=None),
-        _nabu_norm_field(
-            sino_normalization="",
-            has_sino_normalization_file=False,
-        ),
-    ),
-    # chebyshev normalization
-    (
-        _norm_setting(method="chebyshev", source=None, extra_infos=None),
-        _nabu_norm_field(
-            sino_normalization="chebyshev",
-            has_sino_normalization_file=False,
-        ),
-    ),
-    # divide by a scalar
-    (
-        _norm_setting(method="division", source="scalar", extra_infos={"value": 12.0}),
-        _nabu_norm_field(
-            sino_normalization="division",
-            has_sino_normalization_file=True,
-        ),
-    ),
-    # substract a roi
-    (
-        _norm_setting(
-            method="subtraction",
-            source="manual ROI",
-            extra_infos={
-                "start_x": 0.0,
-                "end_x": 1.0,
-                "start_y": 0.0,
-                "end_y": 1.0,
-                "calc_fct": "mean",
-                "calc_area": "volume",
-                "calc_method": "scalar",
-            },
-        ),
-        _nabu_norm_field(
-            sino_normalization="subtraction",
-            has_sino_normalization_file=True,
-        ),
-    ),
-    # substract from a dataset
-    (
-        _norm_setting(
-            method="subtraction",
-            source="from dataset",
-            extra_infos={
-                "dataset_url": DataUrl(
-                    file_path="random_dataset.hdf5",
-                    data_path="data",
-                    scheme="silx",
-                ),
-                "calc_fct": "median",
-                "calc_area": "volume",
-                "calc_method": "scalar",
-            },
-        ),
-        _nabu_norm_field(
-            sino_normalization="subtraction",
-            has_sino_normalization_file=True,
-        ),
-    ),
-)
-
-
-@pytest.mark.skipif(
-    (not has_nabu or nabu.version < "2022.2"),
-    reason="nabu not available or the current version doesn't handle sino normlaization yet",
-)
-@pytest.mark.parametrize(
-    "norm_setting, expected_nabu_conf", [item for item in normalization_config_test]
-)
-def test_normalization(norm_setting, expected_nabu_conf, tmp_path):
-    """
-    Insure normalization is correctly provided to nabu configuration file
-    For this run a normalization process followed by a nabu process.
-    """
-    scan_dir = tmp_path / "scan"
-    scan_dir.mkdir()
-
-    nabu_cfg_folders = os.path.join(scan_dir, nabu_settings.NABU_CFG_FILE_FOLDER)
-    os.makedirs(nabu_cfg_folders, exist_ok=True)
-
-    random_dataset_file = os.path.join(nabu_cfg_folders, "random_dataset.hdf5")
-
-    # create a random dataset if necessary
-    with HDF5File(random_dataset_file, mode="w") as h5f:
-        h5f["data"] = numpy.ones((20, 20))
-
-    mock = MockNXtomo(
-        scan_path=scan_dir,
-        n_proj=10,
-        n_ini_proj=10,
-        scan_range=180,
-        dim=20,
-    )
-    scan = mock.scan
-
-    cfg_folder = os.path.join(str(scan_dir), PROCESS_FOLDER_NAME, "nabu_cfg_files")
-    cfg_file = os.path.join(cfg_folder, "entry_scan.cfg")
-    assert not os.path.exists(cfg_file)
-    norm_params = SinoNormalizationParams(
-        method=norm_setting.method,
-        source=norm_setting.source,
-        extra_infos=norm_setting.extra_infos,
-    )
-
-    normalization = SinoNormalizationTask(
-        inputs={
-            "data": scan,
-            "configuration": norm_params.to_dict(),
-            "serialize_output_data": False,
-        },
-        varinfo=None,
-    )
-    normalization.run()
-
-    # insure the method is style valid
-    assert scan.intensity_normalization.method.value == norm_setting.method
-    assert (
-        "tomwer_processing_res_code" in scan.intensity_normalization.get_extra_infos()
-    )
-
-    process = NabuSlicesTask(
-        inputs={
-            "data": scan,
-            "dry_run": True,
-            "nabu_params": get_default_nabu_config(nabu_fullfield_default_config),
-            "serialize_output_data": False,
-        },
-        varinfo=None,
-    )
-    process.run()
-    assert os.path.exists(cfg_file)
-
-    configuration = configparser.ConfigParser(allow_no_value=True)
-    configuration.read(cfg_file)
-
-    preproc_section = configuration["preproc"]
-    sino_normalization = preproc_section.get("sino_normalization", "")
-    sino_normalization_file = preproc_section.get("sino_normalization_file", "")
-    assert sino_normalization == expected_nabu_conf.sino_normalization
-    if expected_nabu_conf.has_sino_normalization_file:
-        url = DataUrl(path=sino_normalization_file)
-        assert url.is_valid()
-    else:
-        assert sino_normalization_file == ""
-    assert (
-        "tomwer_processing_res_code" in scan.intensity_normalization.get_extra_infos()
-    )

tomwer/core/process/script/test/test_script.py

@@ -1,68 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2021 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "18/06/2021"
-
-
-import os
-import shutil
-import tempfile
-import unittest
-
-from tomwer.core.process.script.python import PythonScript
-from tomwer.core.utils.scanutils import MockNXtomo
-
-
-class TestPythonScript(unittest.TestCase):
-    def setUp(self):
-        self.tempdir = tempfile.mkdtemp()
-        dim = 10
-        mock = MockNXtomo(
-            scan_path=os.path.join(self.tempdir, "scan1"),
-            n_proj=10,
-            n_ini_proj=10,
-            scan_range=180,
-            dim=dim,
-        )
-        self.scan = mock.scan
-
-    def tearDown(self):
-        shutil.rmtree(self.tempdir)
-
-    def test(self):
-        process = PythonScript(inputs={"data": self.scan})
-        process.definition()
-        process.program_version()
-        process.program_name()
-        # TODO: configuration should be passed in inputs during construction
-        process.set_configuration(
-            {
-                "scriptText": "print('toto')",
-            }
-        )
-
-        process.run()

tomwer/core/process/stitching/test/test_metadataholder.py

@@ -1,17 +0,0 @@
-from tomwer.core.process.stitching.metadataholder import StitchingMetadata
-
-
-def test_to_dict_from_dict():
-    """Test conversion of StitchingMetadata from dict and to dict"""
-    metadata = StitchingMetadata(tomo_obj=None)
-    metadata._pixel_or_voxel_size = [12.3, 2.5, None]
-    metadata._pos_as_m = [None, 3.6, None]
-    metadata._pos_as_px = [5, 9, 8]
-
-    ddict = metadata.to_dict()
-    assert isinstance(ddict, dict)
-
-    loaded_metadata = StitchingMetadata.from_dict(ddict, tomo_obj=None)
-    assert loaded_metadata == metadata
-    assert loaded_metadata.to_dict() == ddict
-    assert isinstance(str(loaded_metadata), str)

tomwer/core/process/visualization/test/test_data_viewer.py

@@ -1,39 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2019 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "10/12/2021"
-
-
-from tomwer.core.process.visualization.dataviewer import _DataViewerPlaceHolder
-
-
-def test_data_viewer():
-    process = _DataViewerPlaceHolder(
-        inputs={
-            "data": None,
-        }
-    )
-    process.run()

tomwer/core/process/visualization/test/test_diff_viewer.py

@@ -1,39 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2019 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "10/12/2021"
-
-
-from tomwer.core.process.visualization.diffviewer import _DiffViewerPlaceHolder
-
-
-def test_diff_viewer():
-    process = _DiffViewerPlaceHolder(
-        inputs={
-            "data": None,
-        }
-    )
-    process.run()

tomwer/core/process/visualization/test/test_image_stack_viewer.py

@@ -1,41 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2019 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "10/12/2021"
-
-
-from tomwer.core.process.visualization.imagestackviewer import (
-    _ImageStackViewerPlaceHolder,
-)
-
-
-def test_image_stack_viewer():
-    process = _ImageStackViewerPlaceHolder(
-        inputs={
-            "data": None,
-        }
-    )
-    process.run()

tomwer/core/process/visualization/test/test_radio_stack.py

@@ -1,39 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2019 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "10/12/2021"
-
-
-from tomwer.core.process.visualization.radiostack import _RadioStackPlaceHolder
-
-
-def test_radio_stack():
-    process = _RadioStackPlaceHolder(
-        inputs={
-            "data": None,
-        }
-    )
-    process.run()

tomwer/core/process/visualization/test/test_sample_moved.py

@@ -1,41 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2019 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "10/12/2021"
-
-
-from tomwer.core.process.visualization.imagestackviewer import (
-    _ImageStackViewerPlaceHolder,
-)
-
-
-def test_sample_moved():
-    process = _ImageStackViewerPlaceHolder(
-        inputs={
-            "data": None,
-        }
-    )
-    process.run()

tomwer/core/process/visualization/test/test_sinogram_viewer.py

@@ -1,39 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2019 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "10/12/2021"
-
-
-from tomwer.core.process.visualization.sinogramviewer import _SinogramViewerPlaceHolder
-
-
-def test_sinogram_viewer():
-    process = _SinogramViewerPlaceHolder(
-        inputs={
-            "data": None,
-        }
-    )
-    process.run()

tomwer/core/process/visualization/test/test_slice_stack.py

@@ -1,39 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2019 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "10/12/2021"
-
-
-from tomwer.core.process.visualization.slicestack import _SliceStackPlaceHolder
-
-
-def test_slice_stack():
-    process = _SliceStackPlaceHolder(
-        inputs={
-            "data": None,
-        }
-    )
-    process.run()

tomwer/core/process/visualization/test/test_volume_viewer.py

@@ -1,39 +0,0 @@
-# coding: utf-8
-# /*##########################################################################
-#
-# Copyright (c) 2017-2019 European Synchrotron Radiation Facility
-#
-# Permission is hereby granted, free of charge, to any person obtaining a copy
-# of this software and associated documentation files (the "Software"), to deal
-# in the Software without restriction, including without limitation the rights
-# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-# copies of the Software, and to permit persons to whom the Software is
-# furnished to do so, subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be included in
-# all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
-# THE SOFTWARE.
-#
-# ###########################################################################*/
-__authors__ = ["H. Payno"]
-__license__ = "MIT"
-__date__ = "10/12/2021"
-
-
-from tomwer.core.process.visualization.volumeviewer import _VolumeViewerPlaceHolder
-
-
-def test_volume_viewer():
-    process = _VolumeViewerPlaceHolder(
-        inputs={
-            "data": None,
-        }
-    )
-    process.run()

tomwer/core/utils/test/test_image.py

@@ -1,30 +0,0 @@
-import numpy
-import pytest
-
-from tomwer.core.utils.image import ImageScaleMethod, scale_img2_to_img1, shift_img
-
-
-@pytest.mark.parametrize(
-    "use_scipy, dx, dy, cval", ((True, 1.0, -2.3, 0), (False, 0.0, 3.6, 2))
-)
-def test_shift_image(use_scipy, dx, dy, cval):
-    data = numpy.linspace(0, 12, 100 * 100).reshape(100, 100)
-    assert isinstance(
-        shift_img(data=data, dx=dx, dy=dy, cval=cval, use_scipy=use_scipy),
-        numpy.ndarray,
-    )
-
-
-def test_scale_img2_to_img1():
-    """
-    test scale_img2_to_img1 function
-    """
-    img_1 = numpy.linspace(0, 10, 100 * 100, dtype=numpy.float16).reshape(100, 100)
-    img_2 = numpy.linspace(20, 100, 100 * 100, dtype=numpy.float16).reshape(100, 100)
-
-    rescale_img = scale_img2_to_img1(img_2, img_1, method=ImageScaleMethod.MEAN)
-    numpy.testing.assert_array_almost_equal(
-        img_2,
-        rescale_img,
-        decimal=1,
-    )