[skip travis]: Update licence block

tiatoolbox/__init__.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/__main__.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/cli/__init__.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 
@@ -48,7 +48,7 @@ def version_msg():
     __version__, "--version", "-V", help="Version", message=version_msg()
 )
 def main():
-    """Computational pathology toolbox by TIA LAB."""
+    """Computational pathology toolbox by TIA Centre."""
     return 0
 
 

tiatoolbox/cli/patch_predictor.py

@@ -1,3 +1,23 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
 """Command line interface for patch_predictor."""
 import click
 

tiatoolbox/cli/read_bounds.py

@@ -1,3 +1,23 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
 """Command line interface for read_bounds."""
 import pathlib
 

tiatoolbox/cli/save_tiles.py

@@ -1,3 +1,23 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
 """Command line interface for save_tiles."""
 import os
 

tiatoolbox/cli/semantic_segment.py

@@ -1,3 +1,23 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
 """Command line interface for semantic segmentation."""
 import click
 import yaml

tiatoolbox/cli/slide_info.py

@@ -1,3 +1,23 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
 """Command line interface for slide_info."""
 import os
 import pathlib

tiatoolbox/cli/slide_thumbnail.py

@@ -1,3 +1,23 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
 """Command line interface for slide_thumbnail."""
 import pathlib
 

tiatoolbox/cli/stain_norm.py

@@ -1,3 +1,23 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
 """Command line interface for stain_norm."""
 import os
 

tiatoolbox/cli/tissue_mask.py

@@ -1,3 +1,23 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
 """Command line interface for tissue_mask."""
 import os
 import pathlib

tiatoolbox/data/__init__.py

@@ -1,3 +1,25 @@
+# ***** BEGIN GPL LICENSE BLOCK *****
+#
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software Foundation,
+# Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+#
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
+# All rights reserved.
+# ***** END GPL LICENSE BLOCK *****
+
+
+"""Package to define datasets available to download via TIAToolbox."""
 import pathlib
 import tempfile
 from typing import Optional

tiatoolbox/models/__init__.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/models/abc.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/models/architecture/__init__.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/models/architecture/unet.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/models/architecture/utils.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/models/architecture/vanilla.py

@@ -14,9 +14,10 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
+
 """Defines vanilla CNNs with torch backbones, mainly for patch classification."""
 
 import numpy as np

tiatoolbox/models/controller/patch_predictor.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/models/controller/semantic_segmentor.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/models/dataset/__init__.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 
@@ -26,5 +26,4 @@
     WSIPatchDataset,
     predefined_preproc_func,
 )
-
 from tiatoolbox.models.dataset.info import DatasetInfoABC, KatherPatchDataset

tiatoolbox/models/dataset/abc.py

@@ -14,14 +14,14 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 
 
-from abc import ABC, abstractmethod
 import os
 import pathlib
+from abc import ABC, abstractmethod
 
 import numpy as np
 import torch

tiatoolbox/models/dataset/classification.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/models/dataset/info.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/tiatoolbox.py

@@ -14,7 +14,7 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 

tiatoolbox/tools/__init__.py

@@ -14,9 +14,9 @@
 # along with this program; if not, write to the Free Software Foundation,
 # Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
 #
-# The Original Code is Copyright (C) 2021, TIALab, University of Warwick
+# The Original Code is Copyright (C) 2021, TIA Centre, University of Warwick
 # All rights reserved.
 # ***** END GPL LICENSE BLOCK *****
 
 """This package contains various tools for working with WSIs."""
-from tiatoolbox.tools import stainnorm, stainextract, patchextraction
+from tiatoolbox.tools import patchextraction, stainextract, stainnorm