STYLE: Ensure source files line ending is consistent

Makes sure files end in a newline and only a newline.

This commit updates the sources files based on the automatic fixes
applied using the "end-of-file-fixer" pre-commit hook introduced in
the subsequent commit.

.github/workflows/pre-commit.yml

@@ -18,4 +18,3 @@ jobs:
     - uses: actions/checkout@v3
     - uses: actions/setup-python@v4
     - uses: pre-commit/[email protected]
-

BUILD.md

@@ -67,4 +67,3 @@ _These instructions are untested and maybe obsolete._
 5. Run `docker build -t "autoscoper_dev_ubuntu:latest" -f ./UbuntuDockerFile .`
 6. Find your IP address (using `ipconfig` on Windows or `ifconfig` on Unix)
 7. Run `docker run --rm -it --gpus all -e DISPLAY=<IP>:0.0 --name autoscoper_ubuntu autoscoper_dev_ubuntu:latest`
-

CMake/ExternalProjectDependency.cmake

@@ -1131,4 +1131,4 @@ function(ExternalProject_AlwaysConfigure proj)
     DEPENDEES build
     ALWAYS 1
     )
-endfunction()
+endfunction()

CMake/FindFilesystem.cmake

@@ -245,4 +245,3 @@ set(Filesystem_FOUND ${_found} CACHE BOOL "TRUE if we can run a program using st
 if(Filesystem_FIND_REQUIRED AND NOT Filesystem_FOUND)
     message(FATAL_ERROR "Cannot run simple program using std::filesystem")
 endif()
-

CMake/PreventInSourceBuilds.cmake

@@ -43,4 +43,4 @@ function(AssureOutOfSourceBuilds)
   endif()
 endfunction()
 
-AssureOutOfSourceBuilds()
+AssureOutOfSourceBuilds()

Documentation/adv-topics/index.md

@@ -5,4 +5,4 @@
 :caption: Contents
 
 remote-gpu-setup.md
-```
+```

Documentation/developer-guide/building-autoscoper.md

@@ -1,2 +1,2 @@
 ```{include} ../../BUILD.md
-```
+```

Documentation/developer-guide/contributing.md

@@ -1,2 +1,2 @@
 ```{include} ../../CONTRIBUTING.md
-```
+```

Documentation/file-specifications/config.md

@@ -113,4 +113,4 @@ VoxelSize 0.1 0.1 0.1
 RenderResolution 512 512
 
 OptimizationOffsets 0.1 0.1 0.1 0.1 0.1 0.1
-```
+```

Documentation/file-specifications/index.md

@@ -9,4 +9,4 @@ Below is a list of file specifications for various input and output files used b
 config.md
 camera-calibration.md
 filter-file.md
-```
+```

Documentation/get-help.md

@@ -23,4 +23,3 @@ If you cannot find a similar feature request, then write a post in the [SlicerAu
 ## I Would Like to share how Autoscoper helped me in my research
 
 Please send us the citation for your paper posting in the [SlicerAutoscoperM category](https://discourse.slicer.org/c/community/slicerautoscoperm/30) on the Slicer Discourse. We would love to hear how Autoscoper helped you in your research.
-

Documentation/socket-control-libraries/pyautoscoper.md

@@ -196,4 +196,3 @@ It may be useful to launch Autoscoper from Python. This can be done by using the
    :undoc-members:
    :show-inheritance:
 ```
-

Documentation/tutorials/tips-and-tricks.md

@@ -6,4 +6,4 @@ This tutorial contains a collection of tips and tricks for aligning partial volu
 
 To help align a partial volume, it may be beneficial to remove a degree of freedom, temporarily, from the translational movement. To do this, you need to rotate the partial volume until one of the axes is no longer visible when in translation mode. For example, if you want to remove the x-axis from the translation, you need to rotate the partial volume until the x-axis is no longer visible. This can be done by clicking and dragging on the partial volume in the 3D view. Once the axis is no longer visible, you can translate the partial volume in the x-axis without affecting the other axes.
 
-![](https://github.com/BrownBiomechanics/Autoscoper/releases/download/docs-resources/autoscoper-tipsntricks-1.gif)
+![](https://github.com/BrownBiomechanics/Autoscoper/releases/download/docs-resources/autoscoper-tipsntricks-1.gif)

autoscoper/src/ui/AboutAutoscoper.cpp

@@ -82,4 +82,4 @@ AboutAutoscoper::AboutAutoscoper(QWidget* parent)
 AboutAutoscoper::~AboutAutoscoper()
 {
   delete about;
-}
+}

autoscoper/src/ui/FilterTreeWidgetParameter.h

@@ -71,4 +71,4 @@ public slots:
   void parameterChanged();
 };
 
-#endif // FILTERTREEWIDGETPARAMETER_H
+#endif // FILTERTREEWIDGETPARAMETER_H

autoscoper/src/ui/ImportExportTrackingOptionsDialog.cpp

@@ -62,4 +62,4 @@ void ImportExportTrackingOptionsDialog::on_pushButton_OK_clicked()
 void ImportExportTrackingOptionsDialog::on_pushButton_Cancel_clicked()
 {
   this->reject();
-}
+}

autoscoper/src/ui/NewTrialDialog.cpp

@@ -243,4 +243,4 @@ bool NewTrialDialog::run()
     std::cerr << e.what() << std::endl;
     return false;
   }
-}
+}

autoscoper/src/ui/OpenCLPlatformSelectDialog.cpp

@@ -85,4 +85,4 @@ void OpenCLPlatformSelectDialog::on_pushButton_clicked()
   xromm::gpu::setUsedPlatform(diag->comboBox->currentIndex());
 #endif
   this->close();
-}
+}

autoscoper/src/ui/QtCategoryButton.cpp

@@ -58,4 +58,4 @@ QtCategoryButton::QtCategoryButton(const QString& a_Text, QTreeWidget* a_pParent
 void QtCategoryButton::ButtonPressed()
 {
   m_pItem->setExpanded(!m_pItem->isExpanded());
-}
+}

autoscoper/src/ui/QtCategoryButton.h

@@ -61,4 +61,4 @@ private slots:
   QTreeWidgetItem* m_pItem;
 };
 
-#endif // QTCATEGORYBUTTON_H
+#endif // QTCATEGORYBUTTON_H

autoscoper/src/ui/TrackingOptionsDialog.cpp

@@ -303,4 +303,4 @@ void TrackingOptionsDialog::on_radioButton_SplineInterpolation_clicked(bool chec
   AutoscoperMainWindow* mainwindow = dynamic_cast<AutoscoperMainWindow*>(parent());
 
   mainwindow->getTracker()->trial()->guess = 3;
-}
+}

autoscoper/src/ui/VolumeBox.cpp

@@ -63,4 +63,4 @@ void VolumeBox::on_toolButton_VolumeFile_clicked()
   if (fileName.isNull() == false) {
     widget->lineEdit_VolumeFile->setText(fileName);
   }
-}
+}

autoscoper/src/ui/VolumeListWidgetItem.cpp

@@ -56,4 +56,4 @@ void VolumeListWidgetItem::on_visiblilityCheckBox__toggled(bool checked)
     }
   }
   main_window_->volume_changed(); // update the volume
-}
+}

autoscoper/src/ui/WorldViewWindow.cpp

@@ -80,4 +80,4 @@ void WorldViewWindow::setSharedGLContext(QOpenGLContext* sharedContext)
 void WorldViewWindow::draw()
 {
   openGL->update();
-}
+}

libautoscoper/src/Win32/dirent.h

@@ -886,4 +886,3 @@ dirent_set_errno(
 }
 #endif
 #endif /*DIRENT_H*/
-

libautoscoper/src/gpu/cuda/ContrastFilter_kernels.h

@@ -45,4 +45,4 @@ namespace xromm {
 namespace gpu {
 void contrast_filter_apply(const float* input, float* output, int width, int height, float alpha, float beta, int size);
 }
-} // namespace xromm
+} // namespace xromm

libautoscoper/src/gpu/cuda/Mult_kernels.h

@@ -45,4 +45,4 @@ namespace xromm {
 namespace gpu {
 void multiply(float* src1, float* src2, float* dest, size_t width, size_t height);
 }
-} // namespace xromm
+} // namespace xromm

libautoscoper/src/gpu/cuda/PSO_kernel.cu

@@ -142,4 +142,4 @@ cudaFree(devVel);
 cudaFree(devPBest);
 cudaFree(devGBest);
 }
-* /
+* /

libautoscoper/src/gpu/opencl/CMakeLists.txt

@@ -31,5 +31,3 @@ set(opencl_SOURCES
   src/gpu/opencl/DRRBackground.cpp
   src/gpu/opencl/Mult.cpp
 )
-
-

libautoscoper/src/gpu/opencl/kernel/CMakeLists.txt

@@ -37,4 +37,3 @@ endforeach()
 add_custom_target(${SHADER_TO_HEADER} DEPENDS ${GENERATED_LIST})
 
 set(opencl_shaders_src ${GENERATED_LIST} PARENT_SCOPE)
-

libautoscoper/tests/CMakeLists.txt

@@ -16,4 +16,3 @@ if(WIN32)
   # The xromm::filesystem::relative compatibility function is not expected to work on Windows
   set_tests_properties(TestFileSystemCompat PROPERTIES WILL_FAIL TRUE)
 endif()
-

scripts/matlab/README.md

@@ -303,4 +303,4 @@ This function has the following parameters:
 connection.closeConnection();
 ```
 
-This will close the connection to the server.
+This will close the connection to the server.

scripts/python/README.md

@@ -1,3 +1,3 @@
 # PyAutoscoper
 
-Documentation for the Python API can be found on [Read the Docs](https://autoscoper.readthedocs.io/en/latest/socket-control-libraries/pyautoscoper.html).
+Documentation for the Python API can be found on [Read the Docs](https://autoscoper.readthedocs.io/en/latest/socket-control-libraries/pyautoscoper.html).