Project/astrophysics

.github/presets/linux.json

@@ -13,10 +13,34 @@
         "CMAKE_C_COMPILER_LAUNCHER": "ccache",
         "CMAKE_CXX_COMPILER_LAUNCHER": "ccache",
 
-        "IVW_MODULE_FFMPEG": "OFF",
-        "IVW_MODULE_WEBBROWSER": "OFF",
-        "IVW_MODULE_WEBQT": "OFF",
-        "IVW_TEST_BENCHMARKS": "OFF"
+        "IVW_EXTERNAL_MODULES" : "${sourceParentDir}/modules/misc;${sourceParentDir}/modules/medvis;${sourceParentDir}/modules/molvis;${sourceParentDir}/modules/tensorvis;${sourceParentDir}/modules/topovis;${sourceParentDir}/modules/vectorvis;${sourceParentDir}/modules/infravis",
+
+        "IVW_TEST_BENCHMARKS": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_ASTROPHYSICS": { "type": "BOOL", "value": "ON" },
+        "IVW_MODULE_FFMPEG": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_WEBBROWSER": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_WEBQT": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_VTK": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_COMPUTESHADEREXAMPLES": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_DEVTOOLS": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_GRAPHVIZ": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_OPENMESH": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_SPRINGSYSTEM": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_VASP": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_GAUSSIAN": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_NANOVGUTILS": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_TENSORVISBASE": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_TENSORVISIO": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_TENSORVISPYTHON": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_INTEGRALLINEFILTERING": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_MOLVISBASE": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_MOLVISGL": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_MOLVISPYTHON": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_DATAFRAMECLUSTERING": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_C3D": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_TTK": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_OPACTOPT": { "type": "BOOL", "value": "OFF" },
+        "IVW_MODULE_PYTHONTOOLS": { "type": "BOOL", "value": "OFF" }
       }
     },
     {

README.md

@@ -6,6 +6,11 @@ Additional Inviwo modules grouped into different categories. To enable the modul
 * IntegralLineFiltering: Provides functionality to convert a `IntegralLineSet` to `DataFrame` containing various metrics of the lines that can be used together with the plotting functionality in the `Plotting` and `PlottingGL` modules in core.  See example workspace on how to use it. 
 
 ## infovis - Information Visualization
+
+## infravis - various modules
+
+* AstroPhysics: primarily Python-based processors dealing with ALMA data in the FITS data format
+
 ## medvis - Medical Visualization
 
 * DICOM: functionality for loading and writing DICOM files using the Grassroots DICOM ([GDCM](https://sourceforge.net/projects/gdcm/))

infravis/astrophysics/CMakeLists.txt

@@ -0,0 +1,46 @@
+ivw_module(AstroPhysics)
+
+set(HEADER_FILES
+    include/infravis/astrophysics/astrophysicsmodule.h
+    include/infravis/astrophysics/astrophysicsmoduledefine.h
+    include/infravis/astrophysics/processors/fitsvolumeraycaster.h
+    include/infravis/astrophysics/shadercomponents/fitsnonlineardepthcomponent.h
+)
+ivw_group("Header Files" ${HEADER_FILES})
+
+set(SOURCE_FILES
+    src/astrophysicsmodule.cpp
+    src/processors/fitsvolumeraycaster.cpp
+    src/shadercomponents/fitsnonlineardepthcomponent.cpp
+)
+ivw_group("Source Files" ${SOURCE_FILES})
+
+set(PYTHON_FILES
+    python/astroviscommon.py
+    python/ivwastrovis.py
+    python/processors/AngleToVector2D.py
+    python/processors/AxisSliceAnnotation.py
+    python/processors/FitsDepthCorrection.py
+    python/processors/FitsPolarizationSource.py
+    python/processors/FitsVolumeSource.py
+)
+ivw_group("Python Files" ${PYTHON_FILES})
+
+set(SHADER_FILES
+	# Add shaders
+)
+ivw_group("Shader Files" ${SHADER_FILES})
+
+set(TEST_FILES
+    tests/unittests/astrophysics-unittest-main.cpp
+)
+ivw_add_unittest(${TEST_FILES})
+
+ivw_create_module(${SOURCE_FILES} ${HEADER_FILES} ${SHADER_FILES} ${PYTHON_FILES})
+
+ivw_add_to_module_pack(${CMAKE_CURRENT_SOURCE_DIR}/python)
+
+set_property(GLOBAL APPEND PROPERTY IVW_PYTHON_ADDITIONAL_MODULES astropy)
+
+# Add shader directory to install package
+#ivw_add_to_module_pack(${CMAKE_CURRENT_SOURCE_DIR}/glsl)

infravis/astrophysics/depends.cmake

@@ -0,0 +1,21 @@
+# Inviwo module dependencies for current module
+# List modules on the format "Inviwo<ModuleName>Module"
+set(dependencies
+    InviwoOpenGLModule
+    InviwoBaseGLModule
+    InviwoPython3Module
+)
+
+# Add an alias for this module. Several modules can share an alias. 
+# Useful if several modules implement the same functionality.
+# A depending module can depend on the alias, and a drop down of 
+# available implementations will be presented in CMake  
+#set(aliases ModuleAlias)
+
+# Mark the module as protected to prevent it from being reloaded
+# when using runtime module reloading. 
+#set(protected ON)
+
+# By calling set(EnableByDefault ON) the module will be set to enabled 
+# when initially being added to CMake. Default OFF.
+set(EnableByDefault ON)

infravis/astrophysics/include/infravis/astrophysics/astrophysicsmodule.h

@@ -0,0 +1,46 @@
+/*********************************************************************************
+ *
+ * Inviwo - Interactive Visualization Workshop
+ *
+ * Copyright (c) 2026 Inviwo Foundation
+ * All rights reserved.
+ *
+ * Redistribution and use in source and binary forms, with or without
+ * modification, are permitted provided that the following conditions are met:
+ *
+ * 1. Redistributions of source code must retain the above copyright notice, this
+ * list of conditions and the following disclaimer.
+ * 2. Redistributions in binary form must reproduce the above copyright notice,
+ * this list of conditions and the following disclaimer in the documentation
+ * and/or other materials provided with the distribution.
+ *
+ * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ * ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+ * DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
+ * ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
+ * (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
+ * LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
+ * ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
+ * (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
+ * SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+ *
+ *********************************************************************************/
+#pragma once
+
+#include <infravis/astrophysics/astrophysicsmoduledefine.h>
+#include <inviwo/core/common/inviwomodule.h>
+#include <modules/python3/pythonprocessorfolderobserver.h>
+#include <modules/python3/pyutils.h>
+
+namespace inviwo {
+
+class IVW_MODULE_ASTROPHYSICS_API AstroPhysicsModule : public InviwoModule {
+public:
+    explicit AstroPhysicsModule(InviwoApplication* app);
+
+    pyutil::ModulePath scripts_;
+    PythonProcessorFolderObserver pythonFolderObserver_;
+};
+
+}  // namespace inviwo

infravis/astrophysics/include/infravis/astrophysics/astrophysicsmoduledefine.h

@@ -0,0 +1,22 @@
+#pragma once
+
+// clang-format off
+#ifdef INVIWO_ALL_DYN_LINK  //DYNAMIC
+	// If we are building DLL files we must declare dllexport/dllimport
+	#ifdef IVW_MODULE_ASTROPHYSICS_EXPORTS
+		#ifdef _WIN32
+			#define IVW_MODULE_ASTROPHYSICS_API __declspec(dllexport)
+		#else  //UNIX (GCC)
+			#define IVW_MODULE_ASTROPHYSICS_API __attribute__ ((visibility ("default")))
+		#endif
+	#else
+		#ifdef _WIN32
+			#define IVW_MODULE_ASTROPHYSICS_API __declspec(dllimport)
+		#else
+			#define IVW_MODULE_ASTROPHYSICS_API
+		#endif
+	#endif
+#else  //STATIC
+	#define IVW_MODULE_ASTROPHYSICS_API
+#endif
+// clang-format on

infravis/astrophysics/include/infravis/astrophysics/processors/fitsvolumeraycaster.h

@@ -0,0 +1,67 @@
+/*********************************************************************************
+ *
+ * Inviwo - Interactive Visualization Workshop
+ *
+ * Copyright (c) 2026 Inviwo Foundation
+ * All rights reserved.
+ *
+ * Redistribution and use in source and binary forms, with or without
+ * modification, are permitted provided that the following conditions are met:
+ *
+ * 1. Redistributions of source code must retain the above copyright notice, this
+ * list of conditions and the following disclaimer.
+ * 2. Redistributions in binary form must reproduce the above copyright notice,
+ * this list of conditions and the following disclaimer in the documentation
+ * and/or other materials provided with the distribution.
+ *
+ * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ * ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+ * DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
+ * ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
+ * (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
+ * LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
+ * ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
+ * (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
+ * SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+ *
+ *********************************************************************************/
+
+#pragma once
+
+#include <infravis/astrophysics/astrophysicsmoduledefine.h>
+
+#include <modules/basegl/processors/raycasting/volumeraycasterbase.h>
+#include <modules/basegl/shadercomponents/backgroundcomponent.h>
+#include <modules/basegl/shadercomponents/cameracomponent.h>
+#include <modules/basegl/shadercomponents/entryexitcomponent.h>
+#include <modules/basegl/shadercomponents/isotfcomponent.h>
+#include <modules/basegl/shadercomponents/lightcomponent.h>
+#include <modules/basegl/shadercomponents/raycastingcomponent.h>
+#include <modules/basegl/shadercomponents/volumecomponent.h>
+
+#include <infravis/astrophysics/shadercomponents/fitsnonlineardepthcomponent.h>
+
+namespace inviwo {
+
+class IVW_MODULE_ASTROPHYSICS_API FitsVolumeRaycaster : public VolumeRaycasterBase {
+public:
+    explicit FitsVolumeRaycaster(std::string_view identifier = {},
+                                 std::string_view displayName = {});
+
+    virtual void process() override;
+
+    virtual const ProcessorInfo& getProcessorInfo() const override;
+    static const ProcessorInfo processorInfo_;
+
+private:
+    FitsNonlinearDepthComponent fits_;
+    EntryExitComponent entryExit_;
+    BackgroundComponent background_;
+    IsoTFComponent<1> isoTF_;
+    RaycastingComponent raycasting_;
+    CameraComponent camera_;
+    LightComponent light_;
+};
+
+}  // namespace inviwo

infravis/astrophysics/include/infravis/astrophysics/shadercomponents/fitsnonlineardepthcomponent.h

@@ -0,0 +1,79 @@
+/*********************************************************************************
+ *
+ * Inviwo - Interactive Visualization Workshop
+ *
+ * Copyright (c) 2026 Inviwo Foundation
+ * All rights reserved.
+ *
+ * Redistribution and use in source and binary forms, with or without
+ * modification, are permitted provided that the following conditions are met:
+ *
+ * 1. Redistributions of source code must retain the above copyright notice, this
+ * list of conditions and the following disclaimer.
+ * 2. Redistributions in binary form must reproduce the above copyright notice,
+ * this list of conditions and the following disclaimer in the documentation
+ * and/or other materials provided with the distribution.
+ *
+ * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ * ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+ * DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
+ * ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
+ * (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
+ * LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
+ * ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
+ * (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
+ * SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+ *
+ *********************************************************************************/
+#pragma once
+
+#include <infravis/astrophysics/astrophysicsmoduledefine.h>
+
+#include <inviwo/core/ports/volumeport.h>
+#include <inviwo/core/properties/stringproperty.h>
+#include <inviwo/core/properties/compositeproperty.h>
+#include <inviwo/core/properties/ordinalproperty.h>
+#include <modules/basegl/shadercomponents/shadercomponent.h>
+
+namespace inviwo {
+
+class Inport;
+class Property;
+class Shader;
+class TextureUnitContainer;
+
+class IVW_MODULE_ASTROPHYSICS_API FitsNonlinearDepthComponent : public ShaderComponent {
+public:
+    explicit FitsNonlinearDepthComponent(std::string_view volume, Document help = {});
+
+    virtual std::string_view getName() const override;
+    virtual void process(Shader& shader, TextureUnitContainer&) override;
+    virtual void initializeResources(Shader& shader) override;
+    virtual std::vector<std::tuple<Inport*, std::string>> getInports() override;
+    virtual std::vector<Property*> getProperties() override;
+
+    virtual std::vector<Segment> getSegments() override;
+
+    std::optional<size_t> channelsForVolume() const;
+
+    VolumeInport volumePort_;
+
+private:
+    CompositeProperty fitsParameters_;
+    StringProperty objectName_;
+    FloatProperty assumedDistance_;
+    FloatProperty velocityInf_;
+    FloatProperty velocityStar_;
+    FloatProperty crpix3_;
+    FloatProperty crval3_;
+    FloatProperty cdelt3_;
+    FloatProperty restFrequency_;
+    FloatVec3Property dataExtent_;
+    FloatVec3Property dataOffset_;
+    IntVec2Property validChannelRange_;
+    FloatVec3Property invalidColor_;
+    FloatProperty invalidAlpha_;
+};
+
+}  // namespace inviwo