particleincell / starfish Goto Github PK
View Code? Open in Web Editor NEWStarfish is a two-dimensional PIC-DSMC plasma / rarefied gas simulation program.
Home Page: https://www.particleincell.com/starfish
License: Other
starfish's Issues
How to make *.jar file
I tried to run this code, but I don't know to make "starfish.jar" file as written in "Starfish-UG.pdf".
Please tell me command to make *.ja file and your enviroment.
How to compile Starfish correctly and create the .jar file?
Hello,
I am a PhD student in physics, and I would like to compile Starfish, in order to perform simulations for my thesis.
Unfortunately, I am facing some problems.
I started by wanting to compile with Eclipse, but it seems to lack build files to make a functional compilation and I admit I am quite new to Eclipse.
If you are compiling with Eclipse, it might be a good idea to add in the README the steps to follow.
After my failures with Eclipse, I tried to compile from the command line (I'm on GNU/Linux Kubuntu), with javac :
javac -cp src/ src/starfish/core/common/Starfish.java
Error message
src/starfish/gui/viewer/SimulationResultViewer.java:23: error: cannot find symbol
private vtkXMLStructuredGridReader reader;
^
symbol: class vtkXMLStructuredGridReader
location: class SimulationResultViewer
src/starfish/gui/viewer/ViewerWrapper.java:3: error: cannot find symbol
import vtk.vtkInteractorStyleImage;
^
symbol: class vtkInteractorStyleImage
location: package vtk
src/starfish/gui/viewer/ViewerWrapper.java:5: error: cannot find symbol
import vtk.vtkRenderWindow;
^
symbol: class vtkRenderWindow
location: package vtk
src/starfish/gui/viewer/ViewerWrapper.java:6: error: cannot find symbol
import vtk.vtkRenderWindowInteractor;
^
symbol: class vtkRenderWindowInteractor
location: package vtk
src/starfish/gui/viewer/SimulationResultViewer.java:60: error: cannot find symbol
private vtkActor previousActor = null;
^
symbol: class vtkActor
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:61: error: cannot find symbol
private static vtkScalarBarActor scalarBarActor = new vtkScalarBarActor();
^
symbol: class vtkScalarBarActor
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewerSettings.java:7: error: cannot find symbol
import vtk.vtkDataArray;
^
symbol: class vtkDataArray
location: package vtk
src/starfish/gui/viewer/SimulationResultViewerSettings.java:8: error: cannot find symbol
import vtk.vtkLookupTable;
^
symbol: class vtkLookupTable
location: package vtk
src/vtk/vtkPanel.java:29: error: cannot find symbol
protected vtkRenderWindow rw = new vtkOpenGLRenderWindow();
^
symbol: class vtkRenderWindow
location: class vtkPanel
src/vtk/vtkPanel.java:30: error: cannot find symbol
protected vtkRenderer ren = new vtkRenderer();
^
symbol: class vtkRenderer
location: class vtkPanel
src/vtk/vtkPanel.java:31: error: cannot find symbol
protected vtkCamera cam = null;
^
symbol: class vtkCamera
location: class vtkPanel
src/vtk/vtkPanel.java:32: error: cannot find symbol
protected vtkLight lgt = new vtkLight();
^
symbol: class vtkLight
location: class vtkPanel
src/vtk/vtkPanel.java:80: error: cannot find symbol
protected native int RenderCreate(vtkRenderWindow id0);
^
symbol: class vtkRenderWindow
location: class vtkPanel
src/vtk/vtkPanel.java:97: error: cannot find symbol
public vtkPanel(vtkRenderWindow renwin)
^
symbol: class vtkRenderWindow
location: class vtkPanel
src/vtk/vtkPanel.java:126: error: cannot find symbol
public vtkRenderer GetRenderer() { return ren; }
^
symbol: class vtkRenderer
location: class vtkPanel
src/vtk/vtkPanel.java:128: error: cannot find symbol
public vtkRenderWindow GetRenderWindow() { return rw; }
^
symbol: class vtkRenderWindow
location: class vtkPanel
src/starfish/gui/viewer/colorconfig/ColorConfig.java:3: error: cannot find symbol
import vtk.vtkLookupTable;
^
symbol: class vtkLookupTable
location: package vtk
src/starfish/gui/viewer/colorconfig/ColorSchemePresets.java:3: error: cannot find symbol
import vtk.vtkLookupTable;
^
symbol: class vtkLookupTable
location: package vtk
src/starfish/gui/viewer/SimulationResultViewerSettings.java:162: error: cannot find symbol
public void putVar(String var, vtkDataArray data) {
^
symbol: class vtkDataArray
location: class SimulationResultViewerSettings
src/starfish/gui/viewer/SimulationResultViewerSettings.java:178: error: cannot find symbol
public vtkLookupTable getLookupTable(String var) {
^
symbol: class vtkLookupTable
location: class SimulationResultViewerSettings
src/starfish/gui/viewer/colorconfig/ColorConfig.java:64: error: cannot find symbol
public vtkLookupTable buildLookupTable() {
^
symbol: class vtkLookupTable
location: class ColorConfig
src/starfish/gui/viewer/colorconfig/ColorSchemePresets.java:31: error: cannot find symbol
private vtkLookupTable cache;
^
symbol: class vtkLookupTable
location: class ColorSchemePresets
src/starfish/gui/viewer/colorconfig/ColorSchemePresets.java:36: error: cannot find symbol
public vtkLookupTable createLookupTable(int tableValues) {
^
symbol: class vtkLookupTable
location: class ColorSchemePresets
src/starfish/gui/viewer/colorconfig/ColorSchemePresets.java:42: error: cannot find symbol
private vtkLookupTable generateLookupTable(int tableValues) {
^
symbol: class vtkLookupTable
location: class ColorSchemePresets
src/starfish/core/io/OutputModule.java:76: error: cannot find symbol
allVariables.addAll(List.of(variables));
^
symbol: method of(String[])
location: interface List
src/starfish/core/io/OutputModule.java:78: error: cannot find symbol
allScalars.addAll(List.of(scalars));
^
symbol: method of(String[])
location: interface List
src/starfish/core/io/OutputModule.java:80: error: cannot find symbol
allCellData.addAll(List.of(cell_data));
^
symbol: method of(String[])
location: interface List
src/starfish/gui/common/JTextFileChooserCombo.java:63: error: cannot find symbol
return textField.getText().isBlank() ? null : new File(textField.getText());
^
symbol: method isBlank()
location: class String
src/starfish/gui/LibraryLoader.java:3: error: cannot find symbol
import vtk.vtkNativeLibrary;
^
symbol: class vtkNativeLibrary
location: package vtk
src/starfish/gui/viewer/SimulationResultViewer.java:61: error: cannot find symbol
private static vtkScalarBarActor scalarBarActor = new vtkScalarBarActor();
^
symbol: class vtkScalarBarActor
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:71: error: cannot find symbol
vtkStructuredGrid structuredGrid = reader.GetOutput();
^
symbol: class vtkStructuredGrid
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:74: error: cannot find symbol
vtkDataSetMapper mapper = new vtkDataSetMapper();
^
symbol: class vtkDataSetMapper
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:74: error: cannot find symbol
vtkDataSetMapper mapper = new vtkDataSetMapper();
^
symbol: class vtkDataSetMapper
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:80: error: cannot find symbol
vtkLookupTable lookupTable = main.getViewerSettings().getLookupTable(selectedVar);
^
symbol: class vtkLookupTable
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:88: error: cannot find symbol
vtkActor actor = new vtkActor();
^
symbol: class vtkActor
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:88: error: cannot find symbol
vtkActor actor = new vtkActor();
^
symbol: class vtkActor
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:169: error: cannot find symbol
vtkPointData data = reader.GetOutputAsDataSet().GetPointData();
^
symbol: class vtkPointData
location: class SimulationResultViewer
src/starfish/gui/viewer/SimulationResultViewer.java:192: error: cannot find symbol
reader = new vtkXMLStructuredGridReader();
^
symbol: class vtkXMLStructuredGridReader
location: class SimulationResultViewer
src/starfish/gui/viewer/ViewerWrapper.java:61: error: cannot find symbol
vtkRenderWindow renderWindow = new vtkRenderWindow();
^
symbol: class vtkRenderWindow
location: class ViewerWrapper
src/starfish/gui/viewer/ViewerWrapper.java:61: error: cannot find symbol
vtkRenderWindow renderWindow = new vtkRenderWindow();
^
symbol: class vtkRenderWindow
location: class ViewerWrapper
src/starfish/gui/viewer/ViewerWrapper.java:62: error: cannot find symbol
vtkRenderWindowInteractor interactor = new vtkRenderWindowInteractor();
^
symbol: class vtkRenderWindowInteractor
location: class ViewerWrapper
src/starfish/gui/viewer/ViewerWrapper.java:62: error: cannot find symbol
vtkRenderWindowInteractor interactor = new vtkRenderWindowInteractor();
^
symbol: class vtkRenderWindowInteractor
location: class ViewerWrapper
src/starfish/gui/viewer/ViewerWrapper.java:65: error: cannot find symbol
vtkInteractorStyleImage style = new vtkInteractorStyleImage();
^
symbol: class vtkInteractorStyleImage
location: class ViewerWrapper
src/starfish/gui/viewer/ViewerWrapper.java:65: error: cannot find symbol
vtkInteractorStyleImage style = new vtkInteractorStyleImage();
^
symbol: class vtkInteractorStyleImage
location: class ViewerWrapper
src/vtk/vtkPanel.java:29: error: cannot find symbol
protected vtkRenderWindow rw = new vtkOpenGLRenderWindow();
^
symbol: class vtkOpenGLRenderWindow
location: class vtkPanel
src/vtk/vtkPanel.java:30: error: cannot find symbol
protected vtkRenderer ren = new vtkRenderer();
^
symbol: class vtkRenderer
location: class vtkPanel
src/vtk/vtkPanel.java:32: error: cannot find symbol
protected vtkLight lgt = new vtkLight();
^
symbol: class vtkLight
location: class vtkPanel
src/vtk/vtkPanel.java:187: error: cannot find symbol
if (rw instanceof vtkOpenGLRenderWindow)
^
symbol: class vtkOpenGLRenderWindow
location: class vtkPanel
src/vtk/vtkPanel.java:189: error: cannot find symbol
((vtkOpenGLRenderWindow)rw).BlitDisplayFramebuffer();
^
symbol: class vtkOpenGLRenderWindow
location: class vtkPanel
src/vtk/vtkPanel.java:392: error: cannot find symbol
vtkActorCollection ac;
^
symbol: class vtkActorCollection
location: class vtkPanel
src/vtk/vtkPanel.java:393: error: cannot find symbol
vtkActor anActor;
^
symbol: class vtkActor
location: class vtkPanel
src/vtk/vtkPanel.java:407: error: cannot find symbol
vtkActorCollection ac;
^
symbol: class vtkActorCollection
location: class vtkPanel
src/vtk/vtkPanel.java:408: error: cannot find symbol
vtkActor anActor;
^
symbol: class vtkActor
location: class vtkPanel
src/vtk/vtkPanel.java:427: error: cannot find symbol
vtkWindowToImageFilter w2if = new vtkWindowToImageFilter();
^
symbol: class vtkWindowToImageFilter
location: class vtkPanel
src/vtk/vtkPanel.java:427: error: cannot find symbol
vtkWindowToImageFilter w2if = new vtkWindowToImageFilter();
^
symbol: class vtkWindowToImageFilter
location: class vtkPanel
src/vtk/vtkPanel.java:433: error: cannot find symbol
vtkTIFFWriter writer = new vtkTIFFWriter();
^
symbol: class vtkTIFFWriter
location: class vtkPanel
src/vtk/vtkPanel.java:433: error: cannot find symbol
vtkTIFFWriter writer = new vtkTIFFWriter();
^
symbol: class vtkTIFFWriter
location: class vtkPanel
src/vtk/vtkPanel.java:444: error: cannot find symbol
vtkPropPicker picker = new vtkPropPicker();
^
symbol: class vtkPropPicker
location: class vtkPanel
src/vtk/vtkPanel.java:444: error: cannot find symbol
vtkPropPicker picker = new vtkPropPicker();
^
symbol: class vtkPropPicker
location: class vtkPanel
src/starfish/gui/viewer/colorconfig/ColorConfig.java:65: error: cannot find symbol
vtkLookupTable output = colorScheme.createLookupTable(numBuckets);
^
symbol: class vtkLookupTable
location: class ColorConfig
src/starfish/gui/viewer/colorconfig/ColorSchemePresets.java:44: error: cannot find symbol
vtkLookupTable output = new vtkLookupTable();
^
symbol: class vtkLookupTable
location: class ColorSchemePresets
src/starfish/gui/viewer/colorconfig/ColorSchemePresets.java:44: error: cannot find symbol
vtkLookupTable output = new vtkLookupTable();
^
symbol: class vtkLookupTable
location: class ColorSchemePresets
src/starfish/gui/builder/form/entry/EntryFactory.java:89: error: cannot find symbol
if (!condition.isBlank()) {
^
symbol: method isBlank()
location: variable condition of type String
src/starfish/gui/LibraryLoader.java:42: error: cannot find symbol
return vtkNativeLibrary.LoadAllNativeLibraries();
^
symbol: variable vtkNativeLibrary
location: class LibraryLoader
src/starfish/gui/LibraryLoader.java:69: error: cannot find symbol
res = vtkNativeLibrary.LoadAllNativeLibraries();
^
symbol: variable vtkNativeLibrary
location: class LibraryLoader
src/starfish/gui/LibraryLoader.java:73: error: cannot find symbol
vtkNativeLibrary.DisableOutputWindow(null);
^
symbol: variable vtkNativeLibrary
location: class LibraryLoader
src/starfish/gui/builder/RootUserObject.java:24: error: cannot find symbol
htmlString = new String(is.readAllBytes(), StandardCharsets.UTF_8);
^
symbol: method readAllBytes()
location: variable is of type InputStream
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
67 errors
Unfortunately, I still have compile errors, it seems that the VTK files are not present in the repository. Maybe you are using an external repository for this? Or maybe the master version is not ready to be compiled yet and I should work with an earlier version?
Thanks in advance for guiding me a bit.
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