Video producer tool using benchmarks in BDV #136
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| # bigdataviewer-core | ||
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| [](https://github.com/bigdataviewer/bigdataviewer-core/actions/workflows/build-main.yml) | ||
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| [](https://gitter.im/bigdataviewer/bigdataviewer-core?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) ImgLib2-based viewer for registered SPIM stacks and more | ||
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| Feature added in this fork: **Interactive Video producing using Spline interpolation** | ||
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| ### Install: | ||
| `$ ./install.sh` | ||
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| ### Run: | ||
| `$ ./bdv INPUT_PATH` | ||
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| ### How to use: | ||
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| 1- **Video producer panel** can be opened by clicking `F7` or via `Tools -> Produce Movie` | ||
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| 2- By opening Video Producer you get this panel | ||
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| - `+` To add current frame | ||
| - `-` To delete last frame | ||
| - Preview with a frame down-sampling and sleep time between frames | ||
| - Accel: you select the interpolation: `Slow start` , `slow end` , `Symmetric` ... | ||
| - Export: Can be in `Json` or `PNG sequence` | ||
| - Import saved `Json` | ||
| ======= | ||
| [](https://imagesc.zulipchat.com/#narrow/stream/327326-BigDataViewer) | ||
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| ImgLib2-based viewer for registered SPIM stacks and more | ||
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| #!/bin/bash | ||
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| # This script is shamelessly adapted from https://github.com/saalfeldlab/n5-utils, thanks @axtimwalde & co! | ||
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| VERSION="10.3.2-SNAPSHOT" | ||
| INSTALL_DIR=${1:-$(pwd)} | ||
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| echo "" | ||
| echo "Installing into $INSTALL_DIR" | ||
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| # check for operating system | ||
| if [[ "$OSTYPE" == "linux-gnu" ]]; then | ||
| echo "Assuming on Linux operating system" | ||
| MEM=$(cat /proc/meminfo | grep MemTotal | sed s/^MemTotal:\\\s*\\\|\\\s\\+[^\\\s]*$//g) | ||
| MEMGB=$(($MEM/1024/1024)) | ||
| MEM=$((($MEMGB/5)*4)) | ||
| elif [[ "$OSTYPE" == "darwin"* ]]; then | ||
| echo "Assuming on MacOS X operating system" | ||
| # sysctl returns total hardware memory size in bytes | ||
| MEM=$(sysctl hw.memsize | grep hw.memsize | sed s/hw.memsize://g) | ||
| MEMGB=$(($MEM/1024/1024/1024)) | ||
| MEM=$((($MEMGB/5)*4)) | ||
| else | ||
| echo "ERROR - Operating system (arg2) must be either linux or osx - EXITING (on windows please run as a normal Java class from e.g. Eclipse)" | ||
| exit | ||
| fi | ||
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| echo "Available memory:" $MEMGB "GB, setting Java memory limit to" $MEM "GB" | ||
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| mvn clean install | ||
| mvn -Dmdep.outputFile=cp.txt -Dmdep.includeScope=runtime dependency:build-classpath | ||
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| echo "" | ||
| echo "Installing 'bdv' command into" $INSTALL_DIR | ||
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| echo '#!/bin/bash' > bdv | ||
| echo '' >> bdv | ||
| echo "JAR=\$HOME/.m2/repository/sc/fiji/bigdataviewer-core/${VERSION}/bigdataviewer-core-${VERSION}.jar" >> bdv | ||
| echo 'java \' >> bdv | ||
| echo " -Xmx${MEM}g \\" >> bdv | ||
| echo ' -XX:+UseConcMarkSweepGC \' >> bdv | ||
| echo -n ' -cp $JAR:' >> bdv | ||
| echo -n $(cat cp.txt) >> bdv | ||
| echo ' \' >> bdv | ||
| echo ' bdv.BigDataViewer "$@"' >> bdv | ||
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| chmod a+x bdv | ||
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| if [ $(pwd) == "$INSTALL_DIR" ]; then | ||
| echo "Installation directory equals current directory, we are done." | ||
| else | ||
| echo "Creating directory $INSTALL_DIR and moving files..." | ||
| mkdir -p $INSTALL_DIR | ||
| mv bdv $INSTALL_DIR/ | ||
| fi | ||
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| rm cp.txt | ||
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| echo "Installation finished." |
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| package bdv.tools.movie; | ||
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| import javax.swing.*; | ||
| import java.awt.*; | ||
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| import java.awt.image.BufferedImage; | ||
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| public class ImagePanel extends JPanel { | ||
| private final BufferedImage image; | ||
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| public ImagePanel(BufferedImage image) { | ||
| super(); | ||
| setPreferredSize(new Dimension(90, 90)); | ||
| this.image = scale(image, 90, 90); | ||
| } | ||
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| public static ImagePanel snapshotOf(JPanel panel) { | ||
| return new ImagePanel(takeSnapShot(panel)); | ||
| } | ||
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| @Override | ||
| protected void paintComponent(Graphics g) { | ||
| super.paintComponent(g); | ||
| g.drawImage(image, 0, 0, this); | ||
| } | ||
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| public static BufferedImage scale(BufferedImage src, int w, int h) { | ||
| BufferedImage img = new BufferedImage(w, h, BufferedImage.TYPE_INT_RGB); | ||
| int x, y; | ||
| int ww = src.getWidth(); | ||
| int hh = src.getHeight(); | ||
| int[] ys = new int[h]; | ||
| for (y = 0; y < h; y++) | ||
| ys[y] = y * hh / h; | ||
| for (x = 0; x < w; x++) { | ||
| int newX = x * ww / w; | ||
| for (y = 0; y < h; y++) { | ||
| int col = src.getRGB(newX, ys[y]); | ||
| img.setRGB(x, y, col); | ||
| } | ||
| } | ||
| return img; | ||
| } | ||
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| public static BufferedImage takeSnapShot(JPanel panel){ | ||
| BufferedImage bufImage = new BufferedImage(panel.getSize().width, panel.getSize().height,BufferedImage.TYPE_INT_RGB); | ||
| panel.paint(bufImage.createGraphics()); | ||
| return bufImage; | ||
| } | ||
| } | ||
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| package bdv.tools.movie; | ||
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| import net.imglib2.realtransform.AffineTransform3D; | ||
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| import java.io.Serializable; | ||
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| public class MovieFrame implements Serializable { | ||
| private AffineTransform3D transform; | ||
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| private int position; | ||
| private int frames; | ||
| private int accel; | ||
| private final static int DEFAULT_FRAMES = 120; | ||
| private final static int DEFAULT_ACCEL = 0; | ||
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| public MovieFrame(int position, AffineTransform3D transform) { | ||
| this(position, transform, ((position == 0) ? 0 : DEFAULT_FRAMES), ((position == 0) ? 0 : DEFAULT_ACCEL)); | ||
| } | ||
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| public MovieFrame(int position, AffineTransform3D transform, int frames, int accel) { | ||
| this.position = position; | ||
| this.transform = transform; | ||
| this.frames = frames; | ||
| this.accel = accel; | ||
| } | ||
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| public AffineTransform3D getTransform() { | ||
| return transform; | ||
| } | ||
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| public void setTransform(AffineTransform3D transform) { | ||
| this.transform = transform; | ||
| } | ||
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| public int getPosition() { | ||
| return position; | ||
| } | ||
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| public void setPosition(int position) { | ||
| this.position = position; | ||
| } | ||
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| public int getFrames() { | ||
| return frames; | ||
| } | ||
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| public void setFrames(int frames) { | ||
| this.frames = frames; | ||
| } | ||
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| public int getAccel() { | ||
| return accel; | ||
| } | ||
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| public void setAccel(int accel) { | ||
| this.accel = accel; | ||
| } | ||
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| public static int getDefaultFrames() { | ||
| return DEFAULT_FRAMES; | ||
| } | ||
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| public static int getDefaultAccel() { | ||
| return DEFAULT_ACCEL; | ||
| } | ||
| } |
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Mention Windows install instructions or recommend WSL2.