diff --git a/src/main/java/org/bioimageanalysis/icy/deeplearning/tensorflow/v1/Tensorflow1InterfaceJAvaCPP.java b/src/main/java/org/bioimageanalysis/icy/deeplearning/tensorflow/v1/Tensorflow1InterfaceJAvaCPP.java
deleted file mode 100644
index f06aaede4a5ad103225cfc05b3cd9ba6dde89205..0000000000000000000000000000000000000000
--- a/src/main/java/org/bioimageanalysis/icy/deeplearning/tensorflow/v1/Tensorflow1InterfaceJAvaCPP.java
+++ /dev/null
@@ -1,268 +0,0 @@
-package org.bioimageanalysis.icy.deeplearning.tensorflow.v1;
-
-import java.io.File;
-import java.io.IOException;
-import java.io.OutputStream;
-import java.io.RandomAccessFile;
-import java.net.ServerSocket;
-import java.net.Socket;
-import java.net.URL;
-import java.net.URLClassLoader;
-import java.nio.ByteBuffer;
-import java.nio.FloatBuffer;
-import java.nio.MappedByteBuffer;
-import java.nio.channels.FileChannel;
-import java.nio.file.Files;
-import java.nio.file.Paths;
-import java.security.CodeSource;
-import java.security.ProtectionDomain;
-import java.util.ArrayList;
-import java.util.HashMap;
-import java.util.LinkedList;
-import java.util.List;
-import java.util.stream.Collectors;
-
-import org.bioimageanalysis.icy.deeplearning.engine.DeepLearningEngineInterface;
-import org.bioimageanalysis.icy.deeplearning.exceptions.LoadModelException;
-import org.bioimageanalysis.icy.deeplearning.exceptions.RunModelException;
-import org.bioimageanalysis.icy.deeplearning.tensor.Tensor;
-import org.bioimageanalysis.icy.deeplearning.tensorflow.v1.tensor.MappedBufferToImgLib2;
-import org.bioimageanalysis.icy.deeplearning.tensorflow.v1.tensor.MappedFileBuilder;
-import org.bioimageanalysis.icy.deeplearning.tensorflow.v1.tensor.TensorBuilder;
-import org.bytedeco.javacpp.BytePointer;
-import org.bytedeco.javacpp.Pointer;
-import org.bytedeco.javacpp.indexer.Indexer;
-import org.bytedeco.tensorflow.RunOptions;
-import org.bytedeco.tensorflow.SessionOptions;
-import org.bytedeco.tensorflow.StringTensorPairVector;
-import org.bytedeco.tensorflow.StringUnorderedSet;
-import org.bytedeco.tensorflow.StringVector;
-import org.bytedeco.tensorflow.TensorShape;
-import org.bytedeco.tensorflow.TensorVector;
-
-
-/**
- * This plugin includes the libraries to convert back and forth TensorFlow 1 to Sequences and IcyBufferedImages.
- *
- * @see IcyBufferedImageBuilder IcyBufferedImageBuilder: Create images from tensors.
- * @see Nd4fBuilder SequenceBuilder: Create sequences from tensors.
- * @see TensorBuilder TensorBuilder: Create tensors from images and sequences.
- * @author Carlos Garcia Lopez de Haro and Daniel Felipe Gonzalez Obando
- */
-public class Tensorflow1InterfaceJAvaCPP implements DeepLearningEngineInterface
-{
- private static final String[] MODEL_TAGS = {"serve", "inference", "train", "eval", "gpu", "tpu"};
-
- private static final String[] TF_MODEL_TAGS = {"tf.saved_model.tag_constants.SERVING",
- "tf.saved_model.tag_constants.INFERENCE", "tf.saved_model.tag_constants.TRAINING",
- "tf.saved_model.tag_constants.EVAL", "tf.saved_model.tag_constants.GPU",
- "tf.saved_model.tag_constants.TPU"};
-
- private static final String[] SIGNATURE_CONSTANTS = {"serving_default", "inputs", "tensorflow/serving/classify",
- "classes", "scores", "inputs", "tensorflow/serving/predict", "outputs", "inputs",
- "tensorflow/serving/regress", "outputs", "train", "eval", "tensorflow/supervised/training",
- "tensorflow/supervised/eval"};
-
- private static final String[] TF_SIGNATURE_CONSTANTS = {
- "tf.saved_model.signature_constants.DEFAULT_SERVING_SIGNATURE_DEF_KEY",
- "tf.saved_model.signature_constants.CLASSIFY_INPUTS",
- "tf.saved_model.signature_constants.CLASSIFY_METHOD_NAME",
- "tf.saved_model.signature_constants.CLASSIFY_OUTPUT_CLASSES",
- "tf.saved_model.signature_constants.CLASSIFY_OUTPUT_SCORES",
- "tf.saved_model.signature_constants.PREDICT_INPUTS",
- "tf.saved_model.signature_constants.PREDICT_METHOD_NAME",
- "tf.saved_model.signature_constants.PREDICT_OUTPUTS", "tf.saved_model.signature_constants.REGRESS_INPUTS",
- "tf.saved_model.signature_constants.REGRESS_METHOD_NAME",
- "tf.saved_model.signature_constants.REGRESS_OUTPUTS",
- "tf.saved_model.signature_constants.DEFAULT_TRAIN_SIGNATURE_DEF_KEY",
- "tf.saved_model.signature_constants.DEFAULT_EVAL_SIGNATURE_DEF_KEY",
- "tf.saved_model.signature_constants.SUPERVISED_TRAIN_METHOD_NAME",
- "tf.saved_model.signature_constants.SUPERVISED_EVAL_METHOD_NAME"};
- /**
- * Number of bytes typically used to represent the datatype in the memory mapped file
- */
- final private static int DATATYPE_KEY_LENGTH = 2;
- /**
- * Number of bytes typically used to represent an identification header in the memory mapped file
- */
- final private static int MAGIC_WORD_LENGTH = 2;
- /**
- * Number of bytes typically used to represent the shape in the memory mapped file.
- * A typical shape (on the bigger side) would be: [1, 3, 32, 1024, 1024].
- * Add a factor 2 to the length as a security margin
- */
- final private static int TYPICAL_SHAPE_LENTH = 2;
-
- private String tmpDir;
-
- private String modelFolder;
-
-
- public Tensorflow1InterfaceJAvaCPP() throws IOException
- {
- this.tmpDir = getTemporaryDir();
- }
-
- public static void main(String[] args) throws LoadModelException, RunModelException, IOException {
- // Unpack the args needed
- if (args.length < 4)
- throw new IllegalArgumentException("Error exectuting Tensorflow 1, "
- + "at least arguments are required:" + System.lineSeparator()
- + " - Folder where the model is located" + System.lineSeparator()
- + " - Temporary dir where the memory mapped files are located" + System.lineSeparator()
- + " - Name of the model input followed by the String + '_model_input'" + System.lineSeparator()
- + " - Name of the second model input (if it exists) followed by the String + '_model_input'" + System.lineSeparator()
- + " - ...." + System.lineSeparator()
- + " - Name of the nth model input (if it exists) followed by the String + '_model_input'" + System.lineSeparator()
- + " - Name of the model output followed by the String + '_model_output'" + System.lineSeparator()
- + " - Name of the second model output (if it exists) followed by the String + '_model_output'" + System.lineSeparator()
- + " - ...." + System.lineSeparator()
- + " - Name of the nth model output (if it exists) followed by the String + '_model_output'" + System.lineSeparator()
- );
- String modelFolder = args[0];
- if (new File(modelFolder).isDirectory()) {
- throw new IllegalArgumentException("Argument 0 of the main method, '" + modelFolder + "' "
- + "should be an existing directory containing a Tensorflow 1 model.");
- }
-
- Tensorflow1InterfaceJAvaCPP tfInterface = new Tensorflow1InterfaceJAvaCPP();
- tfInterface.tmpDir = args[1];
- if (new File(args[1]).isDirectory()) {
- throw new IllegalArgumentException("Argument 1 of the main method, '" + args[1] + "' "
- + "should be an existing directory.");
- }
-
- tfInterface.loadModel(modelFolder, modelFolder);
-
- HashMap<String, List<String>> map = getInputTensorsFileNames(args);
- List<String> inputNames = map.get(INPUTS_MAP_KEY);
- List<String> outputNames = map.get(OUTPUTS_MAP_KEY);
-
- for (String inName : inputNames) {
- try (RandomAccessFile rd =
- new RandomAccessFile(tfInterface.tmpDir + File.separator + inName, "r");
- FileChannel fc = rd.getChannel();) {
- int initialLenghToRead = inName.length() + DATATYPE_KEY_LENGTH + MAGIC_WORD_LENGTH + TYPICAL_SHAPE_LENTH;
- MappedByteBuffer mem = fc.map(FileChannel.MapMode.READ_WRITE, 0, fc.size());
- }
- }
-
-
-
-
-
-
- System.out.println("");
- System.out.println(System.getProperty("java.library.path"));
- String dir = args[0];
- org.bytedeco.tensorflow.SavedModelBundle model = new org.bytedeco.tensorflow.SavedModelBundle();
- StringUnorderedSet ss = new StringUnorderedSet();
- ss.insert(new BytePointer("serve"));
- SessionOptions sesOp = new SessionOptions();
- RunOptions runOp = new RunOptions();
- org.bytedeco.tensorflow.global.tensorflow.LoadSavedModel(sesOp, runOp, dir, ss, model);
-
- TensorShape shape = new TensorShape(1, 512, 512, 1);
- org.bytedeco.tensorflow.Tensor x =
- new org.bytedeco.tensorflow.Tensor(org.bytedeco.tensorflow.global.tensorflow.DT_FLOAT,
- shape);
- FloatBuffer x_flat = x.createBuffer();
- float[] arr = new float[512 * 512];
- x_flat.put(arr);
-
- TensorVector outputV = new TensorVector();
- //outputV.resize(1);
- org.bytedeco.tensorflow.Session session = model.session();
- StringTensorPairVector pair = new StringTensorPairVector(new String[] {"input_2_4:0"}, new org.bytedeco.tensorflow.Tensor[] {x});
- StringVector sVec = new StringVector("conv2d_33_4/Sigmoid:0");
- StringVector svec2 = new StringVector("conv2d_33_4/Sigmoid:0");
- session.Run(pair, sVec, svec2, outputV);
- /*
- session.Run(new RunOptions(),
- new StringTensorPairVector(new String[] {"input_2_4:0"}, new org.bytedeco.tensorflow.Tensor[] {x}),
- new StringVector("conv2d_33_4/Sigmoid:0"), new StringVector("conv2d_33_4/Sigmoid:0"),
- out, new RunMetadata());
- */
-
-
- //org.bytedeco.tensorflow.Tensor y = outputV.get(0);
-
- Indexer aa = outputV.get(0).createIndexer();
- Indexer bb = x.createIndexer();
- //Indexer cc = out.get(0).createIndexer();
- FloatBuffer y_flat = outputV.get(0).createBuffer();
- float sss = 0;
- for (int i = 0; i < y_flat.capacity(); i ++) {
- sss += y_flat.get(i);
- }
- float mean = sss / y_flat.capacity();
- x.close();
- outputV.close();
- session.Close();
- session.close();
- model.close();
- aa.close();
- bb.close();
- ss.close();
- sesOp.close();
- runOp.close();
- shape.Clear();
- shape.close();
- pair.clear();
- pair.close();
- sVec.clear();
- sVec.close();
- svec2.clear();
- svec2.close();
-
-
- x.deallocate();
- outputV.deallocate();
- session.deallocate();
- session.deallocate();
- model.deallocate();
- ss.deallocate();
- sesOp.deallocate();
- runOp.deallocate();
- shape.deallocate();
- pair.deallocate();
- sVec.deallocate();
- svec2.deallocate();
- System.out.println(mean);
- }
-
- @Override
- public void loadModel(String modelFolder, String modelSource) throws LoadModelException {
-
- }
-
- @Override
- public void run(List<Tensor<?>> inputTensors, List<Tensor<?>> outputTensors) throws RunModelException {
- createTensorsForInterprocessing(inputTensors);
- List<String> args = getProcessCommandsWithoutArgs();
- args.add(modelFolder);
- args.add(this.tmpDir);
- for (Tensor tensor : inputTensors) {args.add(tensor.getName() + INPUT_FILE_TERMINATION);}
- for (Tensor tensor : outputTensors) {args.add(tensor.getName() + OUTPUT_FILE_TERMINATION);}
-
- ProcessBuilder builder = new ProcessBuilder(args);
- Process process;
- try {
- process = builder.inheritIO().start();
- if (process.waitFor() != 0)
- throw new RunModelException("Error executing the Tensorflow 1 model in"
- + " a separate process. The process was not terminated correctly.");
- } catch (RunModelException e) {
- throw e;
- } catch (Exception e) {
- throw new RunModelException(e.getCause().toString());
- }
-
- retrieveInterprocessingTensors(outputTensors);
- }
-
- @Override
- public void closeModel() {
- Pointer.interruptDeallocatorThread();
- }
-}