Manuel E. Hernandez

26 papers Journal 8Unranked 18
YearRankTypeTitle / Venue / Authors
2025 J jnl
IEEE J. Biomed. Health Informatics
Ayse Dogan, Alka Bishnoi, Richard B. Sowers, Manuel E. Hernandez
2024 conf
EMBC
Liran Ziegelman, Manuel E. Hernandez
2024 J jnl
Sensors
Yih-Kuen Jan, Chi-Wen Lung, Ben-Yi Liau, Manuel E. Hernandez
2024 conf
EMBC
Maxine He, Jonathan Cerna, Abdulrahman Alkurdi, Ayse Dogan, Jennifer Zhao, Jean L. Clore, Richard B. Sowers, Elizabeth T. Hsiao-Wecksler, Manuel E. Hernandez
2024 J jnl
Sensors
Yang Hu, Mengyue Huang, Jonathan Cerna, Rachneet Kaur, Manuel E. Hernandez
2023 conf
EMBC
Prithvi Prakash, Rachneet Kaur, Joshua Levy, Richard B. Sowers, James R. Brasic, Manuel E. Hernandez
2023 J jnl
IEEE J. Biomed. Health Informatics
Rachneet Kaur, Robert W. Motl, Richard B. Sowers, Manuel E. Hernandez
2023 conf
EMBC
Grainger Sasso, Lingxiao Mou, Manuel E. Hernandez
2023 J jnl
IEEE Trans. Biomed. Eng.
Rachneet Kaur, Joshua Levy, Robert W. Motl, Richard B. Sowers, Manuel E. Hernandez
2022 conf
EMBC
Gekai Liao, Siwen Wang, Zijing Wei, Bohan Liu, Ryu Okubo, Manuel E. Hernandez
2021 conf
NER
Siwen Wang, Ryu Okubo, Gekai Liao, Conrad Ku, Richard B. Sowers, Manuel E. Hernandez
2021 conf
EMBC
Liran Ziegelman, Abdulrahman Alkurdi, Yang Hu, Alka Bishnoi, Rachneet Kaur, Richard B. Sowers, Elizabeth T. Hsiao-Wecksler, Manuel E. Hernandez
2021 J jnl
IEEE Trans. Biomed. Eng.
Rachneet Kaur, Zizhang Chen, Robert W. Motl, Manuel E. Hernandez, Richard B. Sowers
2020 conf
EMBC
Rachneet Kaur, Maxim Korolkov, Manuel E. Hernandez, Richard B. Sowers
2020 J jnl
IEEE J. Biomed. Health Informatics
Andrew Hua, Pratik Chaudhari, Nicole Johnson, Joshua Quinton, Bruce R. Schatz, David Buchner, Manuel E. Hernandez
2020 conf
EMBC
Yang Hu, Alka Bishnoi, Rachneet Kaur, Richard B. Sowers, Manuel E. Hernandez
2020 conf
BIBM
Jonathan Weyhenmeyer, Manuel E. Hernandez, Claudia Lainscsek, Howard Poizner, Terrence J. Sejnowski
2019 conf
EMBC
Rachneet Kaur, Sanjana Menon, Xiaomiao Zhang, Richard B. Sowers, Manuel E. Hernandez
2019 conf
BIBM
Rongyi Sun, Rachneet Kaur, Liran Ziegelman, Shuo Yang, Richard B. Sowers, Manuel E. Hernandez
2019 conf
Humanoids
Rachneet Kaur, Rongyi Sun, Liran Ziegelman, Richard B. Sowers, Manuel E. Hernandez
2019 conf
EMBC
Rachneet Kaur, Rongyi Sun, Liran Ziegelman, Richard B. Sowers, Manuel E. Hernandez
2018 conf
EMBC
Liran Ziegelman, Yang Hu, Manuel E. Hernandez
2018 conf
EMBC
Rachneet Kaur, Xun Lin, Alexander Layton, Manuel E. Hernandez, Richard B. Sowers
2016 conf
EMBC
Christopher Widdowson, Jatin Ganhotra, Mohammed Faizal, Marissa Wilko, Saurin Parikh, Zainulabidin Adhami, Manuel E. Hernandez
2015 J jnl
Neural Comput.
Claudia Lainscsek, Manuel E. Hernandez, Howard Poizner, Terrence J. Sejnowski
2014 conf
EMBC
Jonathan Weyhenmeyer, Manuel E. Hernandez, Claudia Lainscsek, Terrence J. Sejnowski, Howard Poizner
redb/extractors/decompiler/_archive/ghidra-test.py
← Index redb/extractors/decompiler/_archive/ghidra-test.py python
import subprocess
import json
import os
import tempfile
import uuid
import shutil
import sys
import time


def run_command(cmd, env=None):
    try:
        print(f"Starting command: {' '.join(cmd)}")
        start_time = time.time()
        process = subprocess.Popen(
            cmd, env=env, stdout=subprocess.PIPE, stderr=subprocess.PIPE, text=True
        )

        while True:
            output = process.stdout.readline()
            if output:
                print(output.strip())
            if process.poll() is not None:
                break

        stdout, stderr = process.communicate()
        end_time = time.time()

        print(f"Command finished. Execution time: {end_time - start_time:.2f} seconds")
        print(f"Return code: {process.returncode}")

        if process.returncode != 0:
            print(f"Error output:\n{stderr}")
            return None
        return stdout
    except Exception as e:
        print(f"Error running command {' '.join(cmd)}: {e}")
        return None


def analyze_binary(ghidra_path, binary_path, java_script_path):
    print(f"Ghidra path: {ghidra_path}")
    print(f"Binary path: {binary_path}")
    print(f"Java script path: {java_script_path}")

    # Check if Java script exists
    if not os.path.exists(java_script_path):
        print(f"Error: Java script not found at {java_script_path}")
        return None

    # Set up environment variables
    env = os.environ.copy()
    java_home = "/usr/lib/jvm/java-17-openjdk-amd64"  # Adjust this path if needed
    env["JAVA_HOME"] = java_home
    env["PATH"] = f"{java_home}/bin:{env['PATH']}"
    env["LD_LIBRARY_PATH"] = f"{java_home}/lib:{env.get('LD_LIBRARY_PATH', '')}"

    # Print environment variables for debugging
    print(f"JAVA_HOME: {env['JAVA_HOME']}")
    print(f"PATH: {env['PATH']}")
    print(f"LD_LIBRARY_PATH: {env['LD_LIBRARY_PATH']}")

    # Check Ghidra installation
    analyzeHeadless_path = f"{ghidra_path}/support/analyzeHeadless"
    print(f"analyzeHeadless exists: {os.path.exists(analyzeHeadless_path)}")

    print(f"Binary file exists: {os.path.exists(binary_path)}")

    # Check Java
    java_version = run_command(["java", "-version"], env=env)
    print(f"Java version: {java_version}")

    # Create a temporary project directory
    project_path = tempfile.gettempdir() + "/ghidra_" + str(uuid.uuid4())
    os.makedirs(project_path, exist_ok=True)
    print(f"Created temporary project path: {project_path}")
    output_file = ""

    try:
        # Run Ghidra's headless analyzer
        analyze_cmd = [
            analyzeHeadless_path,
            project_path,
            "TempProject",
            "-import",
            binary_path,
            "-postScript",
            java_script_path,
            "-deleteProject",
        ]

        result = run_command(analyze_cmd, env=env)
        if result is None:
            return None

        # Read the output JSON file
        output_file = "ghidra_output.json"
        if os.path.exists(output_file):
            with open(output_file, "r") as f:
                functions = json.load(f)
            return functions
        else:
            print(
                f"Output file {output_file} not found. Ghidra analysis may have failed."
            )
            # List files in the current directory
            print("Files in the current directory:")
            print("\n".join(os.listdir(".")))
            return None
    finally:
        # Clean up
        if os.path.exists(output_file):
            os.remove(output_file)
        if os.path.exists(project_path):
            shutil.rmtree(project_path)


# Example usage
if __name__ == "__main__":
    # if len(sys.argv) != 4:
    #     print("Usage: python script.py <ghidra_path> <binary_path> <java_script_path>")
    #     sys.exit(1)

    # ghidra_path = sys.argv[1]
    # binary_path = sys.argv[2]
    # java_script_path = sys.argv[3]

    ghidra_path = "/opt/ghidra"
    binary_path = "/home/p4c0/dev/redb/test_files/hello"
    java_script_path = (
        "/opt/ghidra/Ghidra/Features/Base/ghidra_scripts/GhidraDecompilerScript.java"
    )

    functions = analyze_binary(ghidra_path, binary_path, java_script_path)

    if functions:
        print(f"Extracted functions from {binary_path}:")
        for func in functions:
            print(f"\nFunction: {func['name']}")
            print(f"Address: {func['address']}")
            print(f"Decompiled code:\n{func['decompiled']}")
    else:
        print("Failed to extract functions.")