James Lindsay

19 papers B 3C 1Journal 5Unranked 10
YearRankTypeTitle / Venue / Authors
2025 J jnl
Neural Comput. Appl.
James Lindsay, Sidney Givigi
2024 conf
ICCSPA
James Lindsay, Sidney Givigi
2024 J jnl
CoRR
Ethan Cerami, Pavel Trukhanov, Morgan A. Paul, Michael J. Hassett, Irbaz B. Riaz, James Lindsay, Emily Mallaber, Harry Klein, Gufran Gungor, Matthew Galvin, Stephen C. Van Nostrand, Joyce Yu, Tali Mazor, Kenneth L. Kehl
2023 conf
SysCon
James Lindsay, Sidney Givigi
2020 B conf
IJCNN
James Lindsay, Sidney Gigivi
2018 B conf
SMC
James Lindsay, Sidney Givigi
2014 conf
ICCABS
Adrian Caciula, Olga Glebova, Alexander Artyomenko, Serghei Mangul, James Lindsay, Ion I. Mandoiu, Alex Zelikovsky
2014 J jnl
BMC Bioinform.
Edward Hemphill, James Lindsay, Chih Lee, Ion I. Mandoiu, Craig E. Nelson
2014 J jnl
BMC Bioinform.
James Lindsay, Hamed Salooti, Ion I. Mandoiu, Alexander Zelikovsky
2014 conf
ICCABS
Igor Mandric, James Lindsay, Ion I. Mandoiu, Alex Zelikovsky
2013 conf
ICCABS
Adrian Caciula, Alex Zelikovsky, Serghei Mangul, James Lindsay, Ion I. Mandoiu
2013 conf
ICCABS
James Lindsay, Craig E. Nelson, Ion I. Mandoiu
2012 B conf
SMC
James Lindsay, Sidney Nascimento Givigi
2012 C conf
IAAI
Robert A. Morris, K. Brent Venable, Marco Pegoraro, James Lindsay
2012 conf
ICCABS
James Lindsay, Ion I. Mandoiu, Hamed Salooti, Alexander Zelikovsky
2012 conf
BCB
James Lindsay, Hamed Salooti, Alexander Zelikovsky, Ion I. Mandoiu
2011 conf
ICCABS
James Lindsay, J. Zhang, T. Farnham, Y. Wu, Ion I. Mandoiu, Rachel J. O'Neill, Hamed Salooti, E. Bullwinkel, Alexander Zelikovsky
2011 conf
ICCABS
Rachel J. O'Neill, James Lindsay, Dawn Carone, Sahar Al Seesi, Thomas Heider, Ion I. Mandoiu, Andrew Pask
1992 J jnl
IEEE Trans. Ind. Electron.
Alexandre Campos, Géza Joós, Phoivos D. Ziogas, James Lindsay
s3-storage/s3_test.py
← Index s3-storage/s3_test.py python
#!/usr/bin/env python3
"""
Simple script to test S3 connectivity and download.
Usage: python s3_test.py
"""

import os
import time
import tempfile
from minio import Minio
from minio.error import S3Error
from dotenv import load_dotenv

# Load environment variables
load_dotenv()

def get_minio_client():
    """Create and return a Minio client using credentials from .env file"""
    endpoint = os.getenv("S3_ENDPOINT")
    access_key = os.getenv("S3_ACCESS_KEY")
    secret_key = os.getenv("S3_SECRET_KEY")
    secure = True 
    
    print(f"Connecting to S3 endpoint: {endpoint} (secure={secure})")
    
    return Minio(
        endpoint=endpoint,
        access_key=access_key,
        secret_key=secret_key,
        secure=secure
    )

def test_connection():
    """Test basic connectivity to S3"""
    try:
        client = get_minio_client()
        
        # Try to list buckets as a basic connectivity test
        buckets = client.list_buckets()
        print(f"Successfully connected to S3. Found {len(buckets)} buckets:")
        for bucket in buckets:
            print(f"  - {bucket.name}")
        
        return client
    except Exception as e:
        print(f"Failed to connect to S3: {e}")
        return None

def test_bucket_access(client, bucket_name):
    """Test access to a specific bucket"""
    try:
        exists = client.bucket_exists(bucket_name)
        if exists:
            print(f"Bucket '{bucket_name}' exists and is accessible")
            
            # List a few objects to verify access
            count = 0
            objects = []
            for obj in client.list_objects(bucket_name, recursive=True):
                print(f"  - {obj.object_name} ({obj.size} bytes)")
                objects.append(obj)
                count += 1
                if count >= 5:
                    break
            
            print(f"Found at least {len(objects)} objects in bucket")
            return objects
        else:
            print(f"Bucket '{bucket_name}' does not exist or is not accessible")
            return []
    except Exception as e:
        print(f"Error accessing bucket '{bucket_name}': {e}")
        return []

def test_download(client, bucket_name, object_name):
    """Test downloading a specific object"""
    try:
        print(f"Attempting to download: {object_name}")
        start_time = time.time()
        
        # Create a temporary file to store the downloaded object
        with tempfile.NamedTemporaryFile(delete=False) as temp_file:
            temp_path = temp_file.name
        
        # Download the object
        client.fget_object(bucket_name, object_name, temp_path)
        
        # Check if the file was downloaded successfully
        file_size = os.path.getsize(temp_path)
        elapsed_time = time.time() - start_time
        
        print(f"Download successful: {file_size} bytes in {elapsed_time:.2f} seconds")
        print(f"Average download speed: {file_size/elapsed_time/1024:.2f} KB/s")
        
        # Clean up
        os.unlink(temp_path)
        return True
    except S3Error as e:
        print(f"S3 Error during download: {e}")
        return False
    except Exception as e:
        print(f"Error downloading object: {e}")
        return False

def main():
    """Main function to run all tests"""
    print("=== S3 Connectivity Test ===")
    
    # Test basic connectivity
    client = test_connection()
    if not client:
        return
    
    # Get bucket name from environment variable
    bucket_name = "redb"
    print(f"\n=== Testing Access to Bucket: {bucket_name} ===")
    objects = test_bucket_access(client, bucket_name)
    
    if objects:
        # Test downloading the first object
        first_object = objects[0].object_name
        print(f"\n=== Testing Download of Object: {first_object} ===")
        test_download(client, bucket_name, first_object)
        
        # If the first one worked, let's try a specific file from the error log
        print(f"\n=== Testing Download of Specific Object ===")
        specific_object = "00/06/00062073114defac39cb7ab9cb99a0b77c535a09a241c60d47ddd0b6431629f1.zip"
        test_download(client, bucket_name, specific_object)

if __name__ == "__main__":
    main()