s3 loader

This repo contains the library that load various formats of data from s3 bucket

Installation

pip install git+https://github.com/eliphatfs/imgsvc
pip install git+https://github.com/SarahWeiii/s3_loader.git

Writing these to your environment:

export AWS_ACCESS_KEY_ID=[your_key]
export AWS_SECRET_ACCESS_KEY=[your_secret]
export AWS_ENDPOINT_URL=https://s3-haosu.nrp-nautilus.io
# If inside nautilus cluster:
# export AWS_ENDPOINT_URL=http://rook-ceph-rgw-haosu.rook-haosu	

Functions

Init s3 client

• s3_init(s3_url): return an s3 client using s3_url

Load a single file

• load_s3_json(s3, s3_path)
• load_s3_txt(s3, s3_path)
• load_s3_image(s3, s3_path)
• load_s3_exr(s3, s3_path)

Load batch data

Note: requires using s3_client with http://rook-ceph-rgw-haosu.rook-haosu endpoint

• load_s3_image_batch(s3, s3_paths, tgt_size): return a list of resized images (suggest len(s3_paths) >= 8)
• load_s3_exr_batch(s3, s3_paths, tgt_size): return a list of resized exr files (suggest len(s3_paths) >= 8)

Upload / Download data

• upload_file_to_s3(s3, local_path, s3_path, quiet=False)
• download_file_from_s3(s3, local_path, s3_path, quiet=False)

Others

• list_files_in_folder(s3, s3_path): return a list of files under s3_path
• file_exists_in_s3(s3, s3_path): check if a file exist

Threaded Dataloader

Replace pytorch DataLoader with the following one:

from s3_loader.threaded_dataloader import ThreadedDataLoader as DataLoader