htsget-search

Contains storage interfaces and abstractions for htsget-rs. It:

• Allows htsget-rs to interact with storage to fetch and retrieve bioinformatics files like indexes.
• Contains logic for local filesystem access, AWS S3 cloud access and arbitrary URL server access.

Overview

This crate is the mechanism htsget-rs uses to fetches data from the bioinformatics files it needs to process requests. It also allows htsget-rs to create and format URL tickets correctly. It does this by providing storage layer abstractions which other crates can use to interact with data. It defines the following storage layers:

• local: Access files on the local filesystem.
• s3: Access files on AWS S3.
• url: Access files on any server which can respond to requests.
• c4gh: Access and process Crypt4GH-encrypted files.

This crate is responsible for allowing the user to fetch the URL tickets returned by the ticket server. With LocalStorage a separate data_server is used to serve files using HTTP. S3Storage returns presigned S3 URLs.

Usage

In order to use a particular storage backend for URL tickets, the proper backend should be configured using htsget-config.

As a library

This crate provides have the following features:

• The Storage trait contains functions used to fetch data: get, range_url, head and data_url. The local, s3, and url modules implement the Storage functionality.

Feature flags

This crate has the following features:

• aws: used to enable S3 location functionality and any other AWS features.
• url: used to enable Url location functionality.
• experimental: used to enable experimental features that aren't necessarily part of the htsget spec, such as Crypt4GH support through C4GHStorage.

License

This project is licensed under the MIT license.