This is a pre-production deployment of Warehouse, however changes made here WILL affect the production instance of PyPI.
Latest Version Dependencies status unknown Test status unknown Test coverage unknown
Project Description

What is loom?

Loom is a tool to create and execute bioinformatics workflows.

We observed that many bioinformaticians are doing analysis in a way that is not repeatable or traceable, and that cannot be easily migrated to a new compute environment. For example:

  • Depending on local software installations and environment settings
  • Executing commands manually
  • Failing to record analysis details and results in a database
  • Depending on file names and paths that may change and cannot be verified

Loom is designed as an easy-to-use analysis platform that remedies these problems to make analysis repeatable, your results traceable, and your workflows portable to other platforms.

Why use loom?

Make your analysis pipelines portable

  • Loom uses Docker to make your pipelines platform-agnostic and to avoid using local software installations or environment settings
  • The same pipelines can be run in the cloud, on a local cluster, or on your laptop
  • Loom will seamlessly pull data from your local path, a remote file server, or an object store

Share your analysis and results

  • Loom analyses and results are defined as JSON documents that can be easily shared by email
  • JSON documents defining analyses and results have the same meaning anywhere, with no dependencies on your software configuration, local environment settings, or file locations. External references to files or applications (Docker images) can always be verified using a cryptographic hash of contents

Keep your data secure

  • Loom lets you run all your analysis with encryption of data in transit and at rest

Make sure your analysis is repeatable

  • The same features that make loom sharable help to ensure repeatability: input files are verified with a cryptographic hash, and applications are stored in Docker containers that can be verified by image ID
  • Analyses and results are recorded in a persistent database

Never lose track of how a result was generated

  • When answering questions like “Where did this file come from?”, “What software version did we use to produce this result”, or “What settings did we use for this?”, you should never be scrambling through your notes or digging through output logs. Loom keeps track of result provenance and can tell you all the steps that were performed from import of the original input data to producing the final result.

What is the current status?

Loom is under active development. To get involved, contact nhammond@stanford.edu

Contributors

  • Nathan Hammond
  • Isaac Liao
  • Ziliang Qian
Release History

Release History

0.1.0.post1

This version

History Node

TODO: Figure out how to actually get changelog content.

Changelog content for this version goes here.

Donec et mollis dolor. Praesent et diam eget libero egestas mattis sit amet vitae augue. Nam tincidunt congue enim, ut porta lorem lacinia consectetur. Donec ut libero sed arcu vehicula ultricies a non tortor. Lorem ipsum dolor sit amet, consectetur adipiscing elit.

Show More

0.1.0

History Node

TODO: Figure out how to actually get changelog content.

Changelog content for this version goes here.

Donec et mollis dolor. Praesent et diam eget libero egestas mattis sit amet vitae augue. Nam tincidunt congue enim, ut porta lorem lacinia consectetur. Donec ut libero sed arcu vehicula ultricies a non tortor. Lorem ipsum dolor sit amet, consectetur adipiscing elit.

Show More

Download Files

Download Files

TODO: Brief introduction on what you do with files - including link to relevant help section.

File Name & Checksum SHA256 Checksum Help Version File Type Upload Date
loom_engine-0.1.0.post1.tar.gz (59.7 kB) Copy SHA256 Checksum SHA256 Source Dec 12, 2015

Supported By

WebFaction WebFaction Technical Writing Elastic Elastic Search Pingdom Pingdom Monitoring Dyn Dyn DNS HPE HPE Development Sentry Sentry Error Logging CloudAMQP CloudAMQP RabbitMQ Heroku Heroku PaaS Kabu Creative Kabu Creative UX & Design Fastly Fastly CDN DigiCert DigiCert EV Certificate Rackspace Rackspace Cloud Servers DreamHost DreamHost Log Hosting