github Repositories

openphacts github Repositories

ops-docker

https://github.com/openphacts/ops-docker

A Docker Compose configuration to bring to life the Open PHACTS platform on Docker.

Most of the docker images are in https://hub.docker.com/u/openphacts/ from other GitHub repositores (See below) - while others are specialized within this repository (e.g. mysql).

• Slides: http://slides.com/soilandreyes/2016-07-06-openphacts#/
• Webinar and Video
• has Dockerfile - Uses Docker Compose
• Does not include 3-scale (https + api key authentication)
• includes stack from virtuoso up to explorer2
• not included: CRS (runs on Windows), ConceptWiki (shared instance)

Q: What does ops-docker depend on?

ops-platform-setup

This is a "meta" repository that contains notes and a few bits-and-bobs scripts and config files. It can't be "run" by itself.

has 2.0.0 branch, no 2.1.

platform w/o data

explorer2

The Open PHACTS Explorer is an HTML5 & CSS3 application for chemical information discovery and browsing. It is used to search for chemical compound and target information using a web search interface.

Last updated: 2015/11

Has Dockerfile. Has Docker image openphacts/explorer2.

Uses / depends-on:

• Ruby on Rails
• Ember JS
• ops.js repo
• OPS_LinkedDataApi repo (Linked Data API)

ops.js

Javascript based API with methods used to access the Open PHACTS Discovery Platform and parse the responses

2016.01

has Dockerfile for testing

• Used by explorer2 and ops-html-widgets and http://www.biojs.io/d/openphacts-vis-compoundinfo
• Published on https://www.npmjs.com/package/ops.js
• Can be executed standalone as it includes comprehensive tests of API (using node.js)

ops-search

ElasticSearch-based search service for Open PHACTS, previously called "IRS2".

has Dockerfile

queryExpander

2016.04 Java

The Standalone Query Expander.

Depends on repos:

• BridgeDb
• Validator
• IdentityMappingService

OPS_LinkedDataApi

IdentityMappingService

2016.04 Java

conceptwiki-docker

August 2015

ops-surechembl-linksets

ops-rsc-linksets

ops-hgnc-linkset

ops-uniprot-linksets

ops-hmdb-linksets

ops-chembl-linksets

ops-ensembl-linksets

ops-linkset-testing

Testing of IMS linksets in Open PHACTS

ops-crs

top-level

Chemistry

2016.07

ops-rsc-surechembl-dataset

ops-rsc-wikipathways-dataset

ops-chembl-rdf

chembl.rdf

forked from egonw/chembl.rdf 2013

ops-ncats-opdsr-rdf

ops_gems

QAWorkflows

Private

Workflows for the testing the data and filters from the Open PHACTS API

OPS-Knime

ld-r

Linked Data Reactor. Forked from ali1k/ld-r

openphacts-vis-compoundinfo

Displays the information available in the Open PHACTS Linked Data cache about a compound

ops-html-widgets

deployment

coreGUI

This is the repo for the central GUI API and GUI components code.

BridgeDb_Old

forked from amarillion/BridgeDb, updated Dec 2014

biojs

A library of JavaScript components to represent biological data

forked from biojs/biojs. 2014

jqudt

forked from egonw/jqudt

2014

PM

Issues Private

2014

Hosting

GitHub Issue Tracker for hosting provider.

Private

2014

DATA

Issues (1) 2016

GLOBAL

Issues Private 2016.09

Documentation

2014.02

ApiDocsGenerator

forked from fundatureanu-sever/DocsGenerator

A repository hosting a Java helper application to generate response template descriptions for API methods, with color-coded markup in HTML.

2013

JavaLDAClient

2013 Scala, Play(?)

Void-Editor2

css 2016.05

Void-Editor

2012

Validator

The Void Validator, stripped out of the BridgeDb project, exposed via a web service.

OpsPlatform

ops platform and larkc plugins

Private 2012

OPS_widgets

Repo for all general widgets in the project.

Private 2012

GitHubTest

Purely for testing Github. DO NOT save anything here

2011

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