Code Monkey home page Code Monkey logo

jbrowse's Introduction

Installing JBrowse

Users of JBrowse should get it from the main JBrowse site at http://jbrowse.org/install.

Unless you intend to work on the JBrowse code itself, or develop a JBrowse plugin, stop reading now and go to http://jbrowse.org/install.

About running from a git clone

Only developers should run JBrowse from a git repository. For one reason, the development version has a much, much slower initial load time than the built release zipfiles. Also, since the master branch code is ''in development'' for the next JBrowse release, it often (usually?) contains bad bugs, much more so than the official releases put up on JBrowse.org.

Setting up a development environment

Make sure you have a web server installed on your development machine. Any web server will do.

cd /my/dev/webserver/root;
git clone --recursive [email protected]:YOURACCOUNT/jbrowse.git
cd jbrowse
./setup.sh
# and now point your browser to
#   http://localhost/jbrowse/index.html?data=sample_data/json/volvox
# and you should see the volvox example data

Running the developer test suites

Server-side Perl

Tests for the server-side Perl code. You must have the JBrowse Perl module prerequisites installed for them to work. Run with:

prove -Isrc/perl5 -lr tests

Client-side Unit Tests

Point your browser at http://my.dev.machine/jbrowse/tests/js_tests/index.html

Client-side Integration Tests

Integration tests for the client-side app. You need to have Python eggs for selenium and nose installed. Run the tests with:

JBROWSE_URL='http://localhost/jbrowse/index.html' nosetests

Cutting a JBrowse release

  1. Edit the JBrowse package.json file and change 'version' to the version you are releasing. Don't commit this change to the repository, it should stay as dev in git so that it shows up in analytics as a development version.

  2. Build the release packages: make -f build/Makefile release. The files produced during the build should not be committed to the repository either.

  3. Make a tag in the repository for the release, named, e.g. 1.6.3-release.

  4. scp the release .zip files (min and full) to jbrowse.org.

  5. Add them to the Wordpress Downloads list so that we can track how many times they are downloaded.

  6. Write a blog post announcing the release. The release-notes.html file made during the build might be useful for this.

  7. Update the "Install" page on the site to point to the newest release.

  8. Update the latest-release code checkout on the site, which the "Latest Release" demo on the jbrowse.org points to, to be an unzipped-and-set-up copy of the latest release.

  9. Write an email announcing the release, sending to gmod-ajax, jbrowse-dev. If it is a major release, add gmod-announce and make a GMOD news item.

As you can tell, this process could really use some more streamlining and automation.

jbrowse's People

Stargazers

 avatar

Watchers

 avatar  avatar

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    ๐Ÿ–– Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. ๐Ÿ“Š๐Ÿ“ˆ๐ŸŽ‰

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google โค๏ธ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.