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https://github.com/Rhizi/rhizi

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https://github.com/Rhizi/rhizi

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README 

        
# Rhizi



[![Circle CI](https://circleci.com/gh/Rhizi/rhizi.svg?style=shield)](https://circleci.com/gh/Rhizi/rhizi.svg)



A collaborative graph editor for organizing, communicating, and analyzing data in graph form.



[Screencast tutorial](https://www.youtube.com/watch?v=yRQtUPCzd3A)  

  

It is licensed under the GNU AGPL v3, see LICENSE for more details.



Patches or pull requests are welcome but we require a contributor license agreement, see TBU



# Dependencies



Database:

- Neo4J DB server >= 2.1.5 - http://neo4j.com/download/



Server:

- Python 2.7 or 3.4

- Apache Ant >= 1.9.0

- Python dependencies as described in `requirements.txt`



Client

- currently bundled, but listed in bower.json



For rebuilding client css from scss saource files you will need:

- sass (scss tool)



Build dependencies:

- ant

- make



# Installation

## Apt based systems: Debian / Ubuntu

# apt-get install \

ant \

python-pip \

ruby-sass




## Generic

use pip to install all requirements



 $ pip install -r requirements.txt



Use npm for javascript (client) requirements, currently for development (testing) only, all other external dependencies are part of the repository:



 $ npm install



# Running instructions

## Running Rhizi Locally

To run Rhizi locally:

- Run neo4j locally on the default 7474 port

neo4j console or neo4j server after installing neo4j: we use 2.2.1 from http://neo4j.com

- Launch run-local.sh:


$ ./run-local.sh



Or perform the following by hand:



- Invoke the local deployment Ant target:


ant -f ./build.ant deploy-local

- Run rhizi-server.py:


$ cd deploy-local && python bin/rz_server.py --config-dir=etc



Command line use documentation can be viewed with:

:$ python rz_server.py -h



## Configuration

Rhizi configuration is currently documented in code, see src/server/rz_server.py#Config



## User addition

Through the sign up page you can add users.



## Changing users roles

This is possible through the src/local/rz_cli_tool as follows:

./src/local/rz_cli_tool.py --config-dir res/etc --user-db-path res/user_db.db --email [email protected] --role-add admin



# Development

Build currently uses Apache Ant(http://ant.apache.org/) and [make](https://www.gnu.org/software/make/)



To update the css files you need [sass](http://sass-lang.com/). To rebuild the css files issue make from the top level directory:



 $ make



 For dev mode(debbuging, manual file load) use `?debug=1` at end of URL: e.g. `file://rhizifolder/html.index?debug=1`



Client testing:



 $ npm install

 $ karma start



## Coding Conventions - Ant Scripts

- use underscore as delimiter in var name, eg: pkg_foo_bar



## Coding Conventions - CSS / SCSS

- assume use of modern browsers

- indent files using 4 space characters

- apply alphabetical ordering whenever possible: selectors, directives, etc.

- use a combination of CSS classes / IDs to draw common/unique styling, eg. class=form-Foo\_input-field id=email-field

- minimize use of CSS directives, remove directives which have no effect

- avoid using browser-specific CSS directives when hand-writing CSS code



## Neo4J DB management

- Clean Neo4J instances are auto-initialized by the rhizi server

- to reset the DB manually:

 $ neo4j-shell -file res/neo4j/reset-db__clean.cypher



## Running server tests

Test code makes use of Python's unittest - run by invoking them with python,

or by creating a launch configuration in your IDE of choice.



Note: server test-cases do not yet support pre-run DB state validation and are

likely to leave DB side-effects.



## Random data generation

Taks a look at src/server-tests/test_util__rzdoc#DBO_RDG__skill_graph as a starting point for random data generation.



## Installing on windows (WIP)

mingw doesn't have python support, so using mingw (I want a unix native python)



- www.cygwin.com setup-x86_64.exe

- use correct mirror (i.e. mirror.isoc.org.il)

- defaults (c:\cygwin64)

- python + gvim + vim + python-six + git + git-completion + tig + ruby + ruby-sass + make + gcc-core + autoconf + automake

- start cygwin shell

- cd to directory of install

- git clone or extract tarball

- cd rhizi

- install neo4j from neo4j.com community eddition (neo4j-community_windows_2_1_6.exe)

- install python prerequisites:

- download get-pip.py from http://pip.pypa.io/en/latest/installing.html

- $ python get-pip.py

- install JDK: java SE development Kit 8 jdk-8u31-windows-x64.exe

- install ant: winant.googlecode.com/files/winant-install-v7.exe

  - specify JDK install directory, i.e. C:\Program Files\Java\jdk1.8.0_31

- Current ant bug: /usr/bin/rhizi is translated by ant to \usr\bin\rhizi and so it fails to find rhizi.

  - solution 1: replace /usr/bin/rhizi with rhizi, it will find rhizi in PATH

  - solution 2: ?

- pip install flask

- pip install gevent-websocket

  - pip install gevent never completes setup.py stage

    - solution 1: pip install cython git+git://github.com/surfly/gevent.git#egg=gevent

    - didn't complete.



# Deployment

Deployment, that is installation on a different server that has none of the development prerequisites installed, takes two forms currently:

- development mode, in which flask handles all resource serving, including client/server code, resources & fragments

- reverse proxy mode, in which a reverse proxy, eg. Apache is used to serve all static content



These modes impost a slightly different resource layout, and require the following values to be correcly set/injected:

- app.js: fragment_d_path, handled by jinja

- rhizi-server.conf: fragment_d_path

- rhizi-server.conf: template_d_path



## Deployment Steps

- obtain a server configuration by either adjusting res/etc/rhizi-server.conf.example or reusing an already active one.

- the following configuration keys will likely need changing: DEBUG, SECRET_KEY, root_path, access_control, etc.

- let targetDomain be the target domain (i.e. rhizi.example.com)

- place configuration at res/production-patch-set/${targetDomain}/rhizi-server.production.conf

- use the build.ant deploy-remote target:

  - adjust targetDomain path: should point at the configuration's file dir

  - adjust remoteDeployServer to point at the target server

- use res/debian/rhizi.init to run rhizi as a system process: rz_server.py will need chmod'ing to +x



- Deploying:

 $ ant -v -f build.ant -DremoteDeployServer=rhizi.example.com -Drsync_module=/srv/www/rhizi.example.com deploy-remote



### getting the current config file from the server:



 $ targetDomain="cri.rhizi.net"

 $ mkdir res/production-patch-set/${targetDomain}

 $ scp rz-1:/etc/rhizi/rhizi-server.conf res/production-patch-set/${targetDomain}/rhizi-server.production.conf



# Tools

## rz-doc

This is the only way to merge a number of documents right now. Here is how:



It is installed by default to /srv/www//tools/rz-doc, lets call that rz-doc for short.



rz-doc --list-names

 - will show all available documents. uses default config in /etc/rhizi/rhizi-server.conf, can be overridden with --config-dir



1. rz-doc --list-names > merge.file

2. rz-doc --merge-file merge.file --merge-target "All Documents"



creates a new doc called "All Documents" with the contents of all rzdocs in merge.file.



## API(WIP)

[url]/api/rzdoc/[doc-title]/delete