SPANG

Website: http://purl.org/spang

npm: https://www.npmjs.com/package/spang

Docker: https://hub.docker.com/r/sparqling/spang

Command line interface

``
$ npm install -g spang
`
A symbolic link to ./bin/spang.js will be created as spang2 in your path.

For the help message, just type the command
`
$ spang2
`

Install from GitHub


`
git clone https://github.com/sparqling/spang
cd spang
npm ci
`
Optional:
`
$ npm link
`
will make a symbolic link to ./bin/* in your path.

Installation of node


spang2 requires node (version >= 14).
`
node -v
`
If you do not have node, install it as follows.

$3

If you do not have npm, install it.
`
sudo apt -y install npm
`
on Ubuntu, or
`
sudo yum -y install npm
`
on CentOS.

The defualt directories for installation of npm modules are under /usr/local/, which requires sudo.

You can change the directories as follows.
`
npm set prefix ~/.npm-global
`
The configuration is saved in ~/.npmrc, so you can also configure by editing it.

Install n to manage node version.
`
npm install -g n
n stable
node -v
`

$3


If you do not have brew, install it.
`
brew -v
`
`
/bin/bash -c "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/HEAD/install.sh)"
`
Install node or nodebrew using brew.
`
brew install node
`
`
brew install nodebrew
mkdir -p ~/.nodebrew/src
export PATH=$HOME/.nodebrew/current/bin:$PATH
`
Now you can use node. Check the version.
`
node -v
`

For maintainers

js/spang.js should be updated after modifying codes for those who call spang functions through their Web applications.

Update the js/spang.js by converting codes using browserify as follows.
`
npm run browserify
`

$3

- npm (>= 6.12.0)

$3

`
npm test
`

SPARQL specifications

$3

The EBNF notation of SPARQL is extracted from:

https://www.w3.org/TR/sparql11-query/#sparqlGrammar

The PEG expression of SPARQL grammer was originally provided by:

https://github.com/antoniogarrote/rdfstore-js/

PEG can be tested at:

https://pegjs.org/online

$3

sparql-doc
`

@title Get orthololog from MBGD

@author Hirokazu Chiba

@tag ortholog

@endpoint http://sparql.nibb.ac.jp/sparql

`
extension
`

@prefixes https://

@input_class id:Taxon

@output_class up:Protein

@param gene=

``