common-workflow-language/acd2cwl

Name: acd2cwl

Owner: Common Workflow Language

Description: CWL generator for ACD (EMBOSS) files

Created: 2016-07-22 13:34:32.0

Updated: 2016-10-26 14:52:04.0

Pushed: 2017-01-27 15:54:47.0

Homepage:

Size: 82

Language: Python

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README

CWL generator for ACD (EMBOSS) files.

acd2cwl provides:

• a2c-tools, a generator of wrappers for EMBOSS tools. It uses the formal definition of the tools provided by the ACD files.
• a2c-tests, a generator of functional tests for these tools. It uses the functional tests defined in the EMBOSS package itself

Install

Installing the official package from PyPi:

pip install acd2cwl

Or from source: git clone https://github.com/common-workflow-language/acd2cwl.git cd acd2cwl && python setup.py install

Run tool wrappers generator

Simple command:

a2c-tools /usr/share/EMBOSS/acd/*.acd

For more options, just type

a2c-tools --help

Run test jobs generator

Simple command:

a2c-tests /usr/share/EMBOSS/test/qatest.dat /usr/share/EMBOSS/acd/*.acd

For more options, just type

a2c-tests --help