CWL - Programming language

CWL is an open source programming language created in 2014 by Luka Stojanovic.

#360on PLDB

10Years Old

464Repos

Download source code:

git clone https://github.com/common-workflow-language/cwltool

The Common Workflow Language (CWL) is a specification for describing analysis workflows and tools in a way that makes them portable and scalable across a variety of software and hardware environments, from workstations to cluster, cloud, and high performance computing (HPC) environments. CWL is designed to meet the needs of data-intensive science, such as Bioinformatics, Medical Imaging, Astronomy, Physics, and Chemistry.

Tags: programming language
CWL is developed on GitHub and has 326 stars
There are at least 464 CWL repos on GitHub
Early development of CWL happened in https://w3id.org/cwl/meeting_minutes
CWL is written in Python, YAML, Markdown, JSON, reStructuredText, Bourne shell, JavaScript, Make, Ini, Dockerfile, TOML
The Google BigQuery Public Dataset GitHub snapshot shows 57 users using CWL in 75 repos on GitHub
GitHub supports syntax highlighting for CWL
commonwl.org was registered in 2015
Read more about CWL on the web: 1.

Example from Linguist:

#!/usr/bin/env cwl-runner
# Originally from
# https://github.com/Duke-GCB/GGR-cwl/blob/54e897263a702ff1074c8ac814b4bf7205d140dd/utils/trunk-peak-score.cwl
# Released under the MIT License:
# https://github.com/Duke-GCB/GGR-cwl/blob/54e897263a702ff1074c8ac814b4bf7205d140dd/LICENSE
# Converted to CWL v1.0 syntax using
# https://github.com/common-workflow-language/cwl-upgrader
# and polished by Michael R. Crusoe <mrc@commonwl.org>
# All modifications also released under the MIT License
cwlVersion: v1.0
class: CommandLineTool
doc: Trunk scores in ENCODE bed6+4 files

hints:
  DockerRequirement:
    dockerPull: dukegcb/workflow-utils

inputs:
  peaks:
    type: File
  sep:
    type: string
    default: \t

outputs:
  trunked_scores_peaks:
    type: stdout

baseCommand: awk

arguments:
- -F $(inputs.sep)
- BEGIN{OFS=FS}$5>1000{$5=1000}{print}
- $(inputs.peaks.path)

stdout: $(inputs.peaks.nameroot).trunked_scores$(inputs.peaks.nameext)

Language features

Feature	Supported	Example	Token
Comments	✓	# A comment
Line Comments	✓	# A comment	#
Semantic Indentation	X