Nextflow

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Nextflow is an open source programming language created in 2013.

Source code:

git clone https://github.com/nextflow-io/nextflow

#211on PLDB

11Years Old

3kRepos

A DSL for data-driven computational pipelines

Nextflow website
Nextflow is developed on GitHub and has 1,768 stars
Nextflow docs
There are at least 3,132 Nextflow repos on GitHub
Nextflow first developed in https://github.com/nextflow-io
file extensions for Nextflow include nf
Nextflow on Twitter
The Google BigQuery Public Dataset GitHub snapshot shows 46 users using Nextflow in 62 repos on GitHub
GitHub supports syntax highlighting for Nextflow
nextflow.io was registered in 2014

Example from Linguist:

#!/usr/bin/env nextflow
/*
 * This is free and unencumbered software released into the public domain.
 * 
 * Anyone is free to copy, modify, publish, use, compile, sell, or
 * distribute this software, either in source code form or as a compiled
 * binary, for any purpose, commercial or non-commercial, and by any
 * means.
 * 
 * In jurisdictions that recognize copyright laws, the author or authors
 * of this software dedicate any and all copyright interest in the
 * software to the public domain. We make this dedication for the benefit
 * of the public at large and to the detriment of our heirs and
 * successors. We intend this dedication to be an overt act of
 * relinquishment in perpetuity of all present and future rights to this
 * software under copyright law.
 * 
 * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
 * EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
 * MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.
 * IN NO EVENT SHALL THE AUTHORS BE LIABLE FOR ANY CLAIM, DAMAGES OR
 * OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE,
 * ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR
 * OTHER DEALINGS IN THE SOFTWARE.
 * 
 * For more information, please refer to <http://unlicense.org/>
 */
 
/* 
 * Author Paolo Di Tommaso <paolo.ditommaso@gmail.com>
 */


params.query = "$HOME/sample.fa"
params.db = "$HOME/tools/blast-db/pdb/pdb"

process blast {
    output:
     file top_hits

    """
    blastp -query ${params.query} -db ${params.db} -outfmt 6 \
    | head -n 10 \
    | cut -f 2 > top_hits
    """
}

process extract {
    input:
     file top_hits
    output:
     file sequences

    """
    blastdbcmd -db ${params.db} -entry_batch $top_hits > sequences
    """
}

process align {
    input:
     file sequences
    echo true

    """
    t_coffee $sequences 2>&- | tee align_result
    """
}

Feature	Supported	Token	Example
Comments	✓		/* A comment */
MultiLine Comments	✓	/* */	/* A comment */
Semantic Indentation	X

Nextflow - Programming language

Language features