Nextflow is an open source programming language created in 2013.
| #240on PLDB | 11Years Old | 3kRepos |
git clone https://github.com/nextflow-io/nextflowA DSL for data-driven computational pipelines
#!/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 | Example | Token |
|---|---|---|---|
| Comments | ✓ | /* A comment */ | |
| MultiLine Comments | ✓ | /* A comment */ | /* */ |
| Semantic Indentation | X |