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Nextflow

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Nextflow is an open source programming language created in 2013.

#244on PLDB 11Years Old 3kRepos
Download source code:
git clone https://github.com/nextflow-io/nextflow

A DSL for data-driven computational pipelines


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 """ }

Language features

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

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