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Nextflow Alternatives
Similar projects and alternatives to nextflow
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InfluxDB
Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
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Kedro
Kedro is a toolbox for production-ready data science. It uses software engineering best practices to help you create data engineering and data science pipelines that are reproducible, maintainable, and modular.
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WorkOS
The modern identity platform for B2B SaaS. The APIs are flexible and easy-to-use, supporting authentication, user identity, and complex enterprise features like SSO and SCIM provisioning.
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singularity
Singularity has been renamed to Apptainer as part of us moving the project to the Linux Foundation. This repo has been persisted as a snapshot right before the changes.
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common-workflow-language
Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊
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devops-resources
DevOps resources - Linux, Jenkins, AWS, SRE, Prometheus, Docker, Python, Ansible, Git, Kubernetes, Terraform, OpenStack, SQL, NoSQL, Azure, GCP
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Hubitat-iPhone-Presence-Sensor
A virtual presence sensor for Hubitat that checks if an iPhone/Android is on the WiFi network.
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SaaSHub
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NOTE:
The number of mentions on this list indicates mentions on common posts plus user suggested alternatives.
Hence, a higher number means a better nextflow alternative or higher similarity.
nextflow reviews and mentions
Posts with mentions or reviews of nextflow.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-08-10.
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Nextflow: Data-Driven Computational Pipelines
> It's been a while since you can rerun/resume Nextflow pipelines
Yes, you can resume, but you need your whole upstream DAG to be present. Snakemake can rerun a job when only the dependencies of that job are present, which allows to neatly manage the disk usage, or archive an intermediate state of a project and rerun things from there.
> and yes, you can have dry runs in Nextflow
You have stubs, which really isn't the same thing.
> I have no idea what you're referring to with the 'arbitrary limit of 1000 parallel jobs' though
I was referring to this issue: https://github.com/nextflow-io/nextflow/issues/1871. Except, the discussion doesn't give the issue a full justice. Nextflow spans each job in a separate thread, and when it tries to span 1000+ condor jobs it die with a cryptic error message. The option of -Dnxf.pool.type=sync and -Dnxf.pool.maxThreads=N prevents the ability to resume and attempts to rerun the pipeline.
> As for deleting temporary files, there are features that allow you to do a few things related to that, and other features being implemented.
There are some hacks for this - but nothing I would feel safe to integrate into a production tool. They are implementing something - you're right - and it's been the case for several years now, so we'll see.
Snakemake has all that out of the box.
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Alternatives to nextflow?
For now, I think that the best place to track this / get your voice heard is this GitHub Discussions post (which covers many things - error reporting is one of them). https://github.com/nextflow-io/nextflow/discussions/3107
- HyperQueue: ergonomic HPC task executor written in Rust
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Nextflow vs Snakemake
We could spend the day pointing to things we wish were different, but that doesn't change the fact that Nextflow is the leader when it comes to workflow orchestration. And feel free to create a new issue in the GitHub repository if you wish to request a feature :)
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Feel very hard writing nextflow pipeline.
The nextflow devs have been talking about this for a while on GitHub. Looks like they're implementing something along these lines using schema like they do for nf-core. GitHub discussion.
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Need a statically typed Python replacement
Groovy definitely scales up just fine I think but I never used it myself outside of little snippets embedded in my DSL, I know its considered by some to be "dead" so its interesting to see what other JVM-ecosystem users think of it.
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A note from our sponsor - SaaSHub
www.saashub.com | 29 Apr 2024
Stats
Basic nextflow repo stats
9
2,538
9.7
4 days ago
nextflow-io/nextflow is an open source project licensed under Apache License 2.0 which is an OSI approved license.
The primary programming language of nextflow is Groovy.
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