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JUBE

JUBE is a generic, lightweight, configurable environment to run, monitor and analyse application execution in a systematic way. This software is commonly used to execute benchmarks and complex workflows on High Performance Computers, but is not limited to these systems.

Benchmarking
High performance computing
HPC
+ 4

Python
Shell
C

NPLinker eScience Workshop GenMetMine Materials

These materials were used as a part of the NPLinker eScience Workshop on Natural Product Genome & Metabolome Mining: https://www.wur.nl/en/research-results/chair-groups/plant-sciences/bioinformatics/teaching/nplinker_workshop.htm Most materials are available in a format facilitating its reuse.

Data mining
genomics
Inter-operability & linked data
+ 4

One button compute

Web application for running a CWL workflow on a bunch of files.

Optimized data handling
Workflow technologies

Python
HTML
Common Workflow Language

ReaxPro framework ontology

This application ontology is dedicated to the ReaxPro framework for the multi-scale modeling of catalytic materials.

Multi-scale & multi model simulations
ontology
Workflow technologies

RESTful APE

RESTfull API for the APE (Automated Pipeline Explorer) library.

Java
Program synthesis
REST API
+ 1

Java
Dockerfile

sv-gen

Highly portable parallel workflow to generate artificial genomes with structural variants.

Big data
High performance computing
Workflow technologies

Python
Shell

Xenon Docker images

For your testing needs a collection of Docker images with different file systems and batch schedulers.

High performance computing
Workflow technologies

Shell
Dockerfile
Roff
+ 4