How to run a nf-core nextflow workflow on genotoul ? (20/03/2019)

This training session is organized by the Genotoul bioinfo platform and aims at learning nf-core workflow submission, error understanding and resuming jobs. We will present :

  • the Nextflow software
  • the nf-core community and pipelines
  • What is a singularity image ?
  • Where are installed the nf-core workflows ? Which version do I use ?
  • How to run a workflow and which config file is used ?
  • Which kind of error I can get ?
  • How to reproduce error to understand the problem ?
  • How to resume failed jobs?
  • How to handle genome indexes ?
  • How to monitor my process and then well configure my workflow ?

This is NOT a bioinformatic training on a particular workflow or a training on how to develop a workflow.


calendar

 

This training is focused on practice. It consists of several modules with a large variety of exercises:

  • Planning under construction.
  • Start at 09:00 am
  • End at 17:00 pm

 

The session will take place in the room ‘salle de formation’ at INRAE center of Toulouse-Auzeville.


 

Prerequisites: Training materials will be available on the website before the session. Slides in a “taking notes” format will be downloadable from our web site. A Unix reference command leaflet will also be provided. Only the latter will be available during the session.

 

 

Training slides:

  – slides one per page

  – slides three per page


 

Bookings: How to run a nf-core nextflow workflow on genotoul ?
Ticket Type Price Spaces
Non-academic
for non-academic: 550€ + 20% taxes (TVA)
€550,00
Academic non-INRAE
for academic but non-INRAE: 170 € + 20% taxes (TVA)
€170,00
INRAE
for INRAE's staff: 150 € duty free;
€150,00