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2020
New FCT and international funded projects supported by INCD in 2020. FA_05_2017_007 "The MARVEN Project – The Portuguese biotechnological database for marine animal venoms and toxins" Funding agency: Fundo Azul, Portugal PTDC/BTA-BTA/28650/2017 Worm...
2021
New FCT and international funded projects supported by INCD in 2021. PTDC/BIA-EVL/1100/2020 "Harnessing comparative genomics to understand the role of horizontal acquired genes in the evolution of yeast metabolism" POCI-01-0247-FEDER-039890 GIIP - Ge...
Principles
"Software Development in modern days: DevOps methodology" Presentation: slides
Tools
"EOSC-Synergy Jenkins Pipeline Library demonstration @ EGI conference 2020" Video: demo "EOSC-Synergy Service QA and DataVerse" Video: presentation "A quality based approach to software and services" Presentation: slides
OPENCoastS
Tutorials related to the OPENCoastS thematic service "2nd OPENCoastS e-Tutorial: build your forecast for all circulation choices" Videos: day1, day2, day3 "OPENCoastS hands-on course: An open-access service for on-demand coastal predictions" Prese...
GBIF
Tutorials related to the GBIF thematic service "Global Biodiversity Information Facility (GBIF) tutorials" Tutorials: list
WorSiCa
Tutorials related to the WorSiCa thematic service "Integration of WORSICA's thematic service in EOSC - challenges and achievements" Presentation: slides
Introduction
Introductory materials to digital infrastructures and e-infrastrctures. "e-infrastructures and how can we use them" Materials: video, slides "The power of digital e-infrastructures: EOSC-hub" Materials: slides
UDocker Containers
Availability of udocker containers directly on CVMFS read-only filesystem in order to speedup their use and improve reproducibility, reliability and avoid interferences between calls, we will try to optimize compilations when ever possible. This containers ca...
Jobs information
List all current jobs for a user: squeue -u <username> List all running jobs for a user: squeue -u <username> -t RUNNING List all pending jobs for a user: squeue -u <username> -t PENDING List all current jobs in the shared partition for...
Job pipeline using slurm dependencies
Some times we need to launch a list of jobs that execute in sequence, one after another. In those cases we will use the --depency sbatch option, check the manual page for more details, we will only present a simple example. Simple example Suppose we need to...
AlphaFold
Introduction Environment Data Base Location run_udocker.py How to Run Example on Partition "gpu" Example on Partition "fct" Example on Partition "hpc" sbatch Options Benchmarks References 1. Introduction The INCD team prepared a local...
Architecture
Data Structure
NEW implementation name : Software name version : version of the software name contact : contact name of the software technicalContact: technical contact name of the developper description : Software shor descripion releaseDate : Date of the relea...
Json Schemas
Product { "name" : "htcondor", "version" : "9.0.1", "currentState" : "Production", "technologyProvider" : "CHTC (UW-Madison)", "contact" : "jfrey.at.cs.wisc.edu", "technicalContact" : "jfrey.at.cs.wisc.edu", "description" : " HTCondor is a specialized...
GPG Sign RPMs
GPG key generation A gpg key was generated with the following parameters: gpg --full-generate-key Please select what kind of key you want: (1) RSA and RSA (default) Your selection? 1 RSA keys may be between 1024 and 4096 bits long. What keysize do ...
Deployment of new releases
Process to deploy a new release manually: 1.Create the json files using one of the following options: 1.1. yaml templates - this option needs to use yaml2json converter to generate json file 1.2. json templates - use the json SW/templates/distribution.t...
2021
Running containers in your user space with udocker [materials]. Location: online integrated in the EGI seminars, 23 June 2021 Software Development in modern days: DevOps methodology Location: online integrated in the ISEL seminars, 30 June 2021
2021
Encontro RNCA 2021, virtual 29 September 2021: Infraestrutura Nacional de Computação Distribuída TICAL Conference 2021, Virtual: Bella Demo: High Energy Physics 12th Advanced Doctoral onference On Computing, Electrical And Industrial Systems, Caparica, Port...
2020
Encontro Ciência 2020, Centro de Congressos de Lisboa, 4 November 2020: Infraestrutura Nacional de Computação Distribuída FCCN eJornadas 2020, 14 October 2020: INCD - Infraestrutura Nacional de Computação Distribuída