Dare to visualize – Tornado effect

Sometimes in life we have to accept dares, challenges or we even have to make self commitments to achieve success. By the way, this is human nature, after reaching one milestone we look to the next, and according to me:

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A Matryoshka linear solver

As I described in my previous posts, solving a linear system in a lattice QCD applications can be a very long process. We really want to optimize this linear solver, so we can find some answers about matter in our

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Two applications for two techniques

Having already introduced you to the technique that will be used for my project in one of my previous posts let me share with you some more things about the application. The application will be used at outreach events and

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Sophie’s World, Chapter 2: The project

In case you have cheched out this video, you might be wondering what this project is all about. In case you haven’t, I will wait for you 3:33 minutes to see it and return 🙂 Ok, now a little background

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Has the rain stopped yet?

Indeed, as the summer comes to an end I realize I had a lot of rain – both here in Scotland and on my computer screen. My project was to develop a weather visualisation application which will be used at

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The secret of Big Data programmers

In my last blog post, I described the problem of linkage prediction in large-scale graphs. I also mentioned that this is a big data processing problem. Today I will present you one of the biggest secrets of big data programmers:

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Researching the center of Europe

After the amazing training week in Juelich Supercomputing Centre where we had a brief introduction to OpenMP, MPI, ParaView, CUDA and some Team Building, it was time to start with the real business. I got into a plane headed to the heart of

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What’s in a virtual screening dataset?

In my previous blogpost, I explained the main objectives of my project. During these weeks, I have focused towards the data analysis side of HPC rather than working on optimizing a program that runs on a super computer. I have been working to

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Shallow waters – the waves start to spread

I started the work on my project by exploring the provided simulation code. This is always a great adventure by its own, studying a code someone else has written before you. To those who never tried it, you definitely should.

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Why is high performance computing so good for image analysis?

My Summer of HPC project  was officially titled “Development of  a sample application in PyCOMPSs”. As you can probably tell it’s a pretty vague title, and I was given a lot of freedom to come up with my own project,

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This is happening!

According to a plan, last week I’ve finally started my first proper simulation. That means, that upcoming one will finally be more chilled (hopefully). I transferred the files from Maestro to Gromacs, solvated, added ions, minimized, equilibrated (see tutorial, but

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Bringing visualisation to the web with Python and Bokeh

These days the world seems to run on data; from Google, to the NSA/GCHQ, to CERN, everyone seems to want more data, and be willing to go to great lengths to get it. However, once we have all of this

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Finding the fireball

A legend says that there was once a warm sunny day in Scotland. I have started my quest to find out if the myth was true, but I was not the only one. A group of scientists from the UK

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Python, MPI, CFD and ARCHER – what is a bigger challenge?

Hi Guys! In this blog post, I would like to introduce you my project “Parallelising Scientific Python Applications” which I’m working on at EPCC under Dr. Neelofer Banglawala. Wait! Sit down, don’t worry and get a cup of excellent British tea.

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From a Desolate Düren Platform to Spark in Slovakia

Its been one hell of a first couple of weeks here despite the worrying last leg of the trip to Juelich. Everything was smooth sailing until Düren train where the train to Juelich was leaving from an apparently non-existent platform

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The need for speed

Imagine for a second the following: You are given access to one of the fastest supercomputers on Earth, if not the Universe! You are given a desk in an institute in the middle of pretty much nowhere, you are granted

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Sophie’s World, Chapter 1

Time flies. We are already in the middle of the PRACE Summer Of HPC Computing programme and it seems like yesterday when we first arrived for the training week in Germany. So here is a quick recap of our full

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If not task farming then what?

When I decided to apply for the EPCC project of the Summer of HPC I knew that my project will be related to some outreach events and it will have educational purposes too.  It has to display how parallelism works

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Bratislava: Chapter 1 out of 3

Point Zero Once upon a time there was a little girl. Her name was Katerina. Katerina was a great warrior. Until one day she came across with a great challenge:  PRACE Summer of HPC. ‘I have to try it’, she

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Recipes for HPC success in Dublin

This year, with my undergraduate degree (in Mathematics and Computer Science at the University of York in the UK) drawing to a close, I decided to deviate from my normal summer schedule of maths books and computer games to take

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Familiarizing with Edinburgh

A bit of history at the beginning. Once upon a time in the town of Edinburgh, Scotland – it was a cloudy summer day, not very cold but also not very warm. Just a typical Scottish day (if you know

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Two L’s and two J’s

Juelich, Germany: I’d like to begin with a little description of the introduction week in Germany, Juelich. Arriving on the Sunday, I was greeted by my roommate and a fabulous cup of English Tea with milk. As the famous saying

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Selecting the true magical bullets

In the early 20th century, Paul Ehrlich laid the intelectual foundation of modern drug-design research through his inspirational concept of ‘magical bullets’. These ‘bullets’ are small chemical compounds with the ability to bind to biological targets, such as proteins or nucleic acids,

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Linear solvers are behind lattice QCD

In my first post I told you about the wonders of lattice QCD, and I explained why we need supercomputing to actually solve problems involving very small particles. I told you about huge machines that can do in one second

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Ljubljana’s real problem

After a fabulous training week in Jülich (which was already covered by many other SoHPC participants e.g. here) I arrived to the European Green Capital – Ljubljana. The city is really beautiful and you really should visit this place. However,

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