Difference between revisions of "Pasteur workshop 2017"

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Access the course account with your password.  
 
Access the course account with your password.  
  
=== Opening a Linux terminal ==  
+
=== Opening a Linux terminal ===  
  
 
We need to create a command terminal.  Right click on the screen and select  <tt>Open Terminal in the menu</tt> . A Linux command window will popup. Please create a folder for this course.
 
We need to create a command terminal.  Right click on the screen and select  <tt>Open Terminal in the menu</tt> . A Linux command window will popup. Please create a folder for this course.
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in your terminal. Then, in the Matlab window write:
 
in your terminal. Then, in the Matlab window write:
 
  <run> run /ISB2017/dynamo/dynamo_activate.m
 
  <run> run /ISB2017/dynamo/dynamo_activate.m
 +
This will activate ''Dynamo'' in the current Matlab session.
  
 
===  Data ===
 
===  Data ===

Revision as of 18:45, 18 July 2017

A guide to use Dynamo during the practical session of the Pasteur course INTEGRATIVE STRUCTURAL BIOLOGY​ - Mechanisms of Living Organisms, in the afternoon session of the 19th of July of 2017.

Computer access

Access the course account with your password.

Opening a Linux terminal

We need to create a command terminal. Right click on the screen and select Open Terminal in the menu . A Linux command window will popup. Please create a folder for this course.

mkdir tomo
 cd  tomo 

Starting Dynamo

load the access to matlab through:

module load matlab

in your terminal. Then, in the Matlab window write:

<run> run /ISB2017/dynamo/dynamo_activate.m

This will activate Dynamo in the current Matlab session.

Data

The tomogram for the second tutorial is located in the location /ISB2017/Course_material/July19/crop.rec

Make a local copy through:

cp /ISB2017/Course_material/July19/crop.rec . 

Program

Introduction to tomography and subtomogram averaging
~45 minutes of presentation to introduce tomography, subtomogram averaging and Dynamo.
Getting started
on screen presentation/hands-on practical. We will follow together the basic hands-on tutorial of Dynamo.
Advanced getting started.
After the coffee break at 16:00 participants will follow the advanced introduction on a reduced data set from a real tomogram.

Instructors

  1. Daniel Castaño-Díez, BioEM Lab, University of Basel
  2. Paula Pérez-Navarro, C-CINA, University of Basel
  3. Cynthia Taveneau, Institut Curie, Paris