C2115 Practical Introduction to Supercomputing 1st Lesson -1C2115
Practical Introduction to
Supercomputing
Petr Kulhánek, Jakub Štěpán
kulhanek@chemi.muni.cz
National Centre for Biomolecular Research, Faculty of Science
Masaryk University, Kotlářská 2, CZ-61137 Brno
CZ.1.07/2.2.00/15.0233
Organization
C2115 Practical Introduction to Supercomputing 1st Lesson -2-
Content
 Course organization
• Time schedule, teaching methods
• Knowledge evaluation, final test
 Cluster WOLF
• Room 1.18, structure, rules, administrators
 Prerequisities
• Accounts, work groups
C2115 Practical Introduction to Supercomputing 1st Lesson -3Course
organization
 Time schedule
 Block teaching
 Knowledge evaluation, final test
C2115 Practical Introduction to Supercomputing 1st Lesson -4Time
schedule
Teaching period: 17. 9. 2012 - 21. 12. 2012
Vacations: 22. 12. 2012 - 1. 1. 2013
Examination period: 2. 1. 2013 - 13. 2. 2013
Extent: colloquium (2 credits)
Total lecture time: 14 x 2 hours = 28 hours
Total course time demands:
1 ECTS credit -> 26 hours of studies (see ECTS Label)
2 credits -> 2x 26 hours = 52 hours of studies
C2115 Practical Introduction to Supercomputing 1st Lesson -5Block
teaching
Monday – Wednesday: lectures
start at 9:00, finish at 16:00
lunch and breaks according to lecture
Thursday: MetaCentrum, CERIT-SC excursion (morning)
lectures 13:00 – 16:00
Friday: lectures
start at 9:00, finish at 10:00
final test: start at 10:00
Extent:
- final test (1 hour, 50 questions) 50 points
- summary report from exercises, all questions should
be answered.
=======================================================
Total: 50 points
Success: >= 30 points
C2115 Practical Introduction to Supercomputing 1st Lesson -6Cluster
WOLF
 Room 1.18
 Structure
 Rules
 Administrators
C2115 Practical Introduction to Supercomputing 1st Lesson -7Room
1.18
23 PC
3D visualization
Computing cluster
organization
PC room is accessible to students of LCC group, and students of any course
taught in same semester in room 1.18.
Safety rules!
C2115 Practical Introduction to Supercomputing 1st Lesson -8WOLF
cluster structure
University network
wolf.ncbr.muni.cz
Local network
wolf.wolf.inet
wolf
switch
wolf03 wolf04 wolf05wolf02wolf01
wolf06 wolf07 wolf08 wolf23
server Work nodes (computational nodes)
Private network: wolf.inet
(not accessible directly)
Operating system: Ubuntu 12.04 (Precise) LTS
http://www.ubuntu.com/
C2115 Practical Introduction to Supercomputing 1st Lesson -9-
Rules
WOLF cluster is strictly dedicated to teaching purposes or scientific work within
National Centre for Biomolecular Research.
Obligatory are rules of Masaryk University network:
https://is.muni.cz/auth/do/rect/normy/smernicerektora/Smernice_MU_9-2013.pdf
It is strictly forbidden to:
download data with illegal contents (author protected work etc.)
virus and spam distribution
system hacking
Removing or changes to unprotected content of other users
Login name and password is user identity. Do never give it to any other
person, send (e.g. by e-mail) or save unencrypted.
C2115 Practical Introduction to Supercomputing 1st Lesson -10Cluster
administrators - problems
Main WOLF cluster administrator:
Jakub Štěpán
Account management, hardware, system and software administrator
Scientific applications (modules) administrator:
Petr Kulhánek
Before contacting administrators, consult your problem with colleagues, teacher or
supervisor. If you do not solve problem, please report to administrators by e-mail.
support@lcc.ncbr.muni.cz
In message state:
 Problem description, command name
 User name, machine name
 Copy error output from command line
C2115 Practical Introduction to Supercomputing 1st Lesson -11-
Prerequisities
 Accounts
 Work groups
C2115 Practical Introduction to Supercomputing 1st Lesson -12-
Prerequisities
 Access to building A4 and accross door to room 1.18 (ISIC)
 Devision to groups (group A, B, C, D)
 Study materials
/home/kulhanek/Data/C2110
/home/kulhanek/Data/C2115
 Account on cluster SOKAR
$ ssh sokar.ncbr.muni.cz
 Registration to MetaCentrum
http://metavo.metacentrum.cz