MCIN Wiki

527_avenue_pins_ports

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

527 ports

a3d_install

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

A3D Installation Nvidia Purge Remove any existing Nvidia drivers /etc/init.d/lightdm stop sudo apt-get purge nvidia-* /etc/init.d/lightdm start Add graphics driver PPA. sudo add-apt-repository ppa:graphics-drivers/ppa update sources sudo apt update

ace-gpu-1

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

ace-gpu-1 * GPU Resources * ace-gpu-1 configuration * ace-gpu-1 installation log * ace-gpu-1 slurm

ace-gpu-1_configuration

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

ace-gpu-1 configuration System Wide apt Apt is configured to only report security updates. This is done by pinning priorities in /etc/apt/preferences, where all updates are lower priority than existing installed packages except all security updates are higher priority.

ace-gpu-1_installation_log

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

ace-gpu-1 installation log Log of platform setup and configuration Base NVIDIA Driver This is probably not required as a driver is included with CUDA. chmod 770 NVIDIA-Linux-x86_64-375.26.run /etc/init.d/lightdm stop ./NVIDIA-Linux-x86_64-375.26.run reboot

ace-gpu-1_slurm

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

ace-gpu-1 slurm We will use 'slurm' to act as job scheduler Introduction Jobs are managed by Slurm, which is in charge of * allocating the computer resources requested for the job, * running the job and * reporting the outcome of the execution back to the user.

ac_heating

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

EMERGENCY CONTACT FOR HEATING OR AC ISSUES IN NW130 Fred OR Patrick Paquette - 514-829-3278

alden_woodward

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page Alden Woodward * alden.woodward@mcgill.ca * Room 130NW * ext 2494

backups

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Backups It is the responsibility of workstation and laptop users to ensure that regular backups are made for any important data located on their workstations and/or laptops. If you have questions, require access to resources or would like assistance in planning, assessing or implementing a backup plan, we encourage you to submit a ticket via Redmine outlining your needs and the ACE Lab IT team will be happy to assist you.

backup_of_mcgill_hpc_contacts

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Dr. Bryan L. Caron Director, Business Operations Tel: 514-396-8958 email: bryan.caron@mcgill.ca Dr. Nikolas Provatas Scientific Director Tel: 514-396-8988 email: provatas@physics.mcgill.ca Kuang Chung Chen Systems Administrator Tel: 514-396-8961 email: kuang.chen@mcgill.ca

borrowing_equipment

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Borrowing Equipment

change_update_user_information

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page Change /Update your user and email information MCIN * To change / update your information, including emails, please go to the Fusion Directory Page. * User Section edit Organizational contact information. e.g. Address, Telephone… * Email Section

change_user_information

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Change your user and email information MCIN * To change your information, including emails, please go to the Fusion Directory Page. * User Section edit Organizational contact information. e.g. Address, Telephone... * Email Section edit your default email or add an additional one

checkpoint_techniques_on_compute_canada_clusters

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

These are the notes for the Checkpoint Techniques workshop I attended on March 26th, 2015 (the workshop materials can be found here.) Might be useful for people who want to learn how to code this on their own programs. Please don't hesitate to edit this page if you feel I left something out, you want to add something on your own or my English sounds funny.

christopher_steel

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page Christopher Steel * christopher.steel@mcgill.ca * Room 130NW * ext 2494

civet_installation_on_vm

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

These are my notes in my attempt to compile CIVET (a version updated by Daan in February 2015) on a VM running CentOS 6.5: 1. When copying the code if links or files in the folder SRC are missing it is ok. You can ignore. All other soft links should be working though.

compute_canada_usage_wiki

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Compute Canada Usage and Support Information Here are the main sources of information for Calcul Quebec: General * Main page: * Running Jobs: * Notice the tabbed section discussing specifics of each system. * Support: use either the site team support (name_of_server@calculquebec.ca), such as described in

conda

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Conda, Anaconda and Miniconda “Package, dependency and environment management for any language: Python, R, Ruby, Lua, Scala, Java, Javascript, C/ C++, FORTRAN Conda is an open source package management system and environment management system for installing multiple versions of software packages and their dependencies and switching easily between them. It works on Linux,

data_inventory

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Data Inventory This page describes the datasets on MCIN resources and requirements for access to these datasets. Some are available for all to use with no restrictions, but most need the user to be approved and added to a list of users. ----------

external_access

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

External Access Without VPN Login Host There is a server login-host-1.acelab.ca that you can log into without the VPN from anywhere. From it, you can ssh to any internal machine. You can ssh in to it with your MCIN (LDAP) credentials. Then you can ssh to any internal host that you have access to. Two points to remember:

gpu_resources

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

GPU Resources This is a collaborative resource, please improve it. Login using your MCIN user name and ID and add your discoveries. Items of Interest / for Discussion? Resources * [ OpenACC - Tutorial - Steps to More Science ]( ) “Here are three simple steps to start accelerating your code with GPUs. We will be using PGI OpenACC compiler for C, C++, FORTRAN, along with tools from the PGI Community Edition.

guillimin_faq

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Just some questions I had while using this cluster system. What is the maximum ''wall'' time? It's 30 days. You can run jobs for as long as that and you don't need to ask permission to an administrator. Also, have in mind that this limit cannot be extended.

it_and_workstation_requests

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page The GLPI Ticketing System Resources * ACELab GLPI Ticketing systems link Requirements In order to create a ticket you will need to follow the GLPI link above and request a password reset for your LDAP user account. Creating a ticket * Sign in to GLPI

jose_maria_chema_mateos

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

My office is NW-145. If you want to get in contact with me, drop by or send me an e-mail: jose.mateosperez@mcgill.ca. Manuals Checkpoint techniques on Compute Canada clusters Guillimin FAQ

marc-etienne_rousseau

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page MCIN Systems Page System Architect - Technology Manager Marc-Étienne Rousseau * System Architect - Technology Manager, ACElab * Montreal Neurological Institute - McGill University * 3801 University Street * Webster 2B #208 * Montreal, QC, Canada, H3A 2B4

mcgill_guest_wifi

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

McGill Guest Wifi Any McGill staff can create a temporary guest account for up to 30 days at: * For longer terms, email ICS with the user ID created above and request the desired length (max 12 months). * customersupport.ist@mcgill.ca

mcgill_uprint_setup

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Mcgill uprint service for Ubuntu 12.04 On your workstation, edit /etc/cups/cupsd.conf # Show shared printers on the local network. Browsing On BrowsePoll cups.ncs.mcgill.ca BrowseInterval 3600 BrowseTimeout 7200 BrowseOrder allow,deny BrowseAllow all BrowseLocalProtocols CUPS dnssd BrowseAddress @LOCAL

mcgill_uprint_xerox

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Using the Printer Card Printing to a McGill uPrint printer with the ACELab printer card can be done both from command line and from GUI. List Printers First check to see all available uPrints on your machine: me@ace-ws-00:~$ lpstat -p Output example will be vary on Ubuntu 16 and Ubuntu 18

mcgill_vpn

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

McGill VPN A connection through McGill VPN is required to access certain restricted resources from outside the lab or McGill campus. In order to use the McGill VPN, you need a valid McGill account. We allow VPN access to all our systems from both student and staff McGill accounts.

mcin_email_address

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

MCIN Email Address What is my MCIN Email Address? If you are an employee, you will by default be provided with a MCIN email address; e.g. john.smith@mcin.ca To access your email, log in to Gmail. Requesting a MCIN Email Address To request a MCIN email address, please create a ticket on

mcin_members_wiki_space

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Add yours in alphabetical order! * Penelope Kostopoulos * José María (Chema) Mateos * Pamela Patterson * Pierre Rioux * Marc-Étienne Rousseau * Christopher Steel * Alden Woodward

mcin_username

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

MCIN Username What is LDAP? MCIN credentials (separate from McGill credentials) are stored in our LDAP Directory. LDAP technology allows us to begin the process of creating a central place where people can set and change passwords and other user information. In addition to saving time and making things easier for everyone, LDAP also allows us to shift our focus to tasks that improve, rather than maintain, our many IT services as well as the rest of our IT infrastructure.

mounting_storage_server_shares

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Mounting with SSHFS Create SSH Public Key Create a public key on you workstation: aceadmin@ace-ws-17:~$ ssh-keygen Generating public/private rsa key pair. Enter file in which to save the key (/home/aceadmin/.ssh/id_rsa): Enter passphrase (empty for no passphrase): Enter same passphrase again: Your identification has been saved in /home/aceadmin/.ssh/id_rsa. Your public key has been saved in /home/aceadmin/.ssh/id_rsa.pub. The key fingerprint is: 6d:22:99:96:82:c4:7a:e9:53:47:d0:78:24:d7:67:…

mount_owncloud_to_workstation

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Mount Owncloud Go to *Places > Connect to Server* Then *type and choose the followings* 1. Server: mcinbox.cbrain.mcgill.ca/owncloud/remote.php/webdav/ 2. Port: 443 3. Type: Secure WebDAV (HTTPS) 4. User Name: XXXXX 5. Password: XXXXXXXXX

network_printing_using_cups

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page Using CUPS Checking Printer Status * Show All Jobs on ace-printer-1 in NW147 * McGill UPRINT Printers A bit about CUPS and ipp (Internet printing protocol) CUPS, an acronym for Common Unix Printing System, is a printing system for Unix-like operating systems such as Linux and Darwin (OS X). A computer running CUPS is a host that can accept print jobs from client computers, process them, and send them to the appropriate printers queue.

new_account_requests

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

New User Requests Please create single ticket for each (new) user. IMPORTANT This is a task that has huge repercussions for our new users and where doing a good job can can significantly improve our performance as a whole. Here's why: Currently new arrivals almost never have all of the tools and resources that they require when they arrive in order to start working. For some that might mean waiting for up to a month and a half (or more) before they have access to a workstation and/or a func…

north_wing_network_ports

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

NW ports

nw-147_printer

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Press Alt + F2 Enter “system-config-printer” and click Run Click Add button Select Find Network Printer and enter “132.216.122.31” in the Host and click the Find button Select JetDirect (132.216.122.31) and click Forward button

obtaining_a_compute_canada_account

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Opening a Compute Canada Account All lab members can request to open a Compute Canada account and use any of the supercomputer sites available to us. To do so, please follow these steps: * Go to the Compute Canada Database (CCDB): * Click on

obtaining_it_support

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Obtaining IT Support How should I contact IT? If you are experiencing an issue, require access to resources or have a question and would like assistance, we encourage you to submit a ticket via Redmine outlining your needs and the IT team will be happy to assist you.

pamela_patterson

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page Pamela Patterson * NW-130 * pamela.patterson2@mcgill.ca * ext 2494

password_policy

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Password Policy General Protecting the password from unauthorized use is the responsibility of the account owner. If a password is compromised, the owner should change it immediately and report the event to AceLab IT. Slack is a totally inappropriate way to request a password change or any configuration change. IT has a requirement to manage and track changes. All requests need to be put into Redmine:

penelope_kostopoulos

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

penelope.kostopoulos@mcgill.ca. HOW TO CIVET installation on VM

pierre_rioux

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Pierre Rioux * Location: 527 Des Pins Ouest, room #207, first desk on left, located between the keyboard and the chair * Phone number: x8330 (Full number: 514-398-8330) * Responsibilities: keeping that chair warm

printers

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

McGill Uprint Setup NW-147 Printer

printing

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Printing There are two uPrint cards available to the lab in the North Wing: * amni16 → NW145 * amni22 → NW136 Note: It is important that these cards are returned immediately after usage. Linux Workstation Printing Using the Command Line

scheduled_power_outages

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Scheduled Power Outages In the event of a scheduled power outage affecting the North Wing or 527, please take all necessary precautions to protect any equipment by turning off your computer as well as the UPS before you leave. For users who happen to not be present to do so, the IT team will usually make rounds at the end of the day to ensure everything is turned off.

set_or_reset_passwords

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page Set or reset passwords MCIN * To set, reset or change your MCIN password go to the Fusion Directory Recovery Page. * Enter your email address and choose the change button. Why is LDAP so important? MCIN credentials (separate from McGill credentials) are stored in our LDAP Directory. LDAP technology allows us to begin the process of creating a central place where people can set and change passwords …

slurm_basics

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Main Slurm Commands sbatch The sbatch command submits a batch processing job to the slurm queue manager. These scripts typically contain one or more srun commands to queue jobs for processing. srun The srun command is used to submit jobs for execution, or to initiate steps of jobs in real time. For the full range of options that can be passed to the srun command, see the UNIX man page for srun (type man srun at the command prompt).

slurm_cheatsheet

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Slurm cheatsheet back to ace-gpu-1 slurm

slurm_reference

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Reference back to ace-gpu-1 slurm

software_listing

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Software Listing researchers list * Anaconda v4.2 for Python 2.7 () * AFNI * ANTs () * BEaST * BigBrain on line () * BrainSuite16a1 () * BrainView * Caret * CIVET * Display * Deformation fields (mcvaneede) * Eigen v3.2 stable (

start

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T15:25:35+00:00

ACE Lab Contacts * MCIN Contact List (not accessible from outside McGill) * MCIN Active Users Email List (not accessible from outside McGill) * McGill HPC Staff at ETS Traveling This pdf explains the procedures for travel and conferences. In this document are step by step instructions as well as links to resources needed.

systems

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Return to MCIN Home Page Systems ACElab Team Members * Pamela Patterson , Systems Administrator * Marc-Étienne Rousseau , Systems Architect * Christopher Steel , Systems Administrator * Alden Woodward , Systems Administrator Systems Administration

systems_migrating_from_ets_to_burnside

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Systems Being Migrated From ETS to Burnside Data Centre * isilon * huia * netmind * ace-db-1 * ace-storage-3 * mindstorm * ace-cbrain-2 * ace-mariadb-5 * breithner-vh-1 * ace-docker-1 * megamind * ace-vh-4 * braindump nodes 5,6,7,8,9

workstation_faq

Anonymous (anonymous@undisclosed.example.com) — 2024-03-26T13:52:53+00:00

Workstation FAQ Q) How to use the common storage space (including how to access raw data and not duplicate it) A) The Shares can be mounted on your workstation. If you mount the Raw Data share under a directory on your local workstation, any application will be able to access the data as if it was on your local machine. To setup the mount points, follow these instructions: