All public logs

Combined display of all available logs of RCSWiki. You can narrow down the view by selecting a log type, the username (case-sensitive), or the affected page (also case-sensitive).

• 17:11, 16 August 2023 Dmitri talk contribs created page How to run an interactive job on ARC (Created page with "= Background = Running jobs is the main and the only way to run computations on ARC. Normally, a user creates a '''job script''' and submit it to SLURM on ARC using the <code>sbatch</code> command to run a computation. The '''login node''', ARC's gateway, is only intended to do '''management work''', such as * data management, * software management, and * job management. The '''login node''' could also be used to '''software development''', if you write scripts, or i...")
• 20:29, 14 July 2023 Dmitri talk contribs created page How to find nodenames allocated by SLURM for a job (Created page with "= Background = When a distributed job that is planned to run on multiple nodes requests several compute nodes from SLURM the program that is going to perform the computations needs to know the names of the compute nodes which are allocated to the job by SLURM to use those nodes. If the program is based on the distributed MPI library then the distribution of the computational processed to the nodes is done by the MPI program launcher, <code>mpirun</code> or <code>mpiexe...")
• 17:53, 1 May 2023 Dmitri talk contribs created page How to change locale settings (Created page with "= General = = Links = How-Tos")
• 16:55, 19 April 2023 Dmitri talk contribs created page How to use ARC scratch space (Created page with "= Background = = Links = How Tos")
• 20:53, 12 April 2023 Dmitri talk contribs created page Nektar++ (Created page with "= General = * Web site: https://www.nektar.info/ * Speed Comparison among Nektar++ Solvers : https://www.nektar.info/speed-comparison-among-nektar-solvers/ '''Nektar++''' is a tensor product based finite element package designed to allow one to construct efficient classical low polynomial order h-type solvers (where h is the size of the finite element) as well as higher p-order piecewise polynomial order solvers. The framework comes with a number of solvers and als...")
• 21:05, 7 March 2023 Dmitri talk contribs created page How to understand absolute and relative paths in Linux (Created page with "= General = = Links = How-Tos")
• 18:20, 1 March 2023 Dmitri talk contribs created page ORCA (Created page with "= General = ORCA is a flexible, efficient and easy-to-use general-purpose tool for quantum chemistry with specific emphasis on spectroscopic properties of open-shell molecules. It features a wide variety of standard quantum chemical methods ranging from semiempirical methods to DFT to single- and multireference correlated ab initio methods. It can also treat environmental and relativistic effects. == Licensing == If you wish to use prebuilt ORCA executables: # You ha...")
• 17:49, 1 March 2023 Dmitri talk contribs created page How to request GPUs for batch jobs on ARC (Created page with "= GPUs on ARC = Currently, there are three partitions on ARC that have usable CUDA GPUs, '''gpu-v100''', '''gpu-a100''', and '''bigmem'''. ARC's configuration keeps changing depending on addition of new hardware and retiring of the old hardware, so you have to check available hardware on ARC before starting a new set of computations. * First, check the available partitions with GPUs on ARC following this article: : How to find available partitions on ARC. * Then,...")
• 21:30, 13 February 2023 Dmitri talk contribs created page How to convert a Docker container to an Apptainer container (Created page with "= General = = Links = More How-Tos")
• 22:39, 19 January 2023 Dmitri talk contribs created page How to find available partitions on ARC (Created page with "ARC is a relatively large and very heterogeneous cluster. It has lots of compute nodes and some of these nodes are very different in their hardware specifications and performance capabilities. On ARC, nodes with similar specifications are grouped into SLURM partitions. To use ARC effectively and to its full potential it is important that the researchers who use ARC can find available partitions and see important features of the nodes in those partitions. For this pur...")
• 22:15, 21 December 2022 Dmitri talk contribs created page How to find current limits on ARC (Created page with " Checking the current limits on ARC is recommended before planning a new series of computations, especially if GPUs are required for the computations. The current limits can...")
• 21:31, 17 November 2022 Dmitri talk contribs created page Data ownership (Created page with "= General = * '''Request to Access a Network Account without Consent''' Form: : https://www.ucalgary.ca/legal-services/sites/default/files/teams/1/Forms-Privacy-Request-to-Ac...")
• 22:24, 6 October 2022 Dmitri talk contribs created page UofC Services (Created page with "* Official '''Research Computing Services''' (RCS) page: : https://it.ucalgary.ca/research-computing-services : Research Computing Services (RCS) is a consulting and support g...")
• 15:34, 22 August 2022 Dmitri talk contribs moved page How to check the GPU utilization to How to check GPU utilization without leaving a redirect
• 15:23, 22 August 2022 Dmitri talk contribs created page How to check the GPU utilization (Created page with "= General = = Links = How-Tos")
• 20:11, 19 August 2022 Dmitri talk contribs created page How to generate a usage report from SLURM (Created page with "= General = SLURM provides the <code>sreport</code> command to generate reports. = Use cases = == Getting usage report for specific users == The default usage is given in...")
• 22:23, 10 August 2022 Dmitri talk contribs created page How to organize a shared storage space (Created page with "Access to the shared space is controlled by a Unix group. This is one of the level of Unix permissions controls. Please read our Wiki article on Linux permissions (same a...")
• 20:31, 5 August 2022 Dmitri talk contribs created page CESM (Created page with "= General = * National Center for Atmospheric Research (NCAR): : https://ncar.ucar.edu/ * Project site: https://ncar.ucar.edu/what-we-offer/models/community-earth-system-mo...")
• 19:36, 28 July 2022 Dmitri talk contribs created page How to work with large number of small files (Created page with "= Background = = From Python = == Working with files inside a TAR file == * <code>tarfile</code> module: : https://www.askpython.com/python-modules/tarfile-module")
• 18:12, 22 July 2022 Dmitri talk contribs created page How to use array jobs in SLURM (Created page with " <syntaxhighlight lang=bash> #!/bin/bash #SBATCH --account=def-someuser #SBATCH --time=0-0:5 #SBATCH --array=1-10 ./myapplication $SLURM_ARRAY_TASK_ID </syntaxhighlight>")
• 14:28, 4 July 2022 Dmitri talk contribs created page How to compress data for archival (Created page with "= Using '''tar''' command = == One file == == One directory == == Several files ==")
• 18:30, 30 June 2022 Dmitri talk contribs created page Fmriprep on ARC (Created page with "= General = = Using on ARC = <pre> $ singularity run /global/software/fmriprep/containers/fmriprep-20.2.3.simg --help You are using fMRIPrep-20.2.3, and a newer version of...")
• 17:47, 3 June 2022 Dmitri talk contribs created page How to request an interactive GPU on ARC (Created page with "Currently, there are two partitions on ARC that have usable CUDA GPUs, '''gpu-v100''', and '''bigmem'''. The <code>arc.hardware</code> tool can be used to see that. <pre> $ a...")
• 17:41, 3 June 2022 Dmitri talk contribs created page How-Tos (Created page with " * How to transfer data")
• 16:38, 21 April 2022 Dmitri talk contribs created page HDF5 (Created page with "= General =")
• 19:29, 31 January 2022 Dmitri talk contribs created page Conda on ARC (Created page with "= Background = '''Conda''' is a tool for managing and deploying applications, environments and packages. == Usage message == <pre> $ conda --help usage: conda [-h] [-V] comm...")
• 16:52, 7 December 2021 Dmitri talk contribs created page How to get an account (Created page with "= General = = Application form = * What is your status with UofC? * What research group do you work for? Who is your supervisor? (If you are a Principal Investigator your...")
• 15:08, 1 September 2021 Dmitri talk contribs created page External collaborators (Created page with " * This reference guide provides instructions on how to initiate a template-based hire for a '''General Associate Relationship''' :https://www.ucalgary.ca/hr/sites/default/fi...")
• 19:40, 2 June 2021 Dmitri talk contribs moved page On-line resources for new Linux users to On-line resources for new Linux and ARC users without leaving a redirect
• 18:20, 30 April 2021 Dmitri talk contribs created page On-line resources for new Linux users (Created page with "= General = = Linux command line = * If you are new to Linux, there is an easy to use reference for the Linux command line. : It is available for free download: http://linu...")
• 22:37, 29 March 2021 Dmitri talk contribs created page RCS Software Management Group (Created page with "= RCS Software Management Group = = Minutes = == Meeting: March 18th 2021 == Participants: * David Schulz * Dmitri Rozmanov * Ian Percel * Tannistha Nandi Minutes of the...")
• 18:12, 21 December 2020 Dmitri talk contribs created page Acknowledging Research Computing Services Group (Created page with "If the resources and help provided by the RCS group have been instrumental to your research, researchers are encouraged to acknowledge the Research Computing Services at UofC...")
• 19:34, 5 October 2020 Dmitri talk contribs created page Security and privacy (Created page with "= General = = Teleconferencing = * Microsoft Teams vs Zoom: : https://ucalgary.service-now.com/it?id=kb_article&sys_id=bd5c14f1dbc454d4f710777a8c9619ee")
• 16:03, 4 August 2020 Dmitri talk contribs created page Perl (Created page with "= General = = Installing your own copy of Perl = <pre> $ mkdir -p ~/src/perl $ cd ~/src/perl $ wget $ tar xvf perl-5.32.0.tar.gz $ cd perl-5.32.0/ $ unset PERL5LIB $ u...")
• 19:49, 21 July 2020 Dmitri talk contribs created page General Cluster Guidelines and Policies (Created page with "= General Rules = * Never run anything related to your research on the '''Login Node'''. : The '''login node''' is for ** Data management, that is file management, compressio...")
• 18:10, 30 June 2020 Dmitri talk contribs created page Python (Created page with "= General = = Installing your own Python = = Running Python scripts on ARC =")
• 21:42, 19 May 2020 Dmitri talk contribs created page GROMACS (Created page with "= General = = How to use =")
• 19:45, 29 April 2020 Dmitri talk contribs created page Jupyter Notebooks (Created page with "= General = = Jupyter Hub on ARC = Connect on http://jupyter.ucalgary.ca.")
• 19:36, 29 April 2020 Dmitri talk contribs created page ARC Software pages (Created page with "= Chemistry = = Reservoir Simulations = = Bioinformatics =")
• 20:38, 22 April 2020 Dmitri talk contribs created page How to transfer data (Created page with "= Intro = = Linux and MacOS = == scp -- secure copy == * Manual page on-line: http://man7.org/linux/man-pages/man1/scp.1.html '''scp''' copies files between hosts on a net...")
• 22:57, 10 February 2020 Dmitri talk contribs created page Managing software on ARC (Created page with "= Overview = In addition to basic software distributed with most Linux systems, additional application packages and libraries have been installed for use on ARC under <code>...")
• 22:48, 10 February 2020 Dmitri talk contribs created page Apache Spark on ARC (Created page with "= Overview = This guide gives an overview of running Apache Spark clusters under the existing scheduling system of the ARC cluster at the University of Calgary. When activat...")
• 21:27, 5 February 2020 Dmitri talk contribs created page What is a scheduler? (Created page with "= What's a job? = On computers we are most often familiar with graphical user interfaces (GUIs). There are windows, menus, buttons; we click here and there and the system resp...")
• 18:29, 30 January 2020 Dmitri talk contribs created page Gaussian on ARC (Created page with "= Introduction = '''Gaussian''' is a commercial software package for electronic structure modelling. The University of Calgary has acquired a site license for the Linux sour...")
• 18:00, 30 January 2020 Dmitri talk contribs created page Data storage options for UofC researchers (Created page with " * UofC OneDrive for Business: : https://ucalgary.service-now.com/it?id=kb_article&sys_id=60994170db2da7487cab5068dc961900")
• 17:54, 30 January 2020 Dmitri talk contribs moved page Arc Quickstart Guide to ARC Quickstart Guide
• 22:49, 15 January 2020 Dmitri talk contribs created page SLURM: Running jobs (Created page with "This page is intended for the user who is already familiar with the concepts of job scheduling and job scripts, and who wants guidance on submitting jobs to UofC RCS clusters...")
• 18:59, 13 January 2020 Dmitri talk contribs created page GLaDOS Quickstart Guide (Created page with "This QuickStart guide gives an overview of the GlaDOS cluster at the University of Calgary. It is intended to be read by new account holders getting started on GlaDOS, coveri...")
• 22:04, 10 January 2020 Dmitri talk contribs created page Helix Quickstart Guide (Created page with "= About this QuickStart Guide = This QuickStart guide gives a overview of the Helix cluster at the University of Calgary. It is intended to be read by new account holders ge...")
• 21:35, 10 January 2020 Dmitri talk contribs created page HPC Linux topics (Created page with "<strong>Welcome to the RCS documentation home page.</strong> Many researchers coming from a Microsoft Windows background, intending to use a remote HPC system for the first t...")