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10:54, 2 May 2019 Ppomorsk (Talk | contribs) deleted page LinBox (content was: "{{Template:Outdated}} {{Template:GrahamUpdate}} '''Update November 2014''': These instructions are from 2010 and were created for the SHARCNET environment at that time. It should be possible to install this software on the newer operat...")
10:54, 2 May 2019 Ppomorsk (Talk | contribs) deleted page KmerGenie (content was: "=kmergenie-1.6741= Built successfully on orca under centos6.4 using the system GCC, see [https://www.sharcnet.ca/my/problems/ticket/23952 ticket 23952]. ssh orca.sharcnet.ca wget http://kmergenie.bx.psu.edu/kmergenie-1.6741.tar.gz t...")
10:54, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Vi and vim configuration (content was: "This page is now included in the SHARCNET Vim Documentation page at: VIM#Configuration ")
10:54, 2 May 2019 Ppomorsk (Talk | contribs) deleted page VIM (content was: "{{Software |package_name=VIM |package_description=Text editor |package_idnumber=100 }} =Introduction= The vim console text editor can be started by typing vim. A graphical version is also available on most Sharcnet systems: <...")
10:53, 2 May 2019 Ppomorsk (Talk | contribs) deleted page OwnCloud (content was: "{{LegacyPage}} <div class="alert-info" style="margin-bottom: 10pt"> <div style="float:left; vertical-align:top; text-align: center; font-weight:bold; font-size: 3em; color: white; background-color: red; height: 0.8em; width: 1.2em; pad...")
10:53, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Enzo (content was: "{{Template:Outdated}} =Introduction= Enzo is a parallel adaptive mesh refinement (AMR) grid-based code for simulating structure formation in the Universe. It..." (and the only contributor was "Razoumov"))
10:52, 2 May 2019 Ppomorsk (Talk | contribs) deleted page HOOMD-blue (content was: "'''HOOMD-blue''' is a general-purpose particle simulation toolkit. It scales from a single CPU core to thousands of GPUs. =Install from git= Tested on Compute Canada cluster "graham" November 2017 by <ppomorsk@sharcnet.ca> modul...")
10:52, 2 May 2019 Ppomorsk (Talk | contribs) deleted page BINUTILS (content was: "{{Template:Outdated}} {{Software |package_name=BINUTILS |package_description=A collection of programming tools for the manipulation of object code |package_idnumber=114 }} =Intrduction= To load the most recent binutils module do: <pre...")
10:52, 2 May 2019 Ppomorsk (Talk | contribs) deleted page COMPILE (content was: " {{Template:Outdated}} {{Software |package_name=COMPILE |package_description=Provide "wrappers" that permit generic compilation |package_idnumber=129 }} compile is loaded by default in the SHARCNET user-environment/1.0...")
10:52, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Cutadapt (content was: "{{template:LegacyPage}} read more about this package here: https://cutadapt.readthedocs.org/en/stable/ To install on kraken in my home directory I'd do: ssh kraken.sharcnet.ca module load python wget http://cutadapt.googlecode.com...")
10:51, 2 May 2019 Ppomorsk (Talk | contribs) deleted page GRAPHVIZ (content was: "{{Template:GrahamUpdate}} {{Template:Outdated}} {{Software |package_name=GRAPHVIZ |package_description=Graph visualization software |package_idnumber=98 }} =Version Selection= Please refer to the documentation [http://www.graphviz.org/...")
10:51, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Geneious (content was: "{{Template:LegacyPage}} This software was test installed for a group on the SHARCNET vdi-centos6 host in March 2015. There is a trial license which was not configured at the time. Please email help@sharcnet.ca if you need help setting...")
10:50, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Glossary of Terms (content was: "{{Ancient|27402}} ===Barrier=== A synchronization point in parallel code where two or more threads must both reach before continuing. ===IDE=== Integrated Develop..." (and the only contributor was "Edward"))
10:50, 2 May 2019 Ppomorsk (Talk | contribs) deleted page LDWRAPPER (content was: "{{LegacyPage}}  {{Software |package_name=LDWRAPPER |package_description=Wrapper for the sharcnet default centos6 module environment to ensure LD_RUN_PATH is used. |package_idnumber=165 }} =Introduction= The ldwrappe...")
10:50, 2 May 2019 Ppomorsk (Talk | contribs) deleted page NCL (content was: "{{Template:GrahamUpdate}} {{Software |package_name=NCL |package_description=Visualization and analysis of molecular structures. |package_idnumber=183 }} =Introduction= Provides installation of NCL scripts from operating system reposit...")
10:49, 2 May 2019 Ppomorsk (Talk | contribs) deleted page NOTEBOOK (content was: "This page has been superceeded by https://www.sharcnet.ca/help/index.php/JUPYTER" (and the only contributor was "Roberpj"))
10:47, 2 May 2019 Ppomorsk (Talk | contribs) deleted page PORTLAND (content was: "#REDIRECT PGI" (and the only contributor was "Roberpj"))
10:46, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Singular (content was: "{{Template:GrahamUpdate}} New instructions (December 2015) for orca, for git version of Singular module unload intel openmpi mkl module load gmp mpfr gcc cd /work/$USER mkdir SINGULAR cd SINGULAR wget http://www.mathematik.uni-k...")
10:46, 2 May 2019 Ppomorsk (Talk | contribs) deleted page PyCUDA (content was: "<big>'''PyCUDA''' makes it possible to easily use CUDA inside Python code.</big> Documentation can be found on the [http://mathema.tician.de/software/pycuda pa..." (and the only contributor was "Ppomorsk"))
10:46, 2 May 2019 Ppomorsk (Talk | contribs) deleted page PyOpenCL (content was: "<big>'''PyOpenCL''' makes it possible to easily use OpenCL inside Python code.</big> Documentation can be found on the [http://mathema.tician.de/software/pyopencl package webpage]. This package is not currently installed as SHARCNET-su...")
10:44, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Unsupported Software (content was: "{{Template:LegacyPage}} =Unsupported Software= Package listed on this page are NOT included on the Officially [https://www.sharcnet.ca/my/software Supported] Sharcnet software page. __TOC__ ==User-Installed Packages== This table prov...")
10:44, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Trilinos (content was: "{{Template:Outdated}} ==Newest instructions (August 2013, problem ticket https://www.sharcnet.ca/my/problems/ticket/21268 )== * orca, Centos 6.4, default compiler (inte..." (and the only contributor was "Syam"))
10:43, 2 May 2019 Ppomorsk (Talk | contribs) deleted page UMFPACK (content was: "{{stub}} Instruction to build UMFPACK have been given in 'README_Jemmy' file under /work/jemmyhu/software/umfpack/install_packages")
10:43, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Transition to CentOS 6 (content was: "{{LegacyPage}} As of September 2013 most SHARCNET core, speciality and contributed systems that were running CentOS 5 have been upgraded to CentOS 6. As part of this upgrade we reorganized the default software environment and provide...")
10:43, 2 May 2019 Ppomorsk (Talk | contribs) deleted page WIEN2K (content was: " {{Template:Outdated}} {{Template:LegacyPage}} {{Software |package_name=WIEN2K |package_description=DFT simulation |package_license= Not free, users must purchase license |package_url=www.wien2k.at |package_idnumber= |...")
10:42, 2 May 2019 Ppomorsk (Talk | contribs) deleted page GAMESS US (content was: "==Run instruction for Gamess_US on bull for serial jobs only == 1) create a subdirectory gamess_scr in your /scratch directory cd /scratch/youid mkdir gamess_scr 2) for first time user, add the path to your .bash_profile file you...")
10:42, 2 May 2019 Ppomorsk (Talk | contribs) deleted page GCC (content was: "{{Template:GrahamUpdate}} {{Software |package_name=GCC |package_description=GNU compiler collection |package_idnumber=20 }} =Introduction= '''GCC''' is a free, open-source, very widely used compiler. While at SHARCNET it is usually best...")
10:42, 2 May 2019 Ppomorsk (Talk | contribs) deleted page GNU (content was: "{{Software |package_name=GNU |package_description=Selected packages from the GNU project |package_idnumber=136 }} =Introduction= Sharcnet installs commonly used GNU packages from http://www.gnu.org/software/#allgnupkgs. =Version Selec...")
10:41, 2 May 2019 Ppomorsk (Talk | contribs) deleted page IMAGEMAGICK (content was: " {{Template:Outdated}} {{Software |package_name=IMAGE MAGICK |package_description=Suite for the creation, modification and display of bitmap images |package_idnumber=119 }} COMMANDS convert between imag...")
10:40, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Iqaluk (content was: "{{System |cluster_name=iqaluk |target_usage=Large, tightly-coupled threaded jobs |system_idnumber=93 }} ==System Overview== {| class="wikitable" style="text-align:center" border="1" |- | Node Range || 1 |- | CPU Model || Intel Xeon X750...")
10:39, 2 May 2019 Ppomorsk (Talk | contribs) deleted page PGI (content was: "{{GrahamUpdate}} {{Software |package_name=PGI |package_description=the Portland Group Compiler suite |package_idnumber=46 }} =Overview= '''Portland Group''' produces high-quality compilers that include certain unusual features, such as...")
10:39, 2 May 2019 Ppomorsk (Talk | contribs) deleted page SLURM (content was: "'''SLURM''' (Simple Linux Utility for Resource Management) is a job scheduler. On SHARCNET it is currently in use on clusters: Graham, Copper, and Mosaic. (On Copper and Mosaic, users can use our legacy command ''sqsub'' to submit jobs...")
10:39, 2 May 2019 Ppomorsk (Talk | contribs) deleted page SPRNG (content was: "{{Software |package_name=SPRNG |package_description=To develop, implement and test a scalable package for parallel pseudo random number generation |package_idnumber=50 }} If you are on a cluster with modular install (most of our c...")
10:38, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Summer School preview (content was: "From May 28th to June 1st SHARCNET will run its annual Summer School on Advanced Research Computing, this time at Western University. This summer school will be our lar..." (and the only contributor was "Syam"))
10:38, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Sunrise (content was: "{{Template:Outdated}} {{Template:LegacyPage}} 16-01-17 Many of the links on this page are dead, it this page will not be updated. '''Warning:''' This is an old page created by a staff who is no longer with SHARCNET. As re-testing of al...")
10:38, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Storage systems (content was: "For information about storage, see the [https://docs.computecanada.ca/wiki/Storage_and_file_management/en Storage and file management page] on Compute Canada documentation wiki. Category:Systems")
10:37, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Sqsub (content was: "{{LegacyPage}} ---- '''NAME''' sqsub - submit a job ---- '''SYNOPSIS''' sqsub [-r|W runtimelimit] [-o ofile] [-e efile] [-i ifile] [-t or --test] [-q queue] [-f flag] [-n ncpus] [-N nnodes] [--ppn processes-per-node] [--tpp t...")
10:37, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Sqjobs (content was: "{{Template:LegacyPage}} ---- '''NAME''' sqjobs - show jobs ---- '''SYNOPSIS''' sqjobs [-a|--all][-u user] [-q][-r][-z][-d][--queue queuename][--command command-substring] [-l][-L] [-n][-s|--summary][--sort...")
10:37, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Sqkill (content was: "{{Template:GrahamUpdate}} ---- '''NAME''' sqkill/suspend/resume - kill, suspend or resume jobs in scheduler. ---- '''SYNOPSIS''' sqkill [-a|--all][-r|--running][-q|--queued] jobid... sqsuspend jobid... sqresume jobid... Ex...")
10:37, 2 May 2019 Ppomorsk (Talk | contribs) deleted page SQ (content was: "{{Template:LegacyPage}} {{Software |package_name=SQ |package_description=A set of generic tools for submitting and managing jobs on SHARCNET clusters. |package_idnumber=130 }} =Introduction= To submit a job, certain basic information...")
10:36, 2 May 2019 Ppomorsk (Talk | contribs) deleted page OPEN64 (content was: "{{Template:LegacyPage}} {{Software |package_name=Open64 |package_description= the open64 compiler suite |package_idnumber=81 }} =Introduction= Provides a free compiler alternative on sharcnet systems with openmpi support. =Version Sel...")
10:36, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Mosaic (content was: "{{System |cluster_name=mosaic |target_usage=serial and/or small threaded/mpi jobs, GPU jobs |system_idnumber=106 }} == Hardware == * nodes 1 - 20 ** 20 CPU cores ** one NVIDIA Tesla K20m GPU (Compute capability: 3.5) ** memory: 256.0...")
10:36, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Getting Started with Compiling Code on SHARCNET (content was: " {{Template:GrahamUpdate}} == Objective == The purpose of this guide is to give a quick step-by-step introduction to compiling and running code on SHARCNET clusters. Specifically, we will go through the steps necessary...")
10:35, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Orca (content was: "'''NOTE''' - Orca has been decommissioned on March 29, 2019. Only the login node will remain accessible for a few weeks afterwards so that users can migrate their data out of /scratch. Data in /home and /work will be accessible from oth...")
10:35, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Monk (content was: "The monk cluster has been retired at the end of March, 2019. {{System |cluster_name=monk |target_usage=GPU jobs |system_idnumber=82 }} Category:Systems Decommissioned")
10:34, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Goblin (content was: "{{System |cluster_name=goblin |target_usage=General purpose |system_idnumber=5 }} ==System Overview== {| class="wikitable" style="text-align:center" border="1" |- | Node Range || 1-15 || 16-20 || 21-36 || 37-48 || 49 || 50 || 51-54 |-...")
10:34, 2 May 2019 Ppomorsk (Talk | contribs) deleted page Graham (content was: "300px 300px 250px '''IMPORTANT''': to login to Graham, you have to use your Compute Canada credentials (login name and password), not your SHARCNET credentials! Graham is...")
10:33, 2 May 2019 Ppomorsk (Talk | contribs) deleted page FEniCS (content was: "The FEniCS Project is a collection of free software with an extensive list of features for automated, efficient solution of differential equations. Link: http://fenicsproject.org/ At present SHARCNET helps users install this package in...")
10:32, 2 May 2019 Ppomorsk (Talk | contribs) deleted page TINKER (content was: "{{Software |package_name=TINKER |package_description=Software Tools for Molecular Design |package_idnumber=147 }} =Introduction= Provides a multi-threaded build of the tinker package with the intel compiler. =Version Selection= <pre>...")
10:29, 2 May 2019 Ppomorsk (Talk | contribs) deleted page SIMPSON (content was: "=Usage on new Compute Canada clusters= This software has not yet been installed on the new clusters cedar and graham. If that should be required, please email help@sharcnet.ca.")

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