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- GACRC Cluster MySQL Server The Cluster MySQL server serves as a compute target for zCluster jobs and handles some669 bytes (88 words) - 16:29, 16 December 2013
- Centrally-installed software on the teaching cluster will typically be in one of two formats: a software module or a Singularity The majority of software centrally installed on the teaching cluster is installed in the form of a '''software module'''. A software module is22 KB (3,232 words) - 13:36, 6 September 2023
- #REDIRECT [[KB:HPC Cluster Acceptance Doc]]43 bytes (6 words) - 15:53, 18 July 2013
- The login node for the teaching cluster should be used for text editing, and job submissions. '''No jobs should be ...e may be terminated by GACRC staff, or automatically, in order to keep the cluster running properly. Jobs should27 KB (4,260 words) - 11:14, 18 January 2024
- where MyID needs to be replaced by your own cluster username (UGA MyID).10 KB (1,129 words) - 21:52, 5 September 2023
- ...ve session. To start an interactive session, first login into the teaching cluster and from there issue the <code>interact</code> command ...eractively for code compilation, please see [[Running Jobs on the teaching cluster]].19 KB (2,459 words) - 10:55, 6 September 2023
- The Slurm test cluster (Sap2test) will be available to all Sapelo2 users, starting at the end of J To connect to this test cluster, please follow the same steps you use to connect to Sapelo2, as described i955 bytes (164 words) - 10:32, 13 July 2020
- 42 bytes (6 words) - 14:20, 2 October 2020
- 7 KB (963 words) - 22:09, 5 September 2023
Page text matches
- The Slurm test cluster (Sap2test) will be available to all Sapelo2 users, starting at the end of J To connect to this test cluster, please follow the same steps you use to connect to Sapelo2, as described i955 bytes (164 words) - 10:32, 13 July 2020
- ===Sapelo2 Cluster New User Training=== | Using Sapelo2 Cluster at the GACRC || February 10, Monday, 10 AM - 12 PM3 KB (397 words) - 11:43, 23 April 2020
- | Using Sapelo2 Cluster at the GACRC || January 8, Friday, 10:00 AM - 12:30 PM | Using Sapelo2 Cluster at the GACRC || January 13, Wednesday, 10:00 AM - 12:30 PM1 KB (160 words) - 16:26, 21 January 2021
- #REDIRECT [[KB:HPC Cluster Acceptance Doc]]43 bytes (6 words) - 15:53, 18 July 2013
- | Using Sapelo2 Cluster at the GACRC || April 28, Tuesday, 10 AM - 12:30 PM | Using Sapelo2 Cluster at the GACRC || May 6, Wednesday, 10 AM - 12:30 PM7 KB (1,041 words) - 12:21, 14 December 2020
- ==Changing your Password on Sapelo2, xfer, and the teaching cluster== Your password on Sapelo2, on the xfer nodes, on the teaching cluster, and on txfer is your '''UGA MyID''' password. If you want to change it, pl308 bytes (54 words) - 10:27, 20 November 2018
- | Using Sapelo2 Cluster at the GACRC || January 8, Friday, 10:00 AM - 12:30 PM | Using Sapelo2 Cluster at the GACRC || January 13, Wednesday, 10:00 AM - 12:30 PM6 KB (936 words) - 13:12, 20 July 2021
- ===Sapelo2 Cluster New User Training=== | Using Sapelo2 Cluster at the GACRC || January 15th, Tuesday, 1:45 PM - 3:30 PM9 KB (1,478 words) - 11:44, 23 April 2020
- ...oop compute nodes for hadoop1.gacrc.uga.edu. It is also login node for the cluster users. See the hadoop section in this wiki for more information. Cluster platform distribution point for the hadoop1.gacrc cluster as well as head node for the Hadoop deployment.911 bytes (130 words) - 16:49, 16 December 2013
- The Sapelo cluster will be decommissioned during the maintenance and will no longer be availab The Sapelo2 cluster will be unavailable beginning at 5 p.m. on Friday, November 16 and should b2 KB (348 words) - 15:09, 15 October 2018
- The original Sapelo cluster (sapelo1.gacrc.uga.edu) is now fully decommissioned and the nodes that were157 bytes (25 words) - 13:10, 26 November 2018
- ====Sapelo2 Cluster New User Training==== | Introduction to HPC Using Sapelo2 Cluster at GACRC || March 13th, Tuesday, 1:45 PM - 3:30 PM12 KB (1,788 words) - 10:52, 2 January 2019
- ...|| Davison Life Sciences Complex C128 || Introduction to HPC Using the New Cluster at GACRC ...|| Davison Life Sciences Complex C128 || Introduction to HPC Using the New Cluster at GACRC4 KB (499 words) - 15:37, 29 October 2015
- ...|| Davison Life Sciences Complex C128 || Introduction to HPC Using the New Cluster at GACRC ...|| Davison Life Sciences Complex C128 || Introduction to HPC Using the New Cluster at GACRC5 KB (731 words) - 12:52, 21 December 2015
- ...omated clustering of many nodes with little or no manual intervention. The cluster platform provides a fundamental environment for allowing users to efficient ...s in the cluster according to a set policy. Users submit their jobs to the cluster scheduler through scripts that run binaries with arguments that describe th2 KB (262 words) - 17:21, 23 December 2013
- GACRC Cluster MySQL Server The Cluster MySQL server serves as a compute target for zCluster jobs and handles some669 bytes (88 words) - 16:29, 16 December 2013
- Currently, the physical components of the RCC VMWare cluster are composed of 3 servers, 2 [[Arch nodes]] in [[RCC Rack 12]] using ESXi 4221 bytes (33 words) - 11:18, 8 August 2011
- | Introduction to HPC Using the New Cluster at GACRC || January 6th, Wednesday, 3:00 PM - 4:30 PM | Introduction to HPC Using the New Cluster at GACRC || January 25th, Monday, 10:00 AM - 11:30 AM10 KB (1,520 words) - 14:04, 10 January 2017
- [[Sample batch job submission scripts on the teaching cluster]]137 bytes (18 words) - 14:14, 7 January 2021
- [[Running Jobs on the teaching cluster]]113 bytes (14 words) - 13:56, 26 October 2020
- [[Monitoring Jobs on the teaching cluster]]119 bytes (14 words) - 13:57, 26 October 2020
- [[Code Compilation on the teaching cluster]]121 bytes (14 words) - 14:05, 26 October 2020
- Sapelo is a Linux cluster that runs a 64-bit CentOS 6.5 operating system The cluster is currently comprised of the following resources:10 KB (1,516 words) - 10:44, 24 January 2024
- | Introduction to HPC Using Sapelo Cluster at GACRC || January 9th, Monday, 1:00 PM - 2:30 PM | Introduction to HPC Using Sapelo Cluster at GACRC || January 18th, Wednesday, 2:30 PM - 4:00 PM19 KB (2,869 words) - 11:44, 20 December 2017
- *The teaching cluster will not be affected. The teaching cluster will not be affected, and it will remain available during the maintenance.1 KB (208 words) - 14:38, 18 June 2021
- Also refer to [[Running Jobs on the teaching cluster]]. ...configured to forward X11. You can run GaussView directly on the teaching cluster login node.3 KB (461 words) - 12:35, 9 May 2024
- ...tion might be necessary to allow X windows applications running on the new cluster to be forwarded to your local machine. If your username on your local syste ...client or server, you can forward X Window applications running on the new cluster to your local machine. Recent releases of Unix based operating systems (inc9 KB (1,481 words) - 09:53, 29 June 2021
- ...ent Status: <span style="color:black"> Sapelo2 under maintenance, teaching cluster available </span></div> ...padding:0.2em 0.4em;"> Current Status: <span style="color:black"> Teaching cluster inaccessible while the scheduled UGA network maintenance is on-going</span>5 KB (683 words) - 15:18, 24 April 2024
- *The teaching cluster will not be affected. ...wiki/Training to see the scheduled events. Documentation on the Slurm test cluster (Sap2test) is available at https://wiki.gacrc.uga.edu/wiki/Systems#Slurm_Te3 KB (466 words) - 09:01, 28 September 2020
- ! scope="col" width="60px"| Cluster2 KB (166 words) - 10:51, 14 February 2013
- ==Using the Cluster== ...m computational research within a submission script that you submit to the cluster with <code>sbatch</code> or an [[Running_Jobs_on_Sapelo2#How_to_open_an_int7 KB (1,168 words) - 18:08, 18 January 2023
- cluster has at least this much memory available. Only applies in cluster jobmodes.6 KB (764 words) - 10:45, 9 May 2024
- '''To use Jupyter notebook on Teaching cluster''' To run Jupyter notebook on Teaching cluster you have to submit a job to the queueing system that will run the jupyter n6 KB (945 words) - 14:04, 16 June 2021
- ...ncurrent rise in impactful issues which seem inherent to the design of the cluster management stack that currently runs Sapelo. We propose replacing the legac - Remove problems experienced with Sapelo’s cluster management stack. While the vendor has addressed some issues, other issues6 KB (910 words) - 11:09, 4 January 2018
- ...des provide CPU, memory and storage resources to the hadoop1.gacrc.uga.edu cluster713 bytes (101 words) - 16:32, 16 December 2013
- ...des provide CPU, memory and storage resources to the hadoop1.gacrc.uga.edu cluster713 bytes (101 words) - 16:32, 16 December 2013
- ...des provide CPU, memory and storage resources to the hadoop1.gacrc.uga.edu cluster713 bytes (101 words) - 16:32, 16 December 2013
- ...des provide CPU, memory and storage resources to the hadoop1.gacrc.uga.edu cluster713 bytes (101 words) - 16:32, 16 December 2013
- [[GACRC Cluster MySQL Server]]853 bytes (116 words) - 16:24, 16 December 2013
- Generic instructional user accounts are available on the Linux cluster for courses that teach high-performance computing methods. Besides the num1 KB (173 words) - 14:42, 24 June 2021
- Please also refer to [[Running Jobs on the teaching cluster]]. ===To use Jupyter notebook on Teaching cluster with an interactive job===7 KB (1,088 words) - 15:33, 8 February 2024
- ...well as submission and monitoring of multiple task arrays on a SLURM-type cluster (Sapelo2) or a standalone multi-core server. </pre>'''Example of how to run Meraculous cluster mode (multiple task arrays) on batch'''6 KB (935 words) - 14:57, 14 December 2022
- 1. log on to Teching cluster login node using ssh with X-forwarding being turned on: ...X window Jobs]] for more details of running GUI X-window jobs on Teaching cluster.3 KB (436 words) - 15:24, 7 February 2019
- ...putational workflows, job troubleshooting and optimization, how to use the cluster, etc.894 bytes (134 words) - 15:17, 24 April 2024
- '''NOTE: New users are required to attend a Sapelo2 cluster introductory training session and information about that will be sent once ...'', the GACRC is hosting 8 training sessions (4 Linux basics and 4 Sapelo2 cluster new user trainings).20 KB (2,818 words) - 08:53, 14 May 2024
- Also refer to [[Running Jobs on the teaching cluster]] ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (494 words) - 15:47, 18 October 2019
- ===Name the cluster!!=== *Interactive cluster (using rack of zcluster nodes)?5 KB (670 words) - 08:38, 18 June 2014
- Also refer to [[Running Jobs on the teaching cluster]].1 KB (167 words) - 12:32, 27 August 2019
- ...r run MATLAB directly on your local machine and have it submit jobs to the cluster]. ''' ...use cores on multiple nodes, you need to configure MATLAB and create a new cluster profile. To do this, please login to Sapelo2, start an interactive session20 KB (3,154 words) - 12:32, 13 May 2024
- ...ded to the Gaussian group. Then you should be able to run gaussian on this cluster. Also refer to [[Running Jobs on the teaching cluster]].5 KB (727 words) - 12:33, 9 May 2024
- Also refer to [[Running Jobs on the teaching cluster]] ...you need to use the GUI, you can run it on the login node of the teaching cluster. Please note that the application will be very slow when run with a GUI. If5 KB (748 words) - 17:09, 17 January 2019
- ...requesting the optimal amount of resources when submitting a job to an HPC cluster. We will also discuss data points we can observe while a job is running an When submitting a job to an HPC cluster, there are four main types of resources that we request. To make sure we�8 KB (1,415 words) - 15:54, 17 February 2021
- ====== Run job using "Lane Sapelo2 Default (cluster)" ====== * In cryoSPARC, queue a job to "'''Lane Sapelo2 Default (cluster)'''"; The job will be dispatched to the worker node via Slurm. Please note,6 KB (949 words) - 14:00, 12 October 2023
- Once you login into the cluster, you can use LMOD commands to check if an application is installed.1 KB (206 words) - 14:46, 12 June 2018
- ==MPI Libraries for parallel jobs on the teaching cluster== You can find all MVAPICH2 modules available on the teaching cluster by running the following command:15 KB (1,450 words) - 10:45, 16 October 2023
- Also refer to [[Running Jobs on the teaching cluster]] ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (525 words) - 13:28, 6 January 2020
- Currently, the physical components of the RCC VMWare cluster are composed of 3 servers, 2 [[Arch nodes]] in [[RCC Rack 12]] using ESXi 4 All of the management operations for a VMWare cluster are managed by a physical machine that runs software named vCenter. vCenter7 KB (1,047 words) - 13:03, 8 August 2011
- ...Code IDE, you can create a file (and save it to a specific location on the cluster), or open a workspace (default will be /home/MyID) and create a file there. ** The code file must be saved (to a location on the cluster) before you can run it in the terminal.4 KB (679 words) - 15:23, 5 January 2024
- This page provides the common errors and solutions for jobs at GACRC cluster. The examples are made from Sapelo2 environment, but the solutions apply to ...fixed by saving the file in Unix format or using the following command at cluster:4 KB (626 words) - 13:29, 28 January 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster. cluster Cluster (but don't merge) overlapping/nearby intervals.6 KB (760 words) - 14:01, 10 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster. run-diagnostic Diagnostic tests of preset.xml and cluster5 KB (577 words) - 15:43, 15 August 2018
- ...use the following command to search for all Java versions installed on the cluster: ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (605 words) - 12:58, 5 September 2023
- ..., which is '''not''' the same as the user's home directory on the teaching cluster. ...tion is established you can upload or download files from Local Machine to Cluster or vice-versa. Note: Under Advanced, keep the "Default" option for Transfer24 KB (3,948 words) - 11:25, 1 December 2021
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster. -m runmode [local|cluster] (default local)7 KB (885 words) - 12:04, 30 August 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster. -C = <int>: maximal cluster D value? (default=100)4 KB (623 words) - 14:03, 12 November 2018
- ...ace. Through Open OnDemand, graphical applications can be utilized on the cluster far more easily and smoothly than using X11 forwarding. It also helps comp * Graphical Desktop on the cluster13 KB (2,236 words) - 14:26, 12 December 2023
- The Sapelo2 cluster has the ability to run Singularity containers. [http://singularity.lbl.gov/ ===== Accessing the cluster filesystem from inside the container =====10 KB (1,359 words) - 10:02, 10 January 2022
- To help users familiarize with Slurm and the test cluster environment, we have prepared some training videos that are available from As we expand the Sapelo2 cluster by adding more compute nodes, it is helpful to identify compute nodes by it4 KB (680 words) - 21:59, 29 October 2020
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.2 KB (314 words) - 16:47, 13 May 2024
- Also refer to [[Running Jobs on the teaching cluster]]2 KB (295 words) - 16:47, 19 August 2019
- ...errors and their solutions that may come up when submitting jobs to an HPC cluster. Very often you will be able to quickly resolve errors that you may encoun ...ensive resource for various errors that may come up when working on an HPC cluster, but occasionally you may encounter errors that are not specifically outlin12 KB (1,950 words) - 22:14, 5 September 2023
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster. --pbs to run on cluster with PBS support5 KB (653 words) - 12:20, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.2 KB (315 words) - 14:18, 15 September 2021
- ...nitions, commands, and shortcuts that you should know to do work on an HPC cluster. Some videos covering introductory Linux commands are available '''[https:/ ...w are the minimum Slurm commands that you should know to do work on an HPC cluster. The first table are default Slurm commands. The next table are GACRC pre7 KB (1,073 words) - 13:48, 6 March 2023
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (426 words) - 13:59, 10 August 2018
- ...the file/directory between iRODS and your current working directory on the cluster.2 KB (286 words) - 11:08, 12 January 2021
- Also refer to [[Running Jobs on the teaching cluster]]2 KB (316 words) - 16:26, 18 January 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.2 KB (321 words) - 15:24, 15 August 2018
- Also refer to [[Running Jobs on the teaching cluster]]2 KB (315 words) - 15:52, 20 November 2019
- ....gz will be downloaded to your local drive. Then please transfer it to the cluster using a transfer node. Please refer to [[Transferring Files]]. 3) The key file downloaded is in gzip format, on the cluster please unpack it (with gunzip) and move it to ~/.gm_key (the name should be7 KB (978 words) - 16:29, 10 April 2024
- Centrally-installed software on the teaching cluster will typically be in one of two formats: a software module or a Singularity The majority of software centrally installed on the teaching cluster is installed in the form of a '''software module'''. A software module is22 KB (3,232 words) - 13:36, 6 September 2023
- ...ve session. To start an interactive session, first login into the teaching cluster and from there issue the <code>interact</code> command ...eractively for code compilation, please see [[Running Jobs on the teaching cluster]].19 KB (2,459 words) - 10:55, 6 September 2023
- Also refer to [[Running Jobs on the teaching cluster]] and to the documentation about our installation of [[WRF-Teaching|WRF]].2 KB (323 words) - 14:57, 18 January 2019
- ====How to View Resources on the Cluster==== | Cluster status || <code>qstat -B </code>|| <code>sinfo</code>13 KB (1,990 words) - 09:47, 28 October 2020
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.2 KB (349 words) - 10:07, 9 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (370 words) - 15:28, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (356 words) - 14:10, 10 August 2018
- Also refer to [[Running Jobs on the teaching cluster]]3 KB (341 words) - 14:37, 6 September 2023
- |Teaching Cluster Login Nodes |Teaching Cluster Transfer Nodes6 KB (948 words) - 10:28, 4 October 2021
- Also refer to [[Running Jobs on the teaching cluster]]2 KB (337 words) - 14:28, 5 March 2021
- ...en found, the PI can click the "request" button to choose their lab on the cluster that the user should be added to and finalize the account request.2 KB (333 words) - 09:24, 7 February 2023
- ...will help in executing a file full of commands in parallel using a compute cluster.2 KB (337 words) - 11:35, 17 November 2023
- ...ember 5-7,2023 maintenance window, the GACRC will be upgrading the Sapelo2 cluster operating system from CentOS 7 to Rocky 8. ...mpiler toolchains used to build software libraries and applications on the cluster will be updated, as newer versions are able to generate more optimized code11 KB (1,760 words) - 15:44, 4 October 2023
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (392 words) - 08:46, 14 May 2024
- Also refer to [[Running Jobs on the teaching cluster]] and to the documentation about our installation of [[WRF-Teaching|WRF]].3 KB (399 words) - 15:10, 18 January 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (433 words) - 15:22, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (399 words) - 12:25, 15 August 2018
- Also refer to [[Running Jobs on the teaching cluster]]3 KB (388 words) - 09:40, 14 May 2024
- ...also see [[Python-Sapelo2]] as that documentation applies to the teaching cluster as well. To see all versions of Python installed on the cluster, use:8 KB (1,135 words) - 16:50, 13 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (395 words) - 14:10, 10 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (691 words) - 14:10, 10 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (421 words) - 16:15, 27 August 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (415 words) - 16:18, 15 August 2018
- Also refer to [[Running Jobs on the teaching cluster]] ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (771 words) - 13:32, 6 January 2020
- ...t need to load any modules to use it. This command is not available on the cluster login nodes. To see the help page for metaphlan on an interactive node, use3 KB (402 words) - 12:34, 13 May 2024
- Also refer to [[Running Jobs on the teaching cluster]]3 KB (414 words) - 14:19, 6 September 2023
- ...VPN]. For more detailed information on how to connect to a specific GACRC cluster, please see the [[Connecting]] page. ===I received an SSH host key error when trying to connect to a GACRC cluster. What does this mean?===29 KB (4,788 words) - 10:07, 5 April 2024
- Also refer to [[Running Jobs on the teaching cluster]] and to the documentation about our installation of [[WPS-Teaching|WPS]].3 KB (435 words) - 15:11, 18 January 2019
- ...</code> command to check an updated list of GCC compilers available on the cluster. ...code> command to check an updated list of Intel compilers available on the cluster.19 KB (2,457 words) - 13:23, 6 September 2023
- Also refer to [[Running Jobs on the teaching cluster]]3 KB (401 words) - 13:38, 6 January 2020
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (475 words) - 14:09, 10 August 2018
- ...TBIONANOSOLVE is exported. It stores BionanoSolve installation path on the cluster, i.e., /apps/eb/BionanoSolve/3.6.1-11162020-foss-2019b/ . Using EBROOTBIONA ...s the environmental variable storing BionanoSolve installation path on the cluster; [options] need to be replaced by the options (command and arguments) you w16 KB (1,848 words) - 22:40, 15 September 2021
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (479 words) - 14:41, 13 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (507 words) - 14:08, 10 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (450 words) - 15:42, 15 August 2018
- <!-- *'''Suchitra Pakala, M.S.''' <br /> Cluster usage and Bioinformatics Trainer -->3 KB (442 words) - 11:10, 13 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (499 words) - 14:09, 10 August 2018
- Also refer to [[Running Jobs on the teaching cluster]]4 KB (532 words) - 13:53, 14 August 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.3 KB (510 words) - 12:19, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (536 words) - 11:27, 19 October 2018
- Clustering commmands include: cluster, cluster.classic, cluster.fit, cluster.split, mgcluster, phylotype ...lookup, make.sra, count.seqs, merge.sfffiles, pairwise.seqs, pcr.seqs, pre.cluster, remove.seqs, rename.seqs, reverse.seqs, screen.seqs, seq.error, sff.multip16 KB (2,493 words) - 14:19, 13 May 2024
- The login node for the teaching cluster should be used for text editing, and job submissions. '''No jobs should be ...e may be terminated by GACRC staff, or automatically, in order to keep the cluster running properly. Jobs should27 KB (4,260 words) - 11:14, 18 January 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (539 words) - 15:16, 10 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (550 words) - 15:44, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (581 words) - 14:33, 13 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (604 words) - 14:09, 10 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (596 words) - 15:30, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (528 words) - 16:49, 13 May 2024
- Also refer to [[Running Jobs on the teaching cluster]]4 KB (556 words) - 14:10, 19 August 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (550 words) - 12:19, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (533 words) - 15:42, 15 August 2018
- Sapelo2 and the teaching cluster have the following text editors available: '''vi''', '''vim''', '''emacs'''4 KB (620 words) - 15:47, 23 June 2021
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (619 words) - 12:22, 15 August 2018
- ...ry when a job starts (be that interactive or batch). Users of the teaching cluster have a separate home directory, which is not the same as on Sapelo2. ...needed for current jobs, but that are still needed for future jobs on the cluster, be transferred into the project file system and deleted from the scratch a17 KB (2,450 words) - 19:15, 27 March 2023
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (633 words) - 12:21, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (623 words) - 09:33, 14 May 2024
- Also refer to [[Running Jobs on the teaching cluster]] ...Jobs and Run interactive Jobs for more details of running jobs at Teaching cluster.15 KB (1,772 words) - 15:32, 1 April 2019
- The following partitions are defined on the Sapelo2 cluster:4 KB (631 words) - 10:32, 24 January 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (638 words) - 12:25, 15 August 2018
- We use '''EasyBuild''' to build most of the software modules on the Sapelo2 cluster. Easybuild is a software build and installation framework that allows us to5 KB (606 words) - 14:43, 12 April 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (669 words) - 14:01, 10 August 2018
- ...w you to have VS Code connect to Sapelo2 so that you can edit files on the cluster with your local instance of VS Code.5 KB (901 words) - 10:34, 20 May 2021
- Also refer to [[Running Jobs on the teaching cluster]]5 KB (799 words) - 08:36, 14 May 2024
- Also refer to [[Running Jobs on the teaching cluster]].4 KB (715 words) - 14:21, 25 January 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (684 words) - 15:05, 7 November 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.4 KB (723 words) - 15:40, 26 February 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (729 words) - 15:40, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (746 words) - 16:12, 24 October 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (712 words) - 15:34, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.7 KB (727 words) - 14:03, 10 August 2018
- Also refer to [[Running Jobs on the teaching cluster]] ...is the environmental variable storing PartitionFinder installation path on cluster (i.e. /usr/local/apps/eb/PartitionFinder/2.1.1-foss-2016b-Python-2.7.14); [25 KB (3,021 words) - 14:32, 1 April 2019
- Parsing input and generating cluster network graph6 KB (869 words) - 09:48, 3 November 2021
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.5 KB (780 words) - 11:23, 26 October 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.6 KB (827 words) - 14:07, 10 August 2018
- ...g. SAS, Omics Box) and that is compatible with the Linux OS running on the cluster, we can install it on Sapelo2 and make it available to the group(s) who acq5 KB (799 words) - 14:09, 18 July 2023
- ...arty Python packages are installed individually as separate modules on the cluster.10 KB (1,009 words) - 16:50, 13 May 2024
- ...open-source container technology, similar to Docker, but designed for HPC cluster environments. For more information on Singularity, please see their docume ...y. However, if you would like to build your own Singularity images on the cluster, you can certainly do that, using the <code>--remote</code> option with <co22 KB (3,370 words) - 12:06, 10 October 2023
- ...entity_and_length_diff: "0.98" # CD-HIT parameters = c and s. 0.98 = cluster at 98 % identity and a maximum length difference of 98 % ...entity_and_length_diff: "0.98" # CD-HIT parameters = c and s. 0.98 = cluster at 98 % identity and a maximum length difference of 98 %20 KB (2,723 words) - 11:11, 18 March 2024
- ...cluster for everyone. So '''please do not install any applications on the cluster while you are on the login node'''. We strongly advise that you build or in ...command will return all the matplotlib versions currently installed on the cluster. For example, the module named matplotlib/3.5.2-foss-2022a provides matplot31 KB (4,980 words) - 14:57, 31 October 2023
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.9 KB (733 words) - 14:10, 10 August 2018
- ...ithout any options, it shows ALL currently running and pending jobs on the cluster. In order to show only your currently running and pending jobs, you will w Cluster: tc216 KB (2,248 words) - 13:33, 21 September 2021
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.6 KB (878 words) - 09:37, 14 May 2024
- When using GEM on the cluster, '''it is important to include --threads option, and set its value to 1.'''6 KB (846 words) - 12:45, 6 September 2023
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.7 KB (1,007 words) - 09:36, 26 November 2018
- Also refer to [[Running Jobs on the teaching cluster]]6 KB (845 words) - 13:10, 20 September 2019
- Also refer to [[Running Jobs on the teaching cluster]]7 KB (966 words) - 11:04, 20 August 2019
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.7 KB (743 words) - 14:09, 10 August 2018
- ...o clusters and constructs complete de Bruijn graphs for each cluster. Each cluster represents the full transcriptonal complexity for a given gene (or sets of On the Sapelo2 cluster, singularity containers have access to the users home directory ($HOME), sc27 KB (3,400 words) - 14:23, 10 January 2024
- The original Sapelo cluster (sapelo1.gacrc.uga.edu) is now fully decommissioned and the nodes that were6 KB (964 words) - 20:14, 21 November 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.7 KB (919 words) - 14:25, 1 November 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.7 KB (992 words) - 14:09, 10 August 2018
- Also refer to [[Running Jobs on the teaching cluster]] To find all versions of BLAST+ installed on the teaching cluster, please use module spider command to do a search, as shown below:18 KB (2,359 words) - 10:09, 9 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.7 KB (977 words) - 13:22, 27 August 2020
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.7 KB (977 words) - 11:32, 14 May 2024
- ...ncorporates the same ''Bowtie2'' example covered in the [[Training#Sapelo2 Cluster New User Training|Sapelo2 training workshop]], and can be found at <code>/u11 KB (1,434 words) - 11:55, 27 February 2024
- The login node for the Sapelo2 cluster should be used for text editing, and job submissions. '''No jobs should be ...e may be terminated by GACRC staff, or automatically, in order to keep the cluster running properly. Jobs should51 KB (7,941 words) - 08:37, 12 October 2023
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.9 KB (1,095 words) - 15:24, 15 August 2018
- ...typically programs and scripts, needed for analysis on the GACRC computing cluster. ...last Wednesday of each month from 10AM to 4PM will be reserved for partial cluster maintenance.39 KB (6,165 words) - 13:04, 4 March 2022
- where MyID needs to be replaced by your own cluster username (UGA MyID).10 KB (1,129 words) - 21:52, 5 September 2023
- Also refer to [[Running Jobs on the teaching cluster]] ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.27 KB (2,300 words) - 12:33, 31 March 2020
- Also refer to [[Running Jobs on the teaching cluster]] ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.18 KB (2,605 words) - 15:18, 14 November 2019
- ...more information about software installed as singularity containers on the cluster, please see [[Software_on_Sapelo2#Singularity_Containers]]11 KB (1,546 words) - 22:12, 5 September 2023
- ...command will return all the matplotlib versions currently installed on the cluster, along with the version of Python that it uses. For example, the module nam ...mpiled binaries, check if binaries are available for the Linux OS that our cluster run (Sapelo2 runs CentOS 7). Binaries compiled for Window and for Mac OSX c26 KB (4,180 words) - 08:58, 26 October 2020
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.9 KB (1,156 words) - 13:00, 21 October 2020
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.15 KB (1,472 words) - 15:43, 15 August 2018
- ...llaborators to transfer data into your GACRC storage for you to use on the cluster, please contact GACRC and we will set up a space where they can write into.16 KB (2,562 words) - 14:26, 25 April 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.11 KB (1,479 words) - 10:12, 9 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.16 KB (1,960 words) - 12:26, 15 August 2018
- ...Running Jobs on Sapelo2]] for more information running jobs on the Sapelo2 cluster.12 KB (1,532 words) - 12:22, 14 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.15 KB (1,635 words) - 12:24, 15 August 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.12 KB (1,564 words) - 13:15, 9 May 2024
- ...OOTALPHAFOLD is exported. It stores the AlphaFold installation path on the cluster, i.e., /apps/eb/AlphaFold/2.3.1-foss-2022a-CUDA-11.7.0. The python script r ...OOTALPHAFOLD is exported. It stores the AlphaFold installation path on the cluster, i.e., /apps/eb/AlphaFold/2.3.4-foss-2022a-CUDA-11.7.0-ColabFold. The pytho38 KB (5,749 words) - 12:59, 8 May 2024
- ...open-source container technology, similar to Docker, but designed for HPC cluster environments. For more information on Singularity, please see their docume18 KB (2,624 words) - 17:17, 9 July 2020
- ...n Sapelo2]] page and on the teaching cluster at the [[Software on Teaching Cluster]] page. ...mentation not covered in [[Software on Sapelo2]] or [[Software on Teaching Cluster]].145 KB (15,371 words) - 12:23, 14 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster. ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.43 KB (5,349 words) - 08:48, 14 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.18 KB (2,229 words) - 15:59, 26 November 2018
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.29 KB (2,179 words) - 15:22, 15 August 2018
- ...ust 29-31,2023 maintenance window, the GACRC will be upgrading the Sapelo2 cluster operating system from CentOS 7 to Rocky 8. ...o let us know, if you would like us to install it centrally on the updated cluster.39 KB (2,498 words) - 15:32, 4 August 2023
- ...ning Jobs on Sapelo2]] for more information on running jobs on the Sapelo2 cluster.17 KB (2,147 words) - 12:24, 14 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.17 KB (2,178 words) - 13:27, 9 May 2024
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.30 KB (3,926 words) - 10:27, 25 November 2019
- ...ividual software pages for the applications installed on on the Slurm test cluster (Sap2test), there are currently over 550 software packages installed there. ! scope="col" width="60px"| Cluster136 KB (13,600 words) - 23:18, 27 October 2020
- ...sion | Run interactive Jobs]] for more details of running jobs at Teaching cluster.37 KB (4,391 words) - 15:45, 15 August 2018
- ...ing really large production runs (i.e. 100 or 1,000 bootstraps) on a Linux cluster. You can also perform multiple inferences on larger datasets in parallel to43 KB (5,475 words) - 08:39, 14 May 2024
- ! scope="col" width="60px"| Cluster132 KB (13,275 words) - 12:27, 26 October 2020