Difference between revisions of "UFRC Help and Documentation"

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[[Category:Docs]]
 
[[Category:Docs]]
 
__NOTOC__
 
__NOTOC__
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{{Note|[[:News:Latest|The latest HiPerGator News and Announcements]]|news}}
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<!-- {{Note|Interactive Jobs in the GPU partition are limited to 6 hrs|news}} -->
 
Welcome to the <span class="plainlinks">[http://www.ufl.edu/ University of Florida] Research Computing Help and Documentation site. The information here is focused on particular applications, services, and usage examples and complements more general policies and information found on our [https://www.rc.ufl.edu main web site]. It is used for information that changes more frequently and might become quickly dated or incorrect on the web site. This site is edited by individual UFRC staff members. If you find inaccuracies, errors, or omissions on this site please [https://support.rc.ufl.edu let us know].</span>
 
Welcome to the <span class="plainlinks">[http://www.ufl.edu/ University of Florida] Research Computing Help and Documentation site. The information here is focused on particular applications, services, and usage examples and complements more general policies and information found on our [https://www.rc.ufl.edu main web site]. It is used for information that changes more frequently and might become quickly dated or incorrect on the web site. This site is edited by individual UFRC staff members. If you find inaccuracies, errors, or omissions on this site please [https://support.rc.ufl.edu let us know].</span>
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<span>[https://outlook.office365.com/owa/calendar/UFITResearchComputingSupport@uflorida.onmicrosoft.com/bookings/ Book an In-Person or Zoom support appointment.]</span>
 
=== Getting Started ===
 
=== Getting Started ===
 
{| cellpadding=10 width="100%" style="background-color: #FFF; border-color: #FF4A00; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"  
 
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| scope="col" width="150" |
 
| scope="col" width="150" |
 
* [[Getting Started ]]
 
* [[Getting Started ]]
* [[Mailing Lists]]
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* [[Quick Start Guide]]
* [[Events_Calendar|Events Calendar]]
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* [[New user training]]
* [[Training|Training and How-To Videos]]
 
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Non_Batch-System_Resources|Non-Batch System Resources]]
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* [[Training|Training, Events and How-To Videos]]
 
* [[Development_and_Testing|Interactive Development and Testing]]
 
* [[Development_and_Testing|Interactive Development and Testing]]
* [[GUI Programs]]
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* [[Storage|Practical Storage Use]]
* [[Blocked Accounts]]
 
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[SSH Key Creation (Windows)]]
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* [[AI Help|AI Help]]
 
* <span class="plainlinks">[https://support.rc.ufl.edu/enter_bug.cgi Submit a Support Request]</span>
 
* <span class="plainlinks">[https://support.rc.ufl.edu/enter_bug.cgi Submit a Support Request]</span>
* <span class="plainlinks">[https://www.rc.ufl.edu/services/procedures/storage/types/ Storage Types]</span>
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* [[Support|All Support Options]]</span>
* <span class="plainlinks">[https://www.rc.ufl.edu/services/support/teaching-support/ Teaching Support]</span>
 
 
|-
 
|-
 
|}
 
|}
  
=== Software and Libraries ===
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=== Interfaces and Access===
 
{| cellpadding=10 width="100%" style="background-color: #FFF; border-color: #0021A5; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"
 
{| cellpadding=10 width="100%" style="background-color: #FFF; border-color: #0021A5; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"
 
|-
 
|-
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Applications|Installed Applications]]
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* [[Jupyter_Notebooks| Jupyter (Python, R)]]
* [[Software Development]]
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* [[Galaxy|Galaxy Genomics Framework]]
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* [[GPU_Access|GPU Access]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Modules|Environment Modules System]]
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* [[GUI Programs|Running GUI Apps]]
* [[Compilers|Available Compilers]]
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* [[Open OnDemand|OnDemand (Matlab, RStudio,...)]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[GPU_Access|GPU Access]]
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* [[Authentication With MFA|Multi-Factor Authentication]]
* [[UFRC_environment_module|Collection of UFRC Utilities]]
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* [[SSH Multiplexing]]
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* [[Blocked Accounts]]
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|-
 
|}
 
|}
  
=== Batch System ===
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=== Scheduler ===
 
{| cellpadding=10 width="100%" style="background-color: #FFF; border-color: #FF4A00; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"
 
{| cellpadding=10 width="100%" style="background-color: #FFF; border-color: #FF4A00; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"
 
|-
 
|-
 
| scope="col" width="150" |
 
| scope="col" width="150" |
 
* [[SLURM_Commands|SLURM Commands]]
 
* [[SLURM_Commands|SLURM Commands]]
* [[Using_Variables_in_SLURM_Jobs|Using Variables in SLURM]]
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* [[Account_and_QOS_limits_under_SLURM|Account and QOS Limits Under SLURM]]
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| scope="col" width="150" |
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* [[Large-Memory_SMP_Servers|Big Memory Partition]]
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* [[Available Node Features]]
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| scope="col" width="150" |
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* [[Sample_SLURM_Scripts|SLURM Job Script Examples]]
 
* [[SLURM_Job_Arrays|SLURM Job Arrays]]
 
* [[SLURM_Job_Arrays|SLURM Job Arrays]]
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|}
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=== Software and Reference Data===
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{| cellpadding=10 width="100%" style="background-color: #FFF; border-color: #0021A5; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"
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|-
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| scope="col" width="150" |
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* [[Applications|Installed Applications]]
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* [[UFRC_environment_module|HiPerGator ufrc Tools]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Account_and_QOS_limits_under_SLURM|Account and QOS Limits Under SLURM]]
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* [[Modules|Environment Modules System]]
* [[Large-Memory_SMP_Servers|Big Memory Partition]]
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| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Annotated_SLURM_Script|Annotated Job Script Walk-through]]
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* [[Reference Data]]
* [[Sample_SLURM_Scripts|Sample SLURM Scripts]]
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* [[AI Reference Datasets]]
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|-
 
|}
 
|}
  
=== Connecting and Data Transfer ===
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=== Transfer Data ===
{| cellpadding=10 width="100%" style="background-color: #FFF; border-color: #0021A5; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"  
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{| cellpadding=10 width="100%" style="background-color: #FFF; border-color: #FF4A00; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"  
 
|-
 
|-
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Samba Access]]
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* [[Transfer Data]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
 
* [[Globus]]
 
* [[Globus]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Transfer Data]]
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* [[Samba Access]]
 
|-
 
|-
 
|}
 
|}
  
 
=== Specific Research Areas ===
 
=== Specific Research Areas ===
{|  cellpadding=10 width="100%" style="background-color: #FFF; border-color: #FF4A00; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"
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{|  cellpadding=10 width="100%" style="background-color: #FFF; border-color: #0021A5; border-style: solid; border-width: 3px 3px 3px 3px; color: #444444; vertical-align:top;"
 
|-
 
|-
 
| scope="col" width="150" |  
 
| scope="col" width="150" |  
* [[Biology|Biological Research Computing]]
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* [[Biology|Biocomputing]]
* [[:Category:Bioinformatics|Bioinformatics Software]]
 
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[R|R (BioConductor)]]
 
* [[BLASTDB|Blast Databases]]
 
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Galaxy|Galaxy Genomics Framework]]
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* [[Nlp|Natural Language Processing]]
 
|-
 
|-
 
|}
 
|}

Revision as of 20:27, 7 December 2021


Welcome to the University of Florida Research Computing Help and Documentation site. The information here is focused on particular applications, services, and usage examples and complements more general policies and information found on our main web site. It is used for information that changes more frequently and might become quickly dated or incorrect on the web site. This site is edited by individual UFRC staff members. If you find inaccuracies, errors, or omissions on this site please let us know.

Book an In-Person or Zoom support appointment.

Getting Started

Interfaces and Access

Scheduler

Software and Reference Data

Transfer Data

Specific Research Areas