Difference between revisions of "UFRC Help and Documentation"

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[[Category:Docs]]
 
[[Category:Docs]]
 
__NOTOC__
 
__NOTOC__
{{Note|Interactive Jobs in the GPU partition are limited to 6 hrs|news}}
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{{Note | Effective October 18, 2021, Research Computing will require [[Authentication With MFA|Multi-Factor Authentication]] for access to HiPerGator|warn}}
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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" |
 
* [[Getting Started ]]
 
* [[Getting Started ]]
* [[Mailing Lists]]
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* [[Quick Start Guide]]
 
* [[New user training]]
 
* [[New user training]]
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| scope="col" width="150" |
 
* [[Training|Training, Events and How-To Videos]]
 
* [[Training|Training, Events and How-To Videos]]
| scope="col" width="150" |
 
* [[Quick Start Guide]]
 
 
* [[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]]
 
 
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| scope="col" width="150" |
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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/about/procedures/storage/types/ Storage Types and Procedures]</span>
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* [[Support|All Support Options]]</span>
* [[Storage|Practical Storage Use]]
 
* <span class="plainlinks">[https://www.rc.ufl.edu/services/teaching-support/ Teaching Support]</span>
 
 
|-
 
|-
 
|}
 
|}
  
=== Software and Reference Data===
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=== Interfaces and Access===
Use the tools from [[UFRC environment module]] for convenience.
 
 
{| 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)]]
* [[Reference Data]]
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* [[Galaxy|Galaxy Genomics Framework]]
* [[UFRC_environment_module|HiPerGator Tools]]
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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]]
* [[Software Development]]
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* [[Open OnDemand|OnDemand (Matlab, RStudio,...)]]
* [[AI Support]]
 
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[GPU_Access|GPU Access]]
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* [[Authentication With MFA|Multi-Factor Authentication]]
* [[Compilers|Available Compilers]]
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* [[SSH Multiplexing]]
* [[Jupyter_Notebooks| Jupyter Notebooks]]
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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]]
* [[SLURM_Job_Arrays|SLURM Job Arrays]]
 
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Account_and_QOS_limits_under_SLURM|Account and QOS Limits Under SLURM]]
 
 
* [[Large-Memory_SMP_Servers|Big Memory Partition]]
 
* [[Large-Memory_SMP_Servers|Big Memory Partition]]
 
* [[Available Node Features]]
 
* [[Available Node Features]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Annotated_SLURM_Script|Annotated Job Script Walk-through]]
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* [[Sample_SLURM_Scripts|SLURM Job Script Examples]]
* [[Sample_SLURM_Scripts|Sample SLURM Scripts]]
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* [[SLURM_Job_Arrays|SLURM Job Arrays]]
 
|}
 
|}
  
=== Connecting and Data Transfer ===
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=== Software and Reference 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: #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]]
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| scope="col" width="150" |
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* [[Modules|Environment Modules System]]
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| scope="col" width="150" |
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* [[Reference Data]]
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* [[AI Reference Datasets]]
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|-
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|}
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=== Transfer Data ===
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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;"  
 
|-
 
|-
 
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=== Specific Research Areas ===
 
=== Specific Research Areas ===
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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]]
 
 
* [[Nlp|Natural Language Processing]]
 
* [[Nlp|Natural Language Processing]]
 
|-
 
|-
 
|}
 
|}

Revision as of 15:39, 18 October 2021


Effective October 18, 2021, Research Computing will require Multi-Factor Authentication for access to HiPerGator

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