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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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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<!-- {{Note|Interactive Jobs in the GPU partition are limited to 6 hrs|news}} -->
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Welcome to the <span class="plainlinks">[http://www.ufl.edu/ University of Florida] Research Computing Help and Documentation site. General information, policies, and purchase request forms are on our [https://www.rc.ufl.edu main web site]. The information here is focused on particular applications, services, and usage examples. [https://support.rc.ufl.edu Provide Feedback].</span>
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{{Note|[[https://lists.ufl.edu/cgi-bin/wa?A0=HPC-ANNOUNCE-L HiPerGator News and Announcements]] |news}}
 
=== Getting Started ===
 
=== Getting Started ===
 
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|-
 
|-
 
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| scope="col" width="150" |
* [[Getting Started ]]
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* '''[[Getting Started ]]'''
* [[Mailing Lists]]
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* [[Quick Start Guide]]
 
* [[New user training]]
 
* [[New user training]]
* [[Training|Training, Events and How-To Videos]]
 
 
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* [[Quick Start Guide]]
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* '''[[Training|Training, Events, 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]]
 
 
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* '''[[Get_Help|How To Get Help]]'''</span>
 
* <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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* [[AI Help|AI Help]]
* [[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.
 
 
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|-
 
|-
 
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| 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]]
 
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| 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]]
 
 
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| 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 ===
 
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|-
 
|-
 
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| 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]]
 
 
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| 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]]
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|}
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=== Software and Reference Data===
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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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|-
 
|}
 
|}
  
=== 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 ===
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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]]
 
|-
 
|-
 
|}
 
|}

Latest revision as of 16:10, 17 February 2022


Welcome to the University of Florida Research Computing Help and Documentation site. General information, policies, and purchase request forms are on our main web site. The information here is focused on particular applications, services, and usage examples. Provide Feedback.

Getting Started

Interfaces and Access

Scheduler

Software and Reference Data

Transfer Data

Specific Research Areas