Difference between revisions of "UFRC Help and Documentation"

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[[Category:Docs]]
 
__NOTOC__
 
__NOTOC__
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>
 
  
=[[HiPerGator2.0|HiPerGator 2.0 Information]]=
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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>
=== HiPerGator 2.0 Information ===
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{{Note|[[https://lists.ufl.edu/cgi-bin/wa?A0=HPC-ANNOUNCE-L HiPerGator News and Announcements]] |news}}
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=== For New Users ===
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*
 
|}
 
-->
 
 
 
=== Getting Started ===
 
 
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|-
 
|-
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Getting Started ]]
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* '''[[Getting Started ]]'''
* [[Mailing Lists]]
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* '''[[Training|Training, Events, Videos]]'''
* [[Events_Calendar]]
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* [[New user training]]
* [[Training]]
 
 
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| scope="col" width="150" |
* [[SLURM_Commands|SLURM Commands]]
 
* [[Non_Batch-System_Resources|Non-Batch System Resources]]
 
 
* [[Development_and_Testing|Interactive Development and Testing]]
 
* [[Development_and_Testing|Interactive Development and Testing]]
* [[GUI Programs]]
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* [[Storage|Practical Storage Use]]
 
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| scope="col" width="150" |
* [[Password | Change your Password]]
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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>
 
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* [[AI Help|AI Help]]
 
|-
 
|-
 
|}
 
|}
  
=== Software and Libraries ===
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=== Interfaces and Access===
 
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|-
 
|-
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Installed Software]]
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* [[Jupyter_Notebooks| Jupyter (Python, R)]]
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* [[Galaxy|Galaxy Genomics Framework]]
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* [[Open OnDemand|OnDemand (Matlab, RStudio,...)]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Modules|Environment Modules System]]
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* [[Managing Python environments and Jupyter_kernels | Conda and Jupyter Kernels ]]
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* [[GUI Programs|Running GUI Apps]]
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* [[GPU_Access|GPU Access]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[GPU_Access|GPU Access]]
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* [[Authentication With MFA|Multi-Factor Authentication]]
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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;"
 
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|-
 
|-
 
| scope="col" width="150" |
 
| scope="col" width="150" |
 
* [[SLURM_Commands|SLURM Commands]]
 
* [[SLURM_Commands|SLURM Commands]]
* [[PBS2SLURM_Command_Reference|Moab (PBS) to SLURM command reference]]
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* [[Account_and_QOS_limits_under_SLURM|Account and QOS Limits Under SLURM]]
* [[Using_Variables_in_SLURM_Jobs|Using variables in 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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|-
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Account and QOS limits under SLURM]]
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* [[Applications|Installed Applications]]
* [[GUI_Partition|GUI Partition usage]]
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* [[UFRC_environment_module|HiPerGator ufrc Tools]]
* [[Large-Memory_SMP_Servers|Big Memory Partition]]
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| scope="col" width="150" |
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* [[Modules|Environment Modules System]]
 +
 
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[Annotated_SLURM_Script|Annotated Job Script Example]]
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* [[Reference Data]]
* [[Sample_SLURM_Scripts|Sample SLURM Scripts]]
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* [[AI Reference Datasets]]
* [[Example_SLURM-Parallel-Job-Scripts|SLURM parallel job example script]]
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|-
* [[Example_SLURM-GPU-Job-Scripts|SLURM GPU job example script]]
 
 
|}
 
|}
  
=== Connecting and Data Transfer ===
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=== Transfer Data ===
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|-
 
|-
 
| scope="col" width="150" |
 
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* [[Samba Access]]
 
 
* [[Transfer Data]]
 
* [[Transfer Data]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
 
* [[Globus]]
 
* [[Globus]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[PuTTY|Using PuTTY for SSH]]
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* [[Samba Access]]
* [[GatorBox]]
 
 
|-
 
|-
 
|}
 
|}
  
 
=== Specific Research Areas ===
 
=== Specific Research Areas ===
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|-
 
|-
| width="150" | [[Biology|Biological Research Computing]]
 
 
| scope="col" width="150" |  
 
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* [[Biology|Biology]]
 
| scope="col" width="150" |
 
| scope="col" width="150" |
|-
 
| scope="col" width="150" |
 
* [[Galaxy|Galaxy Genomics Framework]]
 
* [[R|R (BioConductor)]]
 
|
 
* [[BLASTDB|Blast Databases]]
 
 
| scope="col" width="150" |
 
| scope="col" width="150" |
* [[:Category:Bioinformatics|Bioinformatics Software]]
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* [[Nlp|Natural Language Processing]]
 
|-
 
|-
 
|}
 
|}

Latest revision as of 14:09, 10 June 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.

For New Users

Interfaces and Access

Scheduler

Software and Reference Data

Transfer Data

Specific Research Areas