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 Wiki. The information here augments what is found on our [http://www.hpc.ufl.edu web site] with information we think is best provided in a less formal and official context. It is used for information that changes rapidly and might become quickly dated or incorrect on the web site. While there is good and helpful information here, you ''will'' find text that has not been proofed to the same standards that we try to maintain on our web site. We hope you find it helpful.</span>
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=== Getting Started ===
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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}}
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=== For New Users ===
 
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* [[Getting Started]]
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* '''[[Getting Started ]]'''
* [[Moab Command Summary]]
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* '''[[Training|Training, Events, Videos]]'''
*[[Non_Batch-System_Resources|Non-Batch System Resources]]
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* [[New user training]]
 
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* [[Mailing Lists]]
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* [[Development_and_Testing|Interactive Development and Testing]]
* [[Events_Calendar]]
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* [[Storage|Practical Storage Use]]
* [[Training]]
 
 
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* [[Password | Changing your Password]]
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* '''[[Get_Help|How To Get Help]]'''</span>
* <span class="plainlinks">[http://support.rc.ufl.edu Open a Support Request]</span>
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* <span class="plainlinks">[https://support.rc.ufl.edu/enter_bug.cgi Submit a Support Request]</span>
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* [[AI Help|AI Help]]
 
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=== Software and Libraries ===
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=== Interfaces and Access===
 
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* [[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,...)]]
 
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* [[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]]
 
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* [[CUDA|GPUs and CUDA]]
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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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|-
 
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=== Batch System ===
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=== Scheduler ===
 
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|-
 
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*[[Queues|Queue information]]
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* [[SLURM_Commands|SLURM Commands]]
* [[Torque_Job_Arrays|Job Arrays]]
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* [[Account_and_QOS_limits_under_SLURM|Account and QOS Limits Under SLURM]]
* [[PBS_$TMPDIR|Using TMPDIR Variable]]
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* [[Large-Memory_SMP_Servers|Big Memory Partition]]
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* [[Available Node Features]]
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* [[Sample_SLURM_Scripts|SLURM Job Script Examples]]
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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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* [[Applications|Installed Applications]]
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* [[UFRC_environment_module|HiPerGator ufrc Tools]]
 
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* [[Annotated_PBS_Script|Annotated Job Script Example]]
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* [[Modules|Environment Modules System]]
* [[PBS_Directives|Basic PBS Directives]]
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* [[Billed Usage]]
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* [[Reference Data]]
* [[Large-Memory_SMP_Servers|Big Memory Queue]]
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* [[AI Reference Datasets]]
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|-
 
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=== Connecting and Data Transfer ===
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=== Transfer Data ===
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* [[Samba Access]]
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* [[Transfer Data]]
* [[FileZilla|SFTP Transfers with FileZilla]]
 
 
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* [[Globus]]
 
* [[Globus]]
* [[GUI Programs|GUI Programs and X11]]
 
 
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* [[PuTTY|Using PuTTY for SSH]]
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* [[Samba Access]]
* [[OwnCloud]]
 
 
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=== Specific Research Areas ===
 
=== Specific Research Areas ===
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| width="150" | [[Biology|Biological Research Computing]]
 
 
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* [[Biology|Biology]]
 
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* [[Galaxy|Galaxy Genomics Framework]]
 
* [[R|R (BioConductor)]]
 
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* [[BLASTDB|Blast Databases]]
 
* [[Transfer_NGS_Sequence_Data_to_HPC|Data Transfer]]
 
 
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* [[:Category:Bioinformatics|Bioinformatics Software]]
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* [[Nlp|Natural Language Processing]]
* [[Sharing Files]]
 
 
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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