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Getting Started
Getting Started
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Running a Simple HPC Job
The HPC Hardware
The HPC Hardware Layout
Training
PBS
PBS
What Resources do my Jobs Need?
Writing PBS Job Scripts
Using qstat
Using qdel
Get Info on the Nodes
Get Info on the Queues
Logging into Other Nodes
Running Array Jobs
Passing Args to Jobs
Job Reservations
PBS Manuals
General Software
General Software
Apptainer
Apptainer
Playing with Apptainer
Building Containers
Apptainer & PBS
Definition Files
Important Information
Checkpointing with DMTCP
Java
Julia
MPI
Modules
Perl
Perl
Install Perlbrew
Install your own Perl Modules
Python
Python
Python Virtual Environments
Using Miniconda Python
Using Bioconda
Profiling Python
R
Text Editors
Workflow Software
Workflow Software
Nextflow
Specific Software
Specific Software
BLAST
DDSCAT
GROMACS
QIIME2
Miscellaneous
GPU Computing
GPU Computing
Accessing GPU Nodes
Checking Device Capability
Checking GPU Usage
Loading CUDA
PBS Job Script for GPUs
Miscellaneous
Miscellaneous
Reproducible Research
Using SSHFS
X Forwarding
FAQ
FAQ
SSH Problems
Safe FTP/wget Usage
Converting DOS files to UNIX
Restoring Lost Files
PBS Questions
Why Command Line Only
Acknowledgements
NCI Gadi
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HPC Visitation Stats Index
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