How to Upload Files to Hpc Directory From a Website

To get your data (files) onto the supercomputer or back to your local machine, there are commonly different means. Sometimes there are computers specifically reserved for this purpose chosen copy nodes.

If available to yous, it is recommened to utilise these copy nodes to motion information to or from the supercomputer, since this volition result in a meliorate connexion and disturb other users less. Additionally the tools mentioned below might only piece of work on these nodes. If there are no defended copy nodes, y'all can ordinarily use the Login Nodes for this purpose.

Secure Copy (scp)

This is generally the easiest way to transfer single files. It builds on ssh and usually works on every machine, that you lot tin connect to via ssh. It tin be used as follows:

$ scp your_username@remotehost.edu:foobar.txt /some/local/directory        

this copies the file foobar.txt from the remote machine to your local directory. Turning this around also works:

$ scp foobar.txt your_username@remotehost.edu:/some/remote/directory        

and copies the local file to the remote machine. Here you can observe some more examples of scp and its usage.

Beware - scp or sftp might exist confused past STDOUT/STDERR generated during your normal login session!

Most frequent case: you want to have a sure set of modules loaded automatically at each login, and you have edited your $Dwelling/.bashrc to incorporate "module load ..." commands. This in turn creates output on STDOUT, similar "loading module ..." appears on your terminal while logging in. This is all very fine for interactive logins, but scp or sftp or graphical clients like Filezilla might fail for no apparent reason.

Solution: put such commands only later a check whether a trounce is in fact an interactive one, like:

          ########################  # do Non generate output unless we're an interactive trounce:  ########################  [ -z "$PS1" ] && render        

Only if the prompt string #ane (PS1) is gear up, the shell is interactive - otherwise, go along execution of the calling script (return).

rsync

Quite a bit more sophisticated, rsync is some other and more efficient file transfer mechanism. Information technology is mainly used to copy multiple files or even whole directory trees across different locations. Its bones usage is similar this

$ rsync [options] [source] [destination]        

or in a concrete example

$ rsync -azvh -e ssh /my/source/directory/ user@123.123.123.123:/my/destination/directory        

where rsync is used on meridian of ssh to copy the source directory to the remote server (via network). The options -azvh specify a compressed transfer with human being readable output, preserving time stamps, and are thus a good starting indicate. Another common option is -r which recursively synchronizes all subdirectories (part of -a).

Due to the fact that rsync compares the contents of the source and destination directory beforehand, transferring only the necessary differences (delta), information technology is quite efficient in mirroring multiple files or whole directory trees.
Farther documentation can be found in the basic Rsync Guide ^[one], or in even more depth in the Ubuntu Users Guide ^[2].

File Transfer Protocol (ftp)

The file transfer protocol (ftp) is a network protocol used to substitution files with a server. Unremarkably a seperate program like Filezilla or WinSCP (for Windows) is employed to employ ftp. If bachelor, one can simply connect to the copy nodes using this method. Utilizing a seperate program to exchange files with an intuitive graphical user interface can be a lot more than flexible and easy to use for beginners.

Utilizing Filezilla e.1000. looks similar this:

You paste the respecting Copy Nodes into the 'server' field, authenticate with your username and countersign and take the server on the right and your local machine on the left.

further Material

Basic Examples of SCP usage

Filezilla a free FTP client

WinSCP a gratis Windows FTP client

References

1. ↑ Basic Rsync guide
2. ↑ Ubuntu Users Guide to Rsync (pretty indepth)

foremanfackons.blogspot.com

Source: https://hpc-wiki.info/hpc/File_Transfer

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