Difference between revisions of "Running UCVM on Discovery"
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== CARC Getting Started Documentation == | == CARC Getting Started Documentation == | ||
*[https://carc.usc.edu/user-information/getting-started Getting Started on USC CARC] | *[https://carc.usc.edu/user-information/getting-started Getting Started on USC CARC] | ||
| + | *[https://carc.usc.edu/user-information/user-guides/high-performance-computing CARC Cluster Documentation] | ||
| + | *[https://carc.usc.edu/user-information/user-guides/high-performance-computing/running-jobs CARC Running Jobs] | ||
| + | *[https://software-carpentry.org/ Software Carpentry Training Materials] | ||
| − | == | + | == Setting Up UCVM Environment on Discovery == |
| − | + | On discovery, setup your ucvm environment. This is only needed the first time. Commands on Linux command line are preceded by %. Don't type the % | |
| − | |||
| − | |||
| − | |||
| − | |||
| − | + | Confirm your test directory exists, if not create it with mkdir command | |
| − | |||
| + | %cd /home1/<username>/test_ucvm | ||
| + | if not, create a test directory in your account | ||
| + | |||
| + | %mkdir /home1/<username/test_ucvm | ||
| + | |||
| + | For this training session, copy /home1/maechlin/test_ucvm to your /home1/<username>/test_ucvm | ||
| + | |||
| + | %cd /home1/<username>/test_ucvm | ||
| + | |||
| + | %cp /home1/maechlin/test_ucvm/* . | ||
| + | |||
| + | Confirm the files were copied | ||
| + | |||
| + | %ls | ||
| + | |||
| + | then return to your login directory | ||
| + | %cd ~ | ||
| + | |||
| + | Then add these aliases into .bashrc file | ||
| + | |||
| + | *alias 2test="cd /home1/<username>/test_ucvm" | ||
| + | *alias 2project="cd /project/scec_608/<username>/ucvm/ucvm_bin" | ||
| + | |||
| + | Save the updated .bashrc file and run the updated .bashrc file | ||
| + | |||
| + | %source ~/.bashrc | ||
| + | |||
| + | then,.. | ||
| + | |||
| + | %env |grep UCVM | ||
| + | |||
| + | should see setting of UCVM related environment variable like these.. | ||
| + | |||
| + | UCVM_SRC_PATH=... | ||
| + | |||
| + | UCVM_INSTALL_PATH=... | ||
| + | |||
| + | then, these command should return useful information.. | ||
| + | |||
| + | %which ucvm_query | ||
| + | |||
| + | %ucvm_query -H | ||
| + | |||
| + | This alias should move you to your ucvm installation directory | ||
| + | |||
| + | %2project | ||
| + | |||
| + | This alias should move you to your test_ucvm directory | ||
| + | |||
| + | %2test | ||
| + | |||
| + | == Technique to reduce auto logouts == | ||
| + | $ ssh -o "ServerAliveInterval 60" broadband | ||
| + | |||
| + | == Running ucvm_query on Discovery == | ||
| + | This is the contents of the README.md on discovery | ||
| + | <pre> | ||
| + | (base) [maechlin@discovery1 test_ucvm]$ cat README.md | ||
| + | == Linux Command Syntax == | ||
| + | Example commands on Linux system. Don't type the % sign | ||
| + | %ls | ||
| + | %pwd | ||
| + | |||
| + | == ucvm query Input format == | ||
| + | lon, lat, depth | ||
| + | -118.0, 34.0 0.0 | ||
| + | |||
| + | == Example query format == | ||
| + | move into your test_ucvm directory where you copied files from /home1/maechlin/test_ucvm | ||
| + | |||
| + | You can use alias setup earliers | ||
| + | %2test | ||
| + | |||
| + | confirm files referenced are in the current directory | ||
| + | %pwd | ||
| + | |||
| + | %ucvm_query -f /project/scec_608/<username>/ucvm_bin/conf/ucvm.conf -m cvmh < test_pts.in | ||
| + | |||
| + | == UCVM Basin Query == | ||
| + | *[https://github.com/SCECcode/UCVMC/wiki/Test-Cases-Basin-Query Basin Query Examples] | ||
| + | |||
| + | == Example basin_query Command on Discovery == | ||
| + | %basin_query -f /project/maechlin_162/ucvm_bin/conf/ucvm.conf -m cvmh -v 2500 < basin_pts.in > basin_pts_cvmh.out | ||
| + | then.. | ||
| + | %cat basin_pts_cvmh.out | ||
| + | which shows returns 3 depth values tuple that is, first-crossing, second crossing and the last crossing with the threshold. | ||
| + | |||
| + | == Transfer files between Discovery and laptop == | ||
| + | Assume file on laptop, copy it to directory on discovery | ||
| + | Issue this command from directory on laptop that contains the file ucvmPlotting.yml that you want to copy | ||
| + | %scp ucvmPlotting.yml maechlin@discovery.usc.edu:/home1/maechlin/test_ucvm/. | ||
| + | |||
| + | or, copy files from directory on discovery.usc.edu to laptop | ||
| + | in a directory on laptop, run this command | ||
| + | %scp maechlin@discovery.usc.edu:/home1/maechlin/test_ucvm/* | ||
| + | </pre> | ||
== Related Entries == | == Related Entries == | ||
*[[UCVM Install]] | *[[UCVM Install]] | ||
*[[UCVM]] | *[[UCVM]] | ||
Latest revision as of 02:53, 22 April 2021
Contents
CARC Getting Started Documentation
- Getting Started on USC CARC
- CARC Cluster Documentation
- CARC Running Jobs
- Software Carpentry Training Materials
Setting Up UCVM Environment on Discovery
On discovery, setup your ucvm environment. This is only needed the first time. Commands on Linux command line are preceded by %. Don't type the %
Confirm your test directory exists, if not create it with mkdir command
%cd /home1/<username>/test_ucvm
if not, create a test directory in your account
%mkdir /home1/<username/test_ucvm
For this training session, copy /home1/maechlin/test_ucvm to your /home1/<username>/test_ucvm
%cd /home1/<username>/test_ucvm
%cp /home1/maechlin/test_ucvm/* .
Confirm the files were copied
%ls
then return to your login directory %cd ~
Then add these aliases into .bashrc file
- alias 2test="cd /home1/<username>/test_ucvm"
- alias 2project="cd /project/scec_608/<username>/ucvm/ucvm_bin"
Save the updated .bashrc file and run the updated .bashrc file
%source ~/.bashrc
then,..
%env |grep UCVM
should see setting of UCVM related environment variable like these..
UCVM_SRC_PATH=...
UCVM_INSTALL_PATH=...
then, these command should return useful information..
%which ucvm_query
%ucvm_query -H
This alias should move you to your ucvm installation directory
%2project
This alias should move you to your test_ucvm directory
%2test
Technique to reduce auto logouts
$ ssh -o "ServerAliveInterval 60" broadband
Running ucvm_query on Discovery
This is the contents of the README.md on discovery
(base) [maechlin@discovery1 test_ucvm]$ cat README.md == Linux Command Syntax == Example commands on Linux system. Don't type the % sign %ls %pwd == ucvm query Input format == lon, lat, depth -118.0, 34.0 0.0 == Example query format == move into your test_ucvm directory where you copied files from /home1/maechlin/test_ucvm You can use alias setup earliers %2test confirm files referenced are in the current directory %pwd %ucvm_query -f /project/scec_608/<username>/ucvm_bin/conf/ucvm.conf -m cvmh < test_pts.in == UCVM Basin Query == *[https://github.com/SCECcode/UCVMC/wiki/Test-Cases-Basin-Query Basin Query Examples] == Example basin_query Command on Discovery == %basin_query -f /project/maechlin_162/ucvm_bin/conf/ucvm.conf -m cvmh -v 2500 < basin_pts.in > basin_pts_cvmh.out then.. %cat basin_pts_cvmh.out which shows returns 3 depth values tuple that is, first-crossing, second crossing and the last crossing with the threshold. == Transfer files between Discovery and laptop == Assume file on laptop, copy it to directory on discovery Issue this command from directory on laptop that contains the file ucvmPlotting.yml that you want to copy %scp ucvmPlotting.yml maechlin@discovery.usc.edu:/home1/maechlin/test_ucvm/. or, copy files from directory on discovery.usc.edu to laptop in a directory on laptop, run this command %scp maechlin@discovery.usc.edu:/home1/maechlin/test_ucvm/*
