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Due to the large computational requirements for LOFAR datasets,
processing bulk data on the grid is required. This manual will detail
the Dutch grid infrastructure, the submission process and the types of
users anticipated to use the LOFAR reduction tools.
Overview
========
SurfSARA is the Dutch locations of the CERN Computational Grid and its
facilities are available for general scientific computing. Because the
LOFAR telescope requires significant computational resources, the
reduction pipelines have been fitted to run on the Dutch Grid nodes with
minimal user interaction. The GRID\_LRT software package automates LOFAR data staging,
job description, Pre-Factor parallelization, job submission and management of intermediate data.
Requirements:
============
* User account to the lofar ui at grid.surfsara.nl
* Login to the PiCaS client at picas-lofar.grid.sara.nl
* Active Grid certificate for launching jobs/accessing storage
* Astron LTA credentials for staging LOFAR data
Installing:
============
The [up to date installation instructions are here.](https://grid-lrt.readthedocs.io/en/latest/installing.html)
Attribution
=============
[![DOI](https://zenodo.org/badge/53421495.svg)](https://zenodo.org/badge/latestdoi/53421495)
[![ArXiV](http://img.shields.io/badge/arXiv-1712.00312-orange.svg?style=flat)](https://arxiv.org/abs/1712.00312)
If you actively use GRID\_LRT, please cite this software as such below:
```
@misc{apmechev:2018,
author = {Alexandar P. Mechev}
title = {apmechev/GRID_LRT: v0.4.0},
month = aug,
year = 2018,
doi = {10.5281/zenodo.1341127},
url = {https://doi.org/10.5281/zenodo.1341127}
}
```
If you're using GRID processed data, also consider citing the paper below, outlining the procedure of running LOFAR data through a High Throughput Cluster:
```
@INPROCEEDINGS{mechev2017,
author = {{Mechev}, A. and {Oonk}, J.~B.~R. and {Danezi}, A. and {Shimwell}, T.~W. and
{Schrijvers}, C. and {Intema}, H. and {Plaat}, A. and {Rottgering}, H.~J.~A.},
title = "{An {A}utomated {S}calable {F}ramework for {D}istributing {R}adio {A}stronomy {P}rocessing {A}cross {C}lusters and {C}louds}",
booktitle = {Proceedings of the International Symposium on Grids and Clouds (ISGC) 2017, held 5-10 March, 2017 at Academia Sinica, Taipei, Taiwan (ISGC2017). Online at \url{https://pos.sissa.it/cgi-bin/reader/conf.cgi?confid=293}, id.2},
year = 2017,
archivePrefix = "arXiv",
eprint = {1712.00312},
primaryClass = "astro-ph.IM",
month = mar,
eid = {2},
doi = {10.22323/1.293.0002},
pages = {2},
adsurl = {\url{http://adsabs.harvard.edu/abs/2017isgc.confE...2M}},
adsnote = {Provided by the SAO/NASA Astrophysics Data System}
}
```
Tutorial Notebook
==============
Best way to get acquainted with the software is with the tutorial notebook available at GRID\_LRT/tutorials/LRT\_demo.ipynb
Setting up Jupyter on loui
----------------
```bash
$> ssh loui.grid.sara.nl
[10:42 me@loui ~] > mkdir ~/.jupyter
[10:42 me@loui ~] > export PATH=/cvmfs/softdrive.nl/anatolid/anaconda-2-2.4.0/bin:$PATH
[10:42 me@loui ~] > export LD_LIBRARY_PATH=/cvmfs/softdrive.nl/anatolid/anaconda-2-2.4.0/lib:$LD_LIBRARY_PATH
[10:42 me@loui ~] > jupyter notebook password
```
Running a Jupyter notebook on loui
---------------
Assuming you have ssh login to loui, you can run this notebook on your own machine by using ssh port forwarding :
```bash
$> ssh -L 8888:localhost:8888 loui.grid.sara.nl
[10:42 me@loui ~] > source /home/apmechev/.init_jupyter
```
With that shell running, you can open the browser on your local machine and go to localhost:8888, and browse to the tutorials folder.
Grid job submission and queuing
===============================
Data Staging
------------
In order to stage the data using the ASTRON LTA api, you need credentials to the [ASTRON LTA service](https://www.astron.nl/lofarwiki/doku.php?id=public:lta_howto#staging_data_prepare_for_download). These credentials need to be saved in a file on the lofar ui at ~/.stagingrc in the form
```
user=uname
password=pswd
```
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资源分类:Python库 所属语言:Python 资源全名:GRID_LRT-0.4.1.tar.gz 资源来源:官方 安装方法:https://lanzao.blog.csdn.net/article/details/101784059
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GRID_LRT-0.4.1.tar.gz (44个子文件)
GRID_LRT-0.4.1
PKG-INFO 1KB
setup.cfg 79B
GRID_LRT.egg-info
PKG-INFO 1KB
SOURCES.txt 1KB
top_level.txt 64B
dependency_links.txt 1B
setup.py 2KB
LICENSE.md 34KB
README.md 5KB
GRID_LRT
data
config
tutorial.cfg 2KB
bash_file.cfg 1KB
NDPPP_parset.cfg 1KB
steps
pref_targ2.cfg 2KB
pref_cal1.cfg 2KB
pref_cal2.cfg 2KB
pref_targ1.cfg 2KB
launchers
run_remote_sandbox.sh 2KB
Staging
stage_all.py 4KB
stager_access.py 6KB
__init__.py 0B
srmlist.py 8KB
stage_all_LTA.py 4KB
state_all.py 4KB
pythonpath.py 89B
__init__.py 1KB
get_picas_credentials.py 6KB
Application
submit.py 5KB
__init__.py 0B
sandbox.py 9KB
Token.py 23KB
__update_GRID_LRT_date.py 606B
couchdb
util3.py 458B
view.py 7KB
http.py 24KB
json.py 5KB
multipart.py 9KB
util.py 222B
client.py 55KB
__init__.py 664B
util2.py 473B
design.py 8KB
mapping.py 23KB
loader.py 4KB
grid_credentials.py 1KB
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