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Hi Lachlan,
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<div class="">Thank you for sharing your environment. Everyone has their own set of rules and i appreciate everyone’s input.</div>
<div class="">It seems as if the NFS share is a great place to start.</div>
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<div class="">Best,</div>
<div class="">Eric</div>
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<div style="orphans: auto; widows: auto;" class=""><b style="text-align: -webkit-auto;" class="">Eric F. Alemany</b></div>
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<div style="orphans: auto; widows: auto;" class=""><i style="text-align: -webkit-auto;" class="">System Administrator for Research</i></div>
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<div style="orphans: auto; widows: auto;" class=""><span style="text-align: -webkit-auto; background-color: rgba(255, 255, 255, 0);" class="">Division of Radiation & Cancer Biology</span></div>
<div style="orphans: auto; widows: auto;" class=""><span style="text-align: -webkit-auto; background-color: rgba(255, 255, 255, 0);" class="">Department of Radiation Oncology</span></div>
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<div style="orphans: auto; widows: auto;" class=""><span style="text-align: -webkit-auto; background-color: rgba(255, 255, 255, 0);" class="">Stanford University School of Medicine</span></div>
<div style="orphans: auto; widows: auto;" class=""><span style="text-align: -webkit-auto; background-color: rgba(255, 255, 255, 0);" class="">Stanford, California 94305</span></div>
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<div class="">On May 10, 2018, at 4:23 PM, Lachlan Musicman <<a href="mailto:datakid@gmail.com" class="">datakid@gmail.com</a>> wrote:</div>
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<div class="gmail_quote">On 11 May 2018 at 01:35, Eric F. Alemany <span dir="ltr" class="">
<<a href="mailto:ealemany@stanford.edu" target="_blank" class="">ealemany@stanford.edu</a>></span> wrote:<br class="">
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<div class="">Hi All,</div>
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<div id="m_6404797890502024991AppleMailSignature" class="">I know this might sounds as a very basic question: where in the cluster should I install Python and R?</div>
<div id="m_6404797890502024991AppleMailSignature" class="">Headnode?</div>
<div id="m_6404797890502024991AppleMailSignature" class="">Execute nodes ?</div>
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<div id="m_6404797890502024991AppleMailSignature" class="">And is there a particular directory (path) I need to install Python and R.<br class="">
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Background:</div>
<div id="m_6404797890502024991AppleMailSignature" class="">SLURM on Ubuntu 18.04</div>
<div id="m_6404797890502024991AppleMailSignature" class="">1 headnode </div>
<div id="m_6404797890502024991AppleMailSignature" class="">4 execute nodes</div>
<div id="m_6404797890502024991AppleMailSignature" class="">NFS shared drive among all nodes.</div>
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<div class="gmail_extra">Eric,<br class="">
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<div class="gmail_extra">To echo the others: we have a /binaries nfs share that utilises the standard Environment Modules software so that researchers can manipulate their $PATH on the fly with module load/module unload. That share is mounted on all the nodes.<br class="">
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<div class="gmail_extra">For Python, I use virtualenv's but instead of activating, the path is changed by the Module file. Personally, I find conda doesn't work very well in a shared environment. It's fine on a personal level/<br class="">
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<div class="gmail_extra">For R, we have resorted to only installing the main point release because we have >700 libraries installed within R and I don't want to reinstall them every time. We do also have packrat installed so researchers can install their own
libraries locally as well. <br class="">
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<div class="gmail_extra">Cheers<br class="">
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<div class="gmail_extra">L.<br class="">
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