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Hi Nathan, Matt, Brian,<br>
<br>
I see. Yes, I'll want to use the parallelism. Cool! I didn't realize
the all-in-one script could pull from different repos. Thanks for
your help!<br>
<br>
Best,<br>
Jonah<br>
<br>
<div class="moz-cite-prefix">On 16-04-20 05:39 PM, Nathan Goldbaum
wrote:<br>
</div>
<blockquote
cite="mid:CAJXewO=4kiGfkx1TYDVoNFawq9dnUboTKFmFT97GkFFU+-Ae2Q@mail.gmail.com"
type="cite">You'll probably also want to follow Brian's
instructions for mpi4py if you're going t be using yt's
parallelism. The install script doesn't set that up since we can't
assume people have an MPI installation.<span></span><br>
<br>
On Wednesday, April 20, 2016, Matthew Turk <<a
moz-do-not-send="true" href="mailto:matthewturk@gmail.com"><a class="moz-txt-link-abbreviated" href="mailto:matthewturk@gmail.com">matthewturk@gmail.com</a></a>>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">Hi Jonah,<br>
<br>
Just make sure you use the from-source option, and you can pull<br>
whatever changesets you like into your source directory in your<br>
installation.<br>
<br>
On Wed, Apr 20, 2016 at 4:34 PM, Jonah Miller<br>
<<a moz-do-not-send="true" href="javascript:;"
onclick="_e(event, 'cvml', 'jonah.maxwell.miller@gmail.com')">jonah.maxwell.miller@gmail.com</a>>
wrote:<br>
> Hi Brian, Matt,<br>
><br>
> Thanks a lot! These instructions are exactly what I was
hoping for!<br>
> Regarding the all-in-one install script, that won't work if
I want to<br>
> install a fork of yt though, will it? This is to test my
carpet frontend on<br>
> some production data.<br>
><br>
> Best,<br>
> Jonah<br>
><br>
><br>
> On 16-04-20 05:24 PM, Matthew Turk wrote:<br>
>><br>
>> I think it's a lot easier now that the new install
script has been merged<br>
>> in:<br>
>><br>
>><br>
>> <a moz-do-not-send="true"
href="http://lists.spacepope.org/pipermail/yt-dev-spacepope.org/2016-April/006350.html"
target="_blank">http://lists.spacepope.org/pipermail/yt-dev-spacepope.org/2016-April/006350.html</a><br>
>><br>
>> -Matt<br>
>><br>
>> On Wed, Apr 20, 2016 at 4:22 PM, Brian O'Shea <<a
moz-do-not-send="true" href="javascript:;" onclick="_e(event,
'cvml', 'bwoshea@gmail.com')"><a class="moz-txt-link-abbreviated" href="mailto:bwoshea@gmail.com">bwoshea@gmail.com</a></a>> wrote:<br>
>>><br>
>>> Yes indeed. It's a gigantic pain. Here are
instructions. Good luck!<br>
>>><br>
>>> -----------------<br>
>>><br>
>>> 0) Get the GNU software environment set up:
“module swap PrgEnv-cray<br>
>>> PrgEnv-gnu” . This will be necessary later.<br>
>>><br>
>>> 1) Install the Anaconda python distribution<br>
>>> (<a moz-do-not-send="true"
href="https://store.continuum.io/cshop/anaconda/"
target="_blank">https://store.continuum.io/cshop/anaconda/</a>)
for 64-bit Linux systems.<br>
>>> Refresh your path so the Anaconda python’s in your
path.<br>
>>><br>
>>> 2) Download mpi4py from <a moz-do-not-send="true"
href="https://bitbucket.org/mpi4py/mpi4py/" target="_blank">https://bitbucket.org/mpi4py/mpi4py/</a>,
or grab it<br>
>>> from my home directory on Blue Waters
(~bwoshea/mpi4py-1.3.1.tar.gz).<br>
>>><br>
>>> 3) Once you’ve unpacked it in your home directory,
edit the file<br>
>>> mpi.cfg,<br>
>>> which is in the top-level mpi4py directory, and add
the following chunk<br>
>>> of<br>
>>> text at the end of the file:<br>
>>><br>
>>> [cray]<br>
>>> mpicc = cc<br>
>>> mpicxx = CC<br>
>>> extra_link_args = -shared<br>
>>><br>
>>> then, in the top-level mpi4py directory, type:<br>
>>><br>
>>> python setup.py build --mpi=cray<br>
>>> python setp.py install<br>
>>><br>
>>> At this point, you should have a functional version
of mpi4py that uses<br>
>>> the<br>
>>> cray MPI libraries.<br>
>>><br>
>>> 4) You can then install yt via source in your home
directory:<br>
>>><br>
>>> hg clone <a moz-do-not-send="true"
href="https://bitbucket.org/yt_analysis/yt" target="_blank">https://bitbucket.org/yt_analysis/yt</a><br>
>>> hg update yt<br>
>>> python setup.py develop<br>
>>><br>
>>> And it should work, though you’re going to need to
modify your<br>
>>> LD_LIBRARY_PATH to point to your anaconda /lib
directory. You can verify<br>
>>> that yt and mpi4py are playing nicely together by
running the scripts<br>
>>> hw_MPI.py and yt_parallel_test.py, both of which
are sitting in my home<br>
>>> directory. (Note that you can do this via batch
script or through the<br>
>>> interactive queue, both with aprun - you can’t just
do it from the login<br>
>>> node.)<br>
>>><br>
>>> 5) and, optionally, if you want to install Rockstar
using yt from source,<br>
>>> you do the following:<br>
>>><br>
>>> hg clone <a moz-do-not-send="true"
href="http://bitbucket.org/MatthewTurk/rockstar"
target="_blank">http://bitbucket.org/MatthewTurk/rockstar</a><br>
>>> cd rockstar<br>
>>> hg pull<br>
>>> hg up -C tip<br>
>>> make lib<br>
>>><br>
>>> and *then* make a file called rockstar.cfg that has
a single line of<br>
>>> text:<br>
>>> the path of the rockstar source code directory. At
that point, you need<br>
>>> to<br>
>>> run “python setup.py develop” again, and yt will
recognize that rockstar<br>
>>> has<br>
>>> been installed and play nicely with it. You will
likely also have to<br>
>>> modify<br>
>>> your LD_LIBRARY_PATH to point at your rockstar
directory so it can find<br>
>>> the<br>
>>> rockstar library (librockstar.so).<br>
>>><br>
>>><br>
>>> On Wed, Apr 20, 2016 at 5:04 PM, Jonah Miller<br>
>>> <<a moz-do-not-send="true" href="javascript:;"
onclick="_e(event, 'cvml', 'jonah.maxwell.miller@gmail.com')">jonah.maxwell.miller@gmail.com</a>>
wrote:<br>
>>>><br>
>>>> Hi yt users,<br>
>>>><br>
>>>> Does anybody have experience installing the
development version of yt on<br>
>>>> blue waters (as opposed to relying on the
module pre-provided)? If so,<br>
>>>> do<br>
>>>> you have any tips or gotchas? I will be
attempting an installation in<br>
>>>> the<br>
>>>> next few days and I'm sort of hoping it's a
solved problem.<br>
>>>><br>
>>>> Best,<br>
>>>> Jonah Miller<br>
>>>> _______________________________________________<br>
>>>> yt-users mailing list<br>
>>>> <a moz-do-not-send="true" href="javascript:;"
onclick="_e(event, 'cvml', 'yt-users@lists.spacepope.org')">yt-users@lists.spacepope.org</a><br>
>>>> <a moz-do-not-send="true"
href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org"
target="_blank">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br>
>>><br>
>>><br>
>>><br>
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target="_blank">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br>
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