[yt-dev] adventures in trying to install yt_dev

[Nathan Goldbaum]

On Friday, July 31, 2015, Nathan Goldbaum <nathan12343 at gmail.com> wrote:

>
>
> On Friday, July 31, 2015, Molly Peeples <molly at stsci.edu
> <javascript:_e(%7B%7D,'cvml','molly at stsci.edu');>> wrote:
>
>> Hi folks,
>>
>> I'm trying to install the dev branch of yt and I'm hitting some stumbling
>> blocks. (For those of you who I talked to about this in May, the short
>> version is that I've managed to recreate the same issues I had on my laptop
>> but now on my desktop.)
>>
>> The first thing I tried was the
>> http://bitbucket.org/yt_analysis/yt/raw/yt/doc/install_script.sh script,
>> which fails at installing HDF5 (http://pastebin.com/QSnKqHtW). The same
>> thing happens for the stable branch install script, and when I try this on
>> a different machine (laptop vs desktop, but similar setups and python
>> installations).
>>
>
> There is something wrong with your build environment. How did you set up
> your compilers? Using the Xcode command line tools or did you get your
> compilers from a third-party source?
>
>
>>
>> I can install the stable branch no problem just doing pip install yt. But
>> I'd still like the dev branch and / or source code. When I do hg clone
>> https://bitbucket.org/yt_analysis/yt and then python setup.py develop, I
>> get a:
>> [oak:~/yt] molly% python setup.py develop
>> Cython is a build-time requirement for the source tree of yt.
>> Please either install yt from a provided, release tarball,
>> or install Cython (version 0.22 or higher).
>> You may be able to accomplish this by typing:
>>      pip install -U Cython
>> Which, naturally, I did, and it says it's successfully installed, but I
>> get the same error when I then rerun the setup.py. (I think this is the
>> same line we went through when trying to get it working on my laptop which
>> is why we eventually used conda to get the stable version + source on my
>> laptop.) FWIW, I seem to not be able to uninstall cython, though it's
>> somewhat unclear on why:
>> [oak:~/yt] molly% pip uninstall cython
>> Not uninstalling Cython at
>> /usr/stsci/ssb/python/lib/python2.7/site-packages/Cython-0.21.1-py2.7-macosx-10.6-x86_64.egg,
>> outside environment /Users/molly/ssbvirt/ssb-OS X
>>
>>
>>
>>
>> Soo...suggestions? It looks like I can get the binary no problem but if I
>> want the source + dev branch, there are issues.
>>
>
>
>
>
> Does cython import successfully? If so, what's the output of
> cython.__file__? cython.__version?
>

Sorry, I men's clothing cython.__version__


>
> I think this message about not uninstalling cython is related to
> virtualenvs. Do you use virtualenvs?
>
> How did you set up your Python environment? You mentioned anaconda Python,
> what happens if you install cython using conda?
>
> Finally, OSX 10.6 is getting a bit long in the tooth (for example, conda
> no longer supports it), maybe that's part of the issue?
>
>
>
>
>
>
>>
>> --Molly
>>
>
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