hsauro
commented
4 years ago They should all be there, we're working on a new version of the 3.7 release this month so this is a good time to hear about these issues. I will refer this problem to Andrew who might have more to say. the usual reason for these kinds of errors is that there isn't a 3.7 version for a particular package, we must ensure there is.
Herbert Sauro
On Mon, Dec 16, 2019 at 12:52 PM Yarden Katz notifications@github.com wrote:
Hello,
I'm having trouble installing tellurium on Mac OS X 10.13.6 with pip. The error I get from pip is nondeterministic - sometimes it complains about phrasedml being unavailable, other times about tesedbml or sbml2matlab. Example:
$ pip install tellurium Collecting tellurium Using cached https://files.pythonhosted.org/packages/5d/3a/77879c6cc93e9be58aef94ecfc7b0e4ae3ba7f9a4dd6b643f8846a6def78/tellurium-2.1.5-py2.py3-none-any.whl Requirement already satisfied: numpy>=1.11.0 in /Users/yarden/miniconda2/envs/py3/lib/python3.7/site-packages (from tellurium) (1.16.3) Collecting libroadrunner>=1.4.24 Using cached https://files.pythonhosted.org/packages/e1/c1/80e7512d3a713c9fdfeca3d2a6a50f94074f1f6413d3c7573dd0043a0bff/libroadrunner-1.5.4-cp37-cp37m-macosx_10_9_x86_64.whl Requirement already satisfied: scipy>=0.19.0 in /Users/yarden/miniconda2/envs/py3/lib/python3.7/site-packages (from tellurium) (1.2.1) Requirement already satisfied: ipython in /Users/yarden/miniconda2/envs/py3/lib/python3.7/site-packages (from tellurium) (7.6.1) ERROR: Could not find a version that satisfies the requirement phrasedml>=1.0.9 (from tellurium) (from versions: none) ERROR: No matching distribution found for phrasedml>=1.0.9 (from tellurium)
And also:
$ pip install tellurium Collecting tellurium Using cached https://files.pythonhosted.org/packages/5d/3a/77879c6cc93e9be58aef94ecfc7b0e4ae3ba7f9a4dd6b643f8846a6def78/tellurium-2.1.5-py2.py3-none-any.whl Collecting libroadrunner>=1.4.24 Using cached https://files.pythonhosted.org/packages/e1/c1/80e7512d3a713c9fdfeca3d2a6a50f94074f1f6413d3c7573dd0043a0bff/libroadrunner-1.5.4-cp37-cp37m-macosx_10_9_x86_64.whl Collecting jupyter-client>=5.1.0 Using cached https://files.pythonhosted.org/packages/13/81/fe0eee1bcf949851a120254b1f530ae1e01bdde2d3ab9710c6ff81525061/jupyter_client-5.3.4-py2.py3-none-any.whl Requirement already satisfied: requests in /Users/yarden/miniconda2/envs/py3/lib/python3.7/site-packages (from tellurium) (2.21.0) ERROR: Could not find a version that satisfies the requirement sbml2matlab>=0.9.1 (from tellurium) (from versions: none) ERROR: No matching distribution found for sbml2matlab>=0.9.1 (from tellurium)
I'm guessing because some of those packages don't have feels for my platform? The packages certainly appear on pypi. Perhaps this is related to this issue (#417 https://github.com/sys-bio/tellurium/issues/417)?
It would be great if in the future these SBML dependencies could be consolidated into one package, since package management tools in Python are very unreliable and having multiple dependencies for one basic feature (SBML parsing I am assuming?) is prone to not work.
Thanks very much.
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-- Herbert Sauro, Professor University of Washington, Bioengineering 206-685-2119, www.sys-bio.org hsauro@uw.edu Books: http://books.analogmachine.org/
andrewbriand
yarden
Hello,
I'm having trouble installing tellurium on Mac OS X 10.13.6 with pip. The error I get from pip is nondeterministic - sometimes it complains about phrasedml being unavailable, other times about tesedbml or sbml2matlab. Example:
And also:
I'm guessing because some of those packages don't have wheels for my platform? The packages certainly appear on pypi. Perhaps this is related to this issue (https://github.com/sys-bio/tellurium/issues/417)?
It would be great if in the future these SBML dependencies could be consolidated into one package, since package management tools in Python are very unreliable and having multiple dependencies for one basic feature (SBML parsing I am assuming?) is error prone.
Thanks very much.