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biosimulators / Biosimulators_utils

Utilities for building standardized command-line interfaces for biosimulation software packages
https://docs.biosimulators.org/Biosimulators_utils
MIT License
4 stars 6 forks source link

Latest version does not install on Ubuntu 20.04 due to missing `python-libcombine==0.2.9` #41

Closed matthiaskoenig closed 3 years ago

matthiaskoenig commented 3 years ago

I just tried to install the latest version on Ubuntu, but the python-libcombine==0.2.9 package does not exist for ubuntu.

(sbmlsim) mkoenig@trip3:~/git/sbmlsim$ pip install biosimulators-utils==0.1.76
Collecting biosimulators-utils==0.1.76
  Using cached biosimulators_utils-0.1.76-py2.py3-none-any.whl (125 kB)
Requirement already satisfied: requests in /home/mkoenig/envs/sbmlsim/lib/python3.8/site-packages (from biosimulators-utils==0.1.76) (2.25.1)
Requirement already satisfied: python-dateutil in /home/mkoenig/envs/sbmlsim/lib/python3.8/site-packages (from biosimulators-utils==0.1.76) (2.8.1)
Collecting termcolor
  Downloading termcolor-1.1.0.tar.gz (3.9 kB)
Collecting h5py
  Downloading h5py-3.2.1-cp38-cp38-manylinux1_x86_64.whl (4.5 MB)
     |████████████████████████████████| 4.5 MB 1.8 MB/s 
Requirement already satisfied: cement in /home/mkoenig/envs/sbmlsim/lib/python3.8/site-packages (from biosimulators-utils==0.1.76) (3.0.4)
Requirement already satisfied: mpmath in /home/mkoenig/envs/sbmlsim/lib/python3.8/site-packages (from biosimulators-utils==0.1.76) (1.2.1)
Requirement already satisfied: matplotlib in /home/mkoenig/envs/sbmlsim/lib/python3.8/site-packages (from biosimulators-utils==0.1.76) (3.3.4)
Requirement already satisfied: lxml in /home/mkoenig/envs/sbmlsim/lib/python3.8/site-packages (from biosimulators-utils==0.1.76) (4.6.3)
Requirement already satisfied: pandas in /home/mkoenig/envs/sbmlsim/lib/python3.8/site-packages (from biosimulators-utils==0.1.76) (1.2.2)
Collecting networkx
  Using cached networkx-2.5.1-py3-none-any.whl (1.6 MB)
Collecting evalidate
  Using cached evalidate-0.7.7.tar.gz (6.3 kB)
Requirement already satisfied: appdirs in /home/mkoenig/envs/sbmlsim/lib/python3.8/site-packages (from biosimulators-utils==0.1.76) (1.4.4)
ERROR: Could not find a version that satisfies the requirement python-libcombine>=0.2.9 (from biosimulators-utils)
ERROR: No matching distribution found for python-libcombine>=0.2.9

Best Matthias

jonrkarr commented 3 years ago

This works with Python 3.7 and 3.9 on Linux. Lucian has used in on Windows. There is no python-libcombine for Python 3.8 / Linux / x64 on PyPI.

This issue needs to be directed to @fbergmann who's in charge of distribution of libCOMBINE.

jonrkarr commented 3 years ago

Moved to sbmlteam/libCombine#37.