RMG-Py/environment.yml at main · kirkbadger18/RMG-Py · GitHub

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# environment.yml - conda environment specification file for RMG-Py
#
# Usage: conda env create --file environment.yml
#
# This file contains all of the software packages needed to run RMG-Py.
# There is a mixture of the following
# - packlages would could be installed at OS level, but we install here
#   for better version control
# - python tools
# - external software tools specific to chemistry
# - other software we maintain which RMG depends on
# + some other categories (see below)
#
# ======================================================================
# !! WHEN UPDATING THIS FILE REMEMBER TO ALSO UPDATE .conda/meta.yaml !!
# ======================================================================
name: rmg_env
channels:
  - conda-forge
  - rmg
  - nodefaults
dependencies:
# System-level dependencies - we could install these at the OS level
# but by installing them in the conda environment we get better control
  - conda-forge::cairo
  - conda-forge::cairocffi
  - conda-forge::ffmpeg >= 7
  - conda-forge::xlrd
  - conda-forge::xlwt
  - conda-forge::h5py >=3.10
  - conda-forge::graphviz >=12
  - conda-forge::markupsafe
  - conda-forge::psutil
  - conda-forge::ncurses
  - conda-forge::suitesparse
  # ThermoCentralDatabaseInterface fails if pyopenssl is too old.
  - conda-forge::pyopenssl >24

# external software tools for chemistry
  - conda-forge::coolprop
  - conda-forge::cantera >=3.0
  - conda-forge::mopac
  # see https://github.com/ReactionMechanismGenerator/RMG-Py/pull/2639#issuecomment-2050292972
  - conda-forge::cclib >=1.6.3,<1.9
  - conda-forge::openbabel >= 3
  - conda-forge::rdkit >=2024
  - rmg::pysidt-rmg >=1.2

# Python tools
  - conda-forge::python =3.11  # pinned to a single version to keep solver fast; CI rewrites this to the matrix version (see CI.yml)
  - conda-forge::setuptools >=70,<80
  - conda-forge::coverage
  - conda-forge::cython >=3.0,<3.1
  - conda-forge::scikit-learn >=1.3
  - conda-forge::scipy >=1.13
  - conda-forge::numpy >=1.24,<2
  - conda-forge::pydot
  - conda-forge::jinja2
  - conda-forge::jupyter
  - conda-forge::pip
  - conda-forge::pymongo
  - conda-forge::pyparsing
  - conda-forge::pyyaml
  - conda-forge::networkx
  - conda-forge::pytest
  - conda-forge::pytest-cov
  - conda-forge::pytest-check
  - conda-forge::pyutilib
  - conda-forge::matplotlib >=3.5
  - conda-forge::mpmath
  - conda-forge::pandas >=2
  - conda-forge::gprof2dot
  - conda-forge::numdifftools
  # bug in quantities, see:
  # https://github.com/ReactionMechanismGenerator/RMG-Py/pull/2694#issuecomment-2489286263
  - conda-forge::quantities !=0.16.0,!=0.16.1

# packages we maintain
  - rmg::pydas >=1.0.3
  - rmg::pydqed >=1.0.3
  - rmg::symmetry

# configure packages to use OpenBLAS instead of Intel MKL
  - blas=*=openblas

# optional dependencies for using ReactionMechanismSimulator
# remove the leading '#' to install the required dependencies
# or simply run `install_rms.sh` which will handle this for you
  # - conda-forge::pyjuliacall<0.9.35

# additional packages that are required, but not specified here (and why)
  # pydqed, pydas, mopac, and likely others require a fortran compiler (specifically gfortran)
  # in the environment. Normally we would add this to the environment file with
  # - libgfortran-ng >= 10
  # but this exact package is only maintained for Linux, meaning that if we were to add
  # it here the environment creation would fail on Mac. The way it ends up working behind
  # the scenes is that conda will find a different package for Mac that provides gfortran,
  # but because we cannot specify per-platform requirements in this file we simply leave
  # it out.