Dockerfile

# MIT License
#
# Copyright (c) 2020 Daniel Malzl, Tobias Neumann
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in all
# copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
# SOFTWARE.

FROM continuumio/miniconda3:4.7.12

MAINTAINER Tobias Neumann <tobias.neumann.at@gmail.com>

COPY environment.yml /tmp/environment.yml

RUN apt-get update \
    && apt-get install -y procps \
    && apt-get clean -y \
    && rm -rf /var/lib/apt/lists/* \
    && conda config --add channels defaults \
    && conda config --add channels bioconda \
    && conda config --add channels conda-forge \
    && conda env create --name inisite-nf -f /tmp/environment.yml \
    && rm -rf /opt/conda/pkgs/*

ENV PATH /opt/conda/envs/inisite-nf/bin:$PATH