Dockerfile

FROM kbase/sdkbase2:python
MAINTAINER KBase Developer
# -----------------------------------------
# In this section, you can install any system dependencies required
# to run your App.  For instance, you could place an apt-get update or
# install line here, a git checkout to download code, or run any other
# installation scripts.

# RUN apt-get update

RUN pip install --upgrade pip \
    && pip install biopython --upgrade \
    && pip install --upgrade requests \
    && pip install Cython \
    && pip install wheel \
    && pip install pandas \
    && pip install mock==4.0.3\
    && pip install openpyxl \
    && pip install python-graphql-client

# update security libraries in the base image
RUN pip install cffi --upgrade \
    && pip install pyopenssl --upgrade \
    && pip install ndg-httpsclient --upgrade \
    && pip install pyasn1 --upgrade \
    && pip install requests --upgrade \
    && pip install 'requests[security]' --upgrade \
	&& pip install --upgrade pyopenssl ndg-httpsclient && \
    pip install --upgrade pyasn1 requests 'requests[security]' && \
    pip install coverage networkx cython && \
    pip install --upgrade pip setuptools wheel cffi

RUN pip install pandas
RUN mkdir deps && cd deps && \
	git clone --branch main https://github.com/cshenry/KBBaseModules.git

# -----------------------------------------

COPY ./ /kb/module
RUN mkdir -p /kb/module/work
RUN chmod -R a+rw /kb/module

WORKDIR /kb/module

RUN make all

ENTRYPOINT [ "./scripts/entrypoint.sh" ]

CMD [ ]