Revert Dockerfile

Dockerfile

 FROM nvidia/cuda:10.2-cudnn8-runtime-ubuntu18.04
 
+RUN apt-key del 7fa2af80
+RUN apt-key adv --fetch-keys https://developer.download.nvidia.com/compute/cuda/repos/ubuntu1804/x86_64/7fa2af80.pub
 RUN apt-key adv --fetch-keys https://developer.download.nvidia.com/compute/cuda/repos/ubuntu1804/x86_64/3bf863cc.pub
 
-RUN apt-get update \
-    && apt-get install -y wget cuda-minimal-build-10-2 git zip \
-    && apt-get clean
+RUN apt-get update && apt-get install -y wget cuda-minimal-build-10-2 git
+RUN wget -P /tmp \
+    "https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh" \
+    && bash /tmp/Miniconda3-latest-Linux-x86_64.sh -b -p /opt/conda \
+    && rm /tmp/Miniconda3-latest-Linux-x86_64.sh
+ENV PATH /opt/conda/bin:$PATH
 
-RUN wget -q -P /tmp \
-  https://github.com/conda-forge/miniforge/releases/latest/download/Mambaforge-Linux-x86_64.sh \
-  && bash /tmp/Mambaforge-Linux-x86_64.sh -b -p /opt/mamba \
-  && rm /tmp/Mambaforge-Linux-x86_64.sh
+COPY environment.yml /opt/openfold/environment.yml
 
-ENV PATH="/opt/mamba/bin:$PATH"
-
-RUN wget -O "awscliv2.zip" "https://awscli.amazonaws.com/awscli-exe-linux-x86_64.zip" \
-    && unzip awscliv2.zip \
-    && ./aws/install \
-    && rm awscliv2.zip
-
-RUN git clone --branch main --single-branch https://github.com/aqlaboratory/openfold.git /opt/openfold \
-    && cd /opt/openfold \
-    && git reset ec5619fc970e28e7b81ce452f5e08e7dd6a7cb31 \
-    && rm -rf /opt/openfold/imgs /opt/openfold/notebooks /opt/openfold/tests
-
-RUN mamba env update -n base --file /opt/openfold/environment.yml \
-    && mamba clean --all
+# installing into the base environment since the docker container wont do anything other than run openfold
+RUN conda env update -n base --file /opt/openfold/environment.yml && conda clean --all
 
+COPY openfold /opt/openfold/openfold
+COPY scripts /opt/openfold/scripts
+COPY run_pretrained_openfold.py /opt/openfold/run_pretrained_openfold.py
+COPY train_openfold.py /opt/openfold/train_openfold.py
+COPY setup.py /opt/openfold/setup.py
+COPY lib/openmm.patch /opt/openfold/lib/openmm.patch
 RUN wget -q -P /opt/openfold/openfold/resources \
     https://git.scicore.unibas.ch/schwede/openstructure/-/raw/7102c63615b64735c4941278d92b554ec94415f8/modules/mol/alg/src/stereo_chemical_props.txt
-
-RUN patch -p0 -d /opt/mamba/lib/python3.7/site-packages/ < /opt/openfold/lib/openmm.patch
-
-COPY run_batch_job.sh /opt/openfold
-
+RUN patch -p0 -d /opt/conda/lib/python3.7/site-packages/ < /opt/openfold/lib/openmm.patch
 WORKDIR /opt/openfold
-
 RUN python3 setup.py install
\ No newline at end of file