Updated rfaa def file from branch

dockerfiles/rosettafold_all_atom.def

@@ -1,22 +1,21 @@
 Bootstrap: docker
-From: nvidia/cuda:12.6.0-cudnn-devel-ubuntu24.04
+From: nvidia/cuda:12.4.1-cudnn-runtime-ubuntu22.04
 
 %labels
     Author [email protected]
-    Version 0.2.3
+    Version 0.2.5
 
 %post
-    apt update && DEBIAN_FRONTEND=noninteractive apt install --no-install-recommends -y wget git
+    apt update && DEBIAN_FRONTEND=noninteractive apt install --no-install-recommends -y wget git build-essential
 
-    wget "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-Linux-x86_64.sh"
+    wget https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-Linux-x86_64.sh
     bash Miniforge3-Linux-x86_64.sh -b -p /opt/miniforge
     rm Miniforge3-Linux-x86_64.sh
     export PATH="/opt/miniforge/bin:$PATH"
-    mamba init
 
     git clone --single-branch --depth 1 https://github.com/Australian-Structural-Biology-Computing/RoseTTAFold-All-Atom.git /app/RoseTTAFold-All-Atom
     cd /app/RoseTTAFold-All-Atom
-    mamba env create -f environment.yaml
+    mamba env create --file=environment.yaml
 
     mamba run -n RFAA \
         'python rf2aa/SE3Transformer/setup.py install && \
@@ -29,10 +28,9 @@ From: nvidia/cuda:12.6.0-cudnn-devel-ubuntu24.04
     rm -r blast-2.2.26
     mv blast-2.2.26_bk/ blast-2.2.26
 
-    apt autoremove -y && apt remove --purge -y wget git && apt clean -y
+    apt autoremove -y && apt remove --purge -y wget git build-essential && apt clean -y
     rm -rf /var/lib/apt/lists/* /root/.cache *.tar.gz
     mamba clean --all --force-pkgs-dirs -y
-    chmod 755 input_prep/make_ss.sh
 
 %environment
     export PYTHONPATH="/app/RoseTTAFold-All-Atom:$PYTHONPATH"