SKIPCI: --run="mkdir -p ${mountPointList}"

recipes/deepretinotopy/build.sh

@@ -18,6 +18,7 @@ neurodocker generate ${neurodocker_buildMode} \
    --base-image ghcr.io/neurodesk/freesurfer_7.3.2:20230216 \
    --pkg-manager yum \
    --install git \
+   --run="mkdir -p ${mountPointList}" \
    --miniconda version=py37_4.8.3 \
          conda_install='cudatoolkit=10.2' \
          pip_install='packaging torch==1.6.0 torchvision==0.7.0 pandas==1.1.5 seaborn==0.11.1 nibabel==3.2.1 torch-geometric==1.6.3 scikit-learn==0.22.2 scipy==1.5.4 matplotlib==3.3.4 osfclient==0.0.5' \

recipes/glmsingle/build.sh

@@ -12,6 +12,7 @@ neurodocker generate ${neurodocker_buildMode} \
     --base-image ubuntu:20.04 \
     --pkg-manager apt \
     --env DEBIAN_FRONTEND=noninteractive \
+    --run="mkdir -p ${mountPointList}" \
     --install python3.8 python3-pip libpython3.8-dev git \
     --run 'python3.8 -m pip install git+https://github.com/cvnlab/[email protected]' \
     --run 'python3.8 -m pip install ipykernel jupyterlab' \

recipes/hnncore/build.sh

@@ -14,6 +14,7 @@ neurodocker generate ${neurodocker_buildMode} \
     --base-image ubuntu:22.04 \
     --pkg-manager apt \
     --env DEBIAN_FRONTEND=noninteractive \
+    --run="mkdir -p ${mountPointList}" \
     --install python3.9 python3-pip libpython3-dev build-essential openmpi-bin openmpi-doc libopenmpi-dev \
     --run 'pip install numpy scipy matplotlib NEURON' \
     --run 'pip install ipywidgets voila scikit-learn joblib mpi4py psutil' \

recipes/mrsiproc/build.sh

@@ -38,6 +38,7 @@ source ../main_setup.sh
 neurodocker generate ${neurodocker_buildMode} \
    --base-image vnmd/fsl_${fslVersion} \
    --pkg-manager apt \
+   --run="mkdir -p ${mountPointList}" \
    --user=root `# otherwise some permission denied error occurs during docker build` \
    --dcm2niix method=source version=${dcm2niixVersion} \
    --minc version=${mincVersion} \

recipes/mrtrix3src/build.sh

@@ -16,6 +16,7 @@ source ../main_setup.sh
 neurodocker generate ${neurodocker_buildMode} \
    --base-image vnmd/fsl_6.0.5.1:20221016 \
    --pkg-manager apt \
+   --run="mkdir -p ${mountPointList}" \
    --ants version="2.3.4" \
    --workdir /opt \
    --install dbus-x11 less python3-distutils mesa-common-dev libglu1-mesa qt5-default libqt5svg5-dev wget libqt5opengl5-dev libqt5opengl5 libqt5gui5 libqt5core5a libtiff5-dev libtiff5 libfftw3-dev liblapack3 libeigen3-dev \

recipes/mrtrix3tissue/build.sh

@@ -19,6 +19,7 @@ fi
 neurodocker generate ${neurodocker_buildMode} \
    --base-image ghcr.io/neurodesk/caid/fsl_6.0.3:20200905 \
    --pkg-manager apt \
+   --run="mkdir -p ${mountPointList}" \
    --${toolName} version=master method="source" \
    --ants version="2.3.4" \
    --env DEPLOY_PATH=/opt/${toolName}-master/bin/ \

recipes/pydeface/build.sh

@@ -15,6 +15,7 @@ neurodocker generate ${neurodocker_buildMode} \
    --base-image vnmd/fsl_6.0.3:20200905 \
    --pkg-manager apt \
    --user root \
+   --run="mkdir -p ${mountPointList}" \
    --env DEBIAN_FRONTEND=noninteractive \
    --install ca-certificates \
    --miniconda version=latest \

recipes/qsmxtbase/build.sh

@@ -26,6 +26,7 @@ yes | neurodocker generate ${neurodocker_buildMode} \
    --env DEBIAN_FRONTEND=noninteractive \
    --run="printf '#!/bin/bash\nls -la' > /usr/bin/ll" \
    --run="chmod +x /usr/bin/ll" \
+   --run="mkdir -p ${mountPointList}" \
    --install bzip2 ca-certificates wget unzip gcc cmake g++ dbus-x11 libgtk2.0-0 git graphviz wget \
       zip libgl1 libglib2.0 libglu1-mesa libsm6 libxrender1 libxt6 libxcomposite1 libfreetype6 \
       libasound2 libfontconfig1 libxkbcommon0 libxcursor1 libxi6 libxrandr2 libxtst6 qt5-default \