diff --git a/Dockerfile b/Dockerfile index 964c2b36..ef14757c 100644 --- a/Dockerfile +++ b/Dockerfile @@ -11,9 +11,6 @@ ENV DEBIAN_FRONTEND="noninteractive" \ LANG="en_US.UTF-8" \ LC_ALL="en_US.UTF-8" -# Pre-cache neurodebian key -COPY docker/files/neurodebian.gpg /usr/local/etc/neurodebian.gpg - # Prepare environment RUN apt-get update && \ apt-get install -y --no-install-recommends \ @@ -38,15 +35,6 @@ RUN apt-get update && \ locale-gen en_US.UTF-8 && \ apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* -# Installing Neurodebian packages (workbench, git-annex) -RUN curl -sSL "http://neuro.debian.net/lists/$( lsb_release -c | cut -f2 ).us-ca.full" >> /etc/apt/sources.list.d/neurodebian.sources.list && \ - apt-key add /usr/local/etc/neurodebian.gpg && \ - (apt-key adv --refresh-keys --keyserver hkp://ha.pool.sks-keyservers.net 0xA5D32F012649A5A9 || true) -RUN apt-get update && \ - apt-get install -y --no-install-recommends \ - connectome-workbench=1.5.0-1~nd20.04+1 && \ - apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* - # Installing ANTs 2.3.4 (NeuroDocker build) ENV ANTSPATH="/usr/lib/ants" \ PATH="/usr/lib/ants:$PATH" @@ -229,8 +217,18 @@ ENV PERL5LIB="$MINC_LIB_DIR/perl5/5.8.5" \ MNI_PERL5LIB="$MINC_LIB_DIR/perl5/5.8.5" \ PATH="$FREESURFER_HOME/bin:$FREESURFER_HOME/tktools:$MINC_BIN_DIR:$PATH" +# Workbench +WORKDIR /opt +RUN curl -sSLO https://www.humanconnectome.org/storage/app/media/workbench/workbench-linux64-v1.5.0.zip && \ + unzip workbench-linux64-v1.5.0.zip && \ + rm workbench-linux64-v1.5.0.zip && \ + rm -rf /opt/workbench/libs_linux64_software_opengl /opt/workbench/plugins_linux64 && \ + strip --remove-section=.note.ABI-tag /opt/workbench/libs_linux64/libQt5Core.so.5 +ENV PATH="/opt/workbench/bin_linux64:$PATH" \ + LD_LIBRARY_PATH="/opt/workbench/lib_linux64:$LD_LIBRARY_PATH" + # Installing SVGO and bids-validator -RUN npm install -g svgo@^2.3 bids-validator@1.9.0 \ +RUN npm install -g svgo@^2.3 bids-validator@1.9.9 \ && rm -rf ~/.npm ~/.empty /root/.npm # ICA AROMA diff --git a/docker/files/neurodebian.gpg b/docker/files/neurodebian.gpg deleted file mode 100644 index c7f92163..00000000 --- a/docker/files/neurodebian.gpg +++ /dev/null @@ -1,71 +0,0 @@ ------BEGIN PGP PUBLIC KEY BLOCK----- -Version: GnuPG v1 - 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