shell gymnastics ftl

berkeley-dsep-infra · Nov 14, 2023 · b18c624 · b18c624
1 parent c5d5dca
commit b18c624
Showing 1 changed file with 4 additions and 3 deletions.
diff --git a/deployments/biology/image/Dockerfile b/deployments/biology/image/Dockerfile
@@ -170,7 +170,8 @@ USER ${NB_USER}
 COPY environment.yml /tmp/
 COPY infra-requirements.txt /tmp/
 
-RUN time "mamba env update -p ${CONDA_DIR} -f /tmp/environment.yml" && mamba clean -afy
+RUN echo "/srv/conda/condabin/mamba env update -p ${CONDA_DIR} -f /tmp/environment.yml" | /usr/bin/time -f "User\t%U\nSys\t%S\nReal\t%E\nCPU\t%P" /usr/bin/bash
+RUN mamba clean -afy
 RUN jupyter contrib nbextensions install --sys-prefix --symlink && \
     jupyter nbextensions_configurator enable --sys-prefix
 
@@ -187,8 +188,8 @@ RUN r -e "install.packages('IRkernel', version='1.2')" && \
 
 # Install R packages, cleanup temp package download location
 COPY install.R /tmp/install.R
-RUN time "r /tmp/install.R"
-RUN time "rm -rf /tmp/downloaded_packages/ /tmp/*.rds"
+RUN echo "/usr/bin/r /tmp/install.R" | /usr/bin/time -f "User\t%U\nSys\t%S\nReal\t%E\nCPU\t%P" /usr/bin/bash
+RUN rm -rf /tmp/downloaded_packages/ /tmp/*.rds
 
 # install bio1b packages
 COPY bio1b-packages.bash /tmp/bio1b-packages.bash