From 87d80daa063255335eeb00c7d39c463925ec4078 Mon Sep 17 00:00:00 2001
From: Jordi Rosell <jroselln@gmail.com>
Date: Thu, 29 Feb 2024 16:24:15 +0100
Subject: [PATCH] change paths to run R for conda

---
 conda.Dockerfile | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/conda.Dockerfile b/conda.Dockerfile
index 98d5f87..c3d05ac 100644
--- a/conda.Dockerfile
+++ b/conda.Dockerfile
@@ -8,10 +8,10 @@ RUN wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh \
     && bash Miniconda3-latest-Linux-x86_64.sh -b -p /root/miniconda \
     && rm -f Miniconda3-latest-Linux-x86_64.sh \
     && PATH="/root/miniconda/bin:$PATH" \
-    && conda install r-base r-dplyr r-purrr r-readr r-stringr r-ggplot2 r-janitor r-targets r-curl -y --quiet --channel=conda-forge \
-    && conda config --set auto_activate_base true
+    && conda init \
+    && conda install r-base r-dplyr r-purrr r-readr r-stringr r-ggplot2 r-janitor r-targets r-curl -y --quiet --channel=conda-forge
 
 WORKDIR /workspace
 COPY _targets.R functions.R /workspace/
 
-CMD bash -c "R -e 'sessionInfo(); list.files(); targets::tar_make();'"
+CMD PATH=/root/miniconda/bin:$PATH && R -e "sessionInfo(); list.files(); targets::tar_make();"