diff --git a/shell/setup.sh b/shell/setup.sh
index c655cd1..43fd803 100644
--- a/shell/setup.sh
+++ b/shell/setup.sh
@@ -95,7 +95,7 @@ mamba install \
     -y \
     -c conda-forge \
     -c bioconda \
-    matplotlib biopython=1.84 edlib=1.2.3 cairosvg=2.3.0 pymsaviz ete3 beautifulsoup4 scipy scikit-learn >>${BASEDIR}/envs/logs/setup.log 2>&1
+    matplotlib biopython edlib cairosvg pymsaviz ete3 beautifulsoup4 scipy scikit-learn >>${BASEDIR}/envs/logs/setup.log 2>&1
 
 ${BASEDIR}/envs/python_dependencies/bin/pip3 install --no-cache-dir numpy pandas >>${BASEDIR}/envs/logs/setup.log 2>&1
 echo "Python dependencies installation done"
@@ -240,7 +240,7 @@ mamba install \
     bioconductor-ggtree \
     r-tidyverse \
     bioconductor-treeio \
-    r-phytools=0.6_60 \
+    r-phytools \
     r-ape \
     r-treedist \
     r-reshape2 \
@@ -251,4 +251,4 @@ mamba install \
 
 conda deactivate
 
-echo "R installation done"
\ No newline at end of file
+echo "R installation done"