Merge pull request #66 from ACCESS-NRI/test-micromamba-activate-fix

Micromamba activate error fix in module insert script

Author: jo-basevi

scripts/condaenv.sh

@@ -1,6 +1,7 @@
 #!/bin/bash
 # Prints the environment variables set by 'conda activate $1', for processing by the modules
 export PATH=/usr/bin:/bin
+export MAMBA_ROOT_PREFIX="${1}"
 eval "$( "${1}"/bin/micromamba shell hook -s bash )"
 micromamba activate "${2}"
 /bin/env

scripts/functions.sh

@@ -134,7 +134,7 @@ function construct_module_insert() {
     module_path="${9}"
 
     declare -a discard_paths=( "/bin" "/usr/bin" "/condabin" )
-    declare -a discard_vars=( "MODULEPATH" "_" "PWD" "SHLVL" )
+    declare -a discard_vars=( "MODULEPATH" "_" "PWD" "SHLVL" "MAMBA_ROOT_PREFIX")
 
     while read line; do
         key="${line%%=*}"

scripts/test.sh

@@ -15,6 +15,7 @@ source functions.sh
 export OVERLAY_BASE="${CONDA_TEMP_PATH}"/overlay
 export CONDA_OUTER_BASE="${OVERLAY_BASE}"/"${CONDA_BASE#/*/}"
 export CONDA_INSTALLATION_PATH=${CONDA_INSTALLATION_PATH:-${CONDA_BASE}/./${APPS_SUBDIR}/${CONDA_INSTALL_BASENAME}}
+export MAMBA_ROOT_PREFIX="${CONDA_INSTALLATION_PATH}"
 
 function inner() {