The generated bakeSetEnv.sh doesn't check if path variables are empty before appending.  This causes a bash error when sourcing the file, and the variables aren't set.

For example, on my Mac, LD_LIBRARY_PATH doesn't normally exist.  After sourcing bakeSetEvn.sh, it still doesn't exist...

Suggested fix could look like:

if [ -z "${LD_LIBRARY_PATH:-}" ]; then
    export LD_LIBRARY_PATH=...
else
    export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:..."
fi

A little more cryptic, this also works:

export LD_LIBRARY_PATH="${LD_LIBRARY_PATH:+${LD_LIBRARY_PATH}:}..."

The fix should be made to each variable in the script.

The actual export statements are generated by ModuleEnvironment.py, in the add_onPath function around line 414.

[Note:  encapsulating the rhs of shell variable assignment in double quotes is preferred, in case it contains ' ' spaces...]