INNER CODE UNIT · Python

envcheck2

franciscozorrilla/metaGEM · workflow/metaGEM.sh:123

envcheck2=$(conda info --envs|grep -w metawrap|wc -l)
if [[ "$envcheck2" -ge 1 ]]; then
    echo "detected!"
else
    echo "not detected, please run the env_setup.sh script!"
fi

echo -ne "Searching for prokka-roary conda environment ... "
envcheck3=$(conda info --envs|grep -w prokkaroary|wc -l)
if [[ "$envcheck3" -ge 1 ]]; then
    echo -e "detected!\n"
else
    echo -e "not detected, please run the env_setup.sh script!\n"
fi

# run createFolders rule to create folders in case any of them are missing
echo -e "Checking folders in workspace $pwd ... "
nFolders=$(ls -d */|wc -l)

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