

set -ex



clustalw2 -help | grep OPTIONS
hmmalign -h | grep HMMER
hmmbuild -h | grep HMMER
muscle -version | grep -i MUSCLE
prank -help | grep prank
raxml -h | grep -i raxml
export PASTA_LOGGING_LEVEL=DEBUG; export PASTA_LOGGING_FORMAT=RICH; run_pasta.py -i $PREFIX/share/pasta/data/small.fasta
exit 0
