removed `/scratch/xiaobo/132203/xbs-8058115.45/working/protonate/xbs-protomers-expanded.ism' removed `/scratch/xiaobo/132203/xbs-8058115.45/working/protonate/xbs-protomers.ism' removed `/scratch/xiaobo/132203/xbs-8058115.45/working/protonate/xbs-protonated-manual.ism' removed directory: `/scratch/xiaobo/132203/xbs-8058115.45/working/protonate' removed `/scratch/xiaobo/132203/xbs-8058115.45/working/input-smiles.ism'