removed `/scratch/xiaobo/283567/xbv-8058115.48/working/protonate/xbv-protomers.ism' removed `/scratch/xiaobo/283567/xbv-8058115.48/working/protonate/xbv-protomers-expanded.ism' removed `/scratch/xiaobo/283567/xbv-8058115.48/working/protonate/xbv-protonated-manual.ism' removed directory: `/scratch/xiaobo/283567/xbv-8058115.48/working/protonate' removed `/scratch/xiaobo/283567/xbv-8058115.48/working/input-smiles.ism'