removed `/scratch/xiaobo/4215/xcp-8058115.68/working/protonate/xcp-protonated-manual.ism' removed `/scratch/xiaobo/4215/xcp-8058115.68/working/protonate/xcp-protomers-expanded.ism' removed `/scratch/xiaobo/4215/xcp-8058115.68/working/protonate/xcp-protomers.ism' removed directory: `/scratch/xiaobo/4215/xcp-8058115.68/working/protonate' removed `/scratch/xiaobo/4215/xcp-8058115.68/working/input-smiles.ism'