removed `/scratch/xiaobo/17128/xan-8058088.14/working/protonate/xan-protomers-expanded.ism' removed `/scratch/xiaobo/17128/xan-8058088.14/working/protonate/xan-protonated-manual.ism' removed `/scratch/xiaobo/17128/xan-8058088.14/working/protonate/xan-protomers.ism' removed directory: `/scratch/xiaobo/17128/xan-8058088.14/working/protonate' removed `/scratch/xiaobo/17128/xan-8058088.14/working/input-smiles.ism'