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大家好。我想做蛋白质-配体的Gromacs动力学模拟。我使用Gaussian准备配体的gesp静电势文件,然后将gesp文件移动到Amber14中的bin下使用antechamber和parmchk2,这几步都没问题。但是下一步我计划使用sleap -f leap.in来生成Amber参数文件与坐标文件时,报错。
大概的报错是:Error: while count_unit(), incontinuous molecule found!
atom 133 is outside the range [1, 128)
Error: while count_unit(), incontinuous molecule found!
atom 140 is outside the range [1, 128)
Error: while count_unit(), incontinuous molecule found!
atom 147 is outside the range [1, 128)
Error: while count_unit(), incontinuous molecule found!
atom 139 is outside the range [1, 128)
Error: while count_unit(), incontinuous molecule found!
atom 132 is outside the range [1, 128)
Error: while count_unit(), incontinuous molecule found!
atom 146 is outside the range [1, 128)
Error: in getvec, negative absid
可以理解为可能是因为我的配体中有147个原子,超过了这个128这个原子范围?查阅了公社没找到答案,我应该怎么处理才能够解决这个报错呢?
纯小白,谢谢各位老师的指导~
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