gmxdensmap- 计算二维的平面或轴径向密度映射图 gmxdensorder- 计算表面涨落 gmxh2order- 计算水分子的取向 gmxhydorder- 计算给定原子周围的四面体参数 gmxorder- 计算碳末端每个原子的序参量 gmxpotential- 计算盒子内的静电势 3.4 协方差分析 gmxanaeig- 分析简正模式 gmxcovar- 计算并对角化协方差矩阵 gmxmake_...
Z输出文件一模一样没有任何区别呢?(考察X方向加静电场时,水分子偶极矩夹角),命令是gmx h2order ...
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tried to change the order of the atoms etc, but the error always comes on the same spot. If I change the nr. 4 to 5, then I get the same error, but with 5. If I change a number from before, like 2 to 1, it gives the ...
order[i].d2 = norm2(dx); } }else{/* Set distance to first atom */for(i =0; (i < nwat); i++) { sa = ind_sol[na*i]; pbc_dx(&pbc, x[ind_ref[0]], xsol[i], dx); order[i].i = sa; order[i].d2 = norm2(dx); ...
Hello everyone, I'm trying to perform a MD of a mixture of solvent (in my case glycerol+water). In order to do that i first obtained the parameters of glycerol on CHARMM on here -> par_all36_carb.prm. To use this parameters on gromacs i used the ...