<div>Hi all!!!</div>
<div>I am using the programme grompp (double precision) and the programme genion to make "neutral" .top and .tpr files. But after change the quantity of H2O molecules and add the line with the necessary Na+ ions I am still having WARNING and the charge is STILL negative. What happend? What am I doing wrong? Should I do something else?
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<div>Here are the WARNING banners:</div>
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<p>Generated 243951 of the 243951 1-4 parameter combinations<br>Excluding 3 bonded neighbours for Protein_A 1<br>Excluding 2 bonded neighbours for SOL 41338<br>WARNING 1 [file "Ab-1.top", line 5860]:<br> Too few parameters on line (source file
toppush.c, line 1096)<br>Excluding 2 bonded neighbours for 3 Na+<br>WARNING 2 [file "Ab-1.top", line 5860]:<br> System has non-zero total charge: -3.000000e+00</p>
<p>processing coordinates...<br>WARNING 3 [file "Ab-1.top", line 5860]:<br> Bad box in file Ab-1_n.gro<br>Generated a cubic box 10.898 x 10.838 x 10.922<br>double-checking input for internal consistency...
<br>renumbering atomtypes...<br></p>
<p>Thank you very much.</p>
<p>Marcelo</p></div>