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<TITLE>Help: How to reset "normalizeconfiguration()" in the example "MolecularDynamics/solvation.py"</TITLE>
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<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">Hello:</FONT></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">I am using the windows version of MMTk.</FONT></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">When I try</FONT> <FONT SIZE=2 FACE="宋体">the example MolecularDynamics/solvation.py</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">,</FONT><FONT SIZE=2 FACE="宋体"> I</FONT> <FONT SIZE=2 FACE="宋体">find that the line</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">:</FONT></SPAN><SPAN LANG="en-us"></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">**********************************</FONT></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT COLOR="#FF0000" SIZE=2 FACE="宋体">protein.normalizeConfiguration()</FONT></SPAN><SPAN LANG="en-us"></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">**********************************</FONT></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">d</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">oes</FONT> <FONT SIZE=2 FACE="宋体">not</FONT> <FONT SIZE=2 FACE="宋体">work soundly</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">:</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体"></FONT></SPAN><SPAN LANG="en-us"> <FONT SIZE=2 FACE="宋体">the</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体"> program</FONT></SPAN><SPAN LANG="en-us"> <FONT SIZE=2 FACE="宋体">can not</FONT></SPAN><SPAN LANG="en-us"> <FONT SIZE=2 FACE="宋体">run pro</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">per</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">ly</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体"></FONT></SPAN><SPAN LANG="en-us"> <FONT SIZE=2 FACE="宋体">w</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">ith</FONT> <FONT SIZE=2 FACE="宋体">it</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">,</FONT><FONT SIZE=2 FACE="宋体"></FONT> <FONT SIZE=2 FACE="宋体">while wit</FONT><FONT SIZE=2 FACE="宋体">hout it the</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体"> protein</FONT></SPAN><SPAN LANG="en-us"> <FONT SIZE=2 FACE="宋体">molecule</FONT></SPAN><SPAN LANG="en-us"> <FONT SIZE=2 FACE="宋体">will lies out of the water box</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体"></FONT> <FONT SIZE=2 FACE="宋体">center</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">.</FONT></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">H</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">ope</FONT> <FONT SIZE=2 FACE="宋体">someone can tell me how to set the function</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体"></FONT></SPAN><SPAN LANG="en-us"> <FONT SIZE=2 FACE="宋体">"</FONT></SPAN><SPAN LANG="en-us"><FONT COLOR="#FF0000" SIZE=2 FACE="宋体"></FONT></SPAN><SPAN LANG="en-us"> <FONT COLOR="#FF0000" SIZE=2 FACE="宋体">protein.normalizeConfiguration()</FONT></SPAN><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">"</FONT><FONT SIZE=2 FACE="宋体"></FONT></SPAN><SPAN LANG="en-us"> <FONT SIZE=2 FACE="宋体">rightly.</FONT></SPAN><SPAN LANG="en-us"></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">Any clues as to how to rectify this problem would be greatly appreciated.</FONT></SPAN></P>
<P ALIGN=LEFT><SPAN LANG="en-us"><FONT SIZE=2 FACE="宋体">Bin Gu</FONT></SPAN><SPAN LANG="en-us"></SPAN></P>
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