Hi lennart,
I really thank you for taking your time to reply me. I follow your suggestion, but my problem still exit. And then I delete the charmm file, and next re-extract (tar -xvf charmm.tar.gz) the "charmm.tar.gz" file, and then, as before, I modify the ../charmm/source/ltm/dimens_ltm.src (NMCATM = 99999). Then, I went back to the ../charmm file and performed command "./install.com gnu M". But my outfile still wrong as below:
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sbound set xref 0.0 yref 0.0 zref 0.0 assign 1 -
CHARMM> sele resname TIP3 .and. type OH2 .or. resname SOD end
SELRPN> 22841 atoms have been selected out of 83980

***** LEVEL -1 WARNING FROM MKALIS *****
***** maximum number of table atoms exceeded
******************************************
BOMLEV ( -2) IS NOT REACHED. WRNLEV IS 5


***** LEVEL -1 WARNING FROM MKALIS *****
***** maximum number of table atoms exceeded
******************************************
BOMLEV ( -2) IS NOT REACHED. WRNLEV IS 5
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