[gmx-users] Error with inflategro

Meir Touitou meirtt at hotmail.co.uk
Sun Aug 4 12:49:02 CEST 2019 

Hi,

I am attempting to use inflategro to inflate my system file (which includes lipid and protein). I have
used the command line:

perl inflategro.pl MmpL3_Pope_system_fix.gro 4 POPE 14 system_inflated.gro 5 area.dat


I get an area.dat and system_inflated.gro file. The system_inflated.gro file does yield the desired inflated lipid orientation.The following error is made when running the perl script:


Writing scaled bilayer & centered protein...
Argument "N" isn't numeric in printf at inflategro.pl line 502.
Argument "N1" isn't numeric in printf at inflategro.pl line 502.
Argument "N2" isn't numeric in printf at inflategro.pl line 502.
Argument "N3" isn't numeric in printf at inflategro.pl line 502.
Argument "A" isn't numeric in printf at inflategro.pl line 502.
Argument "B" isn't numeric in printf at inflategro.pl line 502.
Argument "A" isn't numeric in printf at inflategro.pl line 502.
Argument "B" isn't numeric in printf at inflategro.pl line 502.
Argument "P" isn't numeric in printf at inflategro.pl line 502.
Argument "C1" isn't numeric in printf at inflategro.pl line 502.
Argument "HA" isn't numeric in printf at inflategro.pl line 502.
Argument "HB" isn't numeric in printf at inflategro.pl line 502.
Argument "C2" isn't numeric in printf at inflategro.pl line 502.
Argument "HS" isn't numeric in printf at inflategro.pl line 502.
Argument "2R" isn't numeric in printf at inflategro.pl line 502.
Argument "2S" isn't numeric in printf at inflategro.pl line 502.
Argument "C3" isn't numeric in printf at inflategro.pl line 502.
Argument "HX" isn't numeric in printf at inflategro.pl line 502.
Argument "HY" isn't numeric in printf at inflategro.pl line 502.
Argument "2X" isn't numeric in printf at inflategro.pl line 502.
Argument "2Y" isn't numeric in printf at inflategro.pl line 502.
Argument "3R" isn't numeric in printf at inflategro.pl line 502.
Argument "3S" isn't numeric in printf at inflategro.pl line 502.
Argument "4R" isn't numeric in printf at inflategro.pl line 502.
Argument "4S" isn't numeric in printf at inflategro.pl line 502.
Argument "5R" isn't numeric in printf at inflategro.pl line 502.
Argument "5S" isn't numeric in printf at inflategro.pl line 502.
Argument "6R" isn't numeric in printf at inflategro.pl line 502.
Argument "6S" isn't numeric in printf at inflategro.pl line 502.
Argument "7R" isn't numeric in printf at inflategro.pl line 502.
Argument "7S" isn't numeric in printf at inflategro.pl line 502.
Argument "8R" isn't numeric in printf at inflategro.pl line 502.
Argument "8S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "T" isn't numeric in printf at inflategro.pl line 502.
Argument "3X" isn't numeric in printf at inflategro.pl line 502.
Argument "3Y" isn't numeric in printf at inflategro.pl line 502.
Argument "4X" isn't numeric in printf at inflategro.pl line 502.
Argument "4Y" isn't numeric in printf at inflategro.pl line 502.
Argument "5X" isn't numeric in printf at inflategro.pl line 502.
Argument "5Y" isn't numeric in printf at inflategro.pl line 502.
Argument "6X" isn't numeric in printf at inflategro.pl line 502.
Argument "6Y" isn't numeric in printf at inflategro.pl line 502.
Argument "7X" isn't numeric in printf at inflategro.pl line 502.
Argument "7Y" isn't numeric in printf at inflategro.pl line 502.
Argument "8X" isn't numeric in printf at inflategro.pl line 502.
Argument "8Y" isn't numeric in printf at inflategro.pl line 502.
Argument "9X" isn't numeric in printf at inflategro.pl line 502.
Argument "9Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "Z" isn't numeric in printf at inflategro.pl line 502.
Argument "N" isn't numeric in printf at inflategro.pl line 502.
Argument "N1" isn't numeric in printf at inflategro.pl line 502.
Argument "N2" isn't numeric in printf at inflategro.pl line 502.
Argument "N3" isn't numeric in printf at inflategro.pl line 502.
Argument "A" isn't numeric in printf at inflategro.pl line 502.
Argument "B" isn't numeric in printf at inflategro.pl line 502.
Argument "A" isn't numeric in printf at inflategro.pl line 502.
Argument "B" isn't numeric in printf at inflategro.pl line 502.
Argument "P" isn't numeric in printf at inflategro.pl line 502.
Argument "C1" isn't numeric in printf at inflategro.pl line 502.
Argument "HA" isn't numeric in printf at inflategro.pl line 502.
Argument "HB" isn't numeric in printf at inflategro.pl line 502.
Argument "C2" isn't numeric in printf at inflategro.pl line 502.
Argument "HS" isn't numeric in printf at inflategro.pl line 502.
Argument "2R" isn't numeric in printf at inflategro.pl line 502.
Argument "2S" isn't numeric in printf at inflategro.pl line 502.
Argument "C3" isn't numeric in printf at inflategro.pl line 502.
Argument "HX" isn't numeric in printf at inflategro.pl line 502.
Argument "HY" isn't numeric in printf at inflategro.pl line 502.
Argument "2X" isn't numeric in printf at inflategro.pl line 502.
Argument "2Y" isn't numeric in printf at inflategro.pl line 502.
Argument "3R" isn't numeric in printf at inflategro.pl line 502.
Argument "3S" isn't numeric in printf at inflategro.pl line 502.
Argument "4R" isn't numeric in printf at inflategro.pl line 502.
Argument "4S" isn't numeric in printf at inflategro.pl line 502.
Argument "5R" isn't numeric in printf at inflategro.pl line 502.
Argument "5S" isn't numeric in printf at inflategro.pl line 502.
Argument "6R" isn't numeric in printf at inflategro.pl line 502.
Argument "6S" isn't numeric in printf at inflategro.pl line 502.
Argument "7R" isn't numeric in printf at inflategro.pl line 502.
Argument "7S" isn't numeric in printf at inflategro.pl line 502.
Argument "8R" isn't numeric in printf at inflategro.pl line 502.
Argument "8S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "T" isn't numeric in printf at inflategro.pl line 502.
Argument "3X" isn't numeric in printf at inflategro.pl line 502.
Argument "3Y" isn't numeric in printf at inflategro.pl line 502.
Argument "4X" isn't numeric in printf at inflategro.pl line 502.
Argument "4Y" isn't numeric in printf at inflategro.pl line 502.
Argument "5X" isn't numeric in printf at inflategro.pl line 502.
Argument "5Y" isn't numeric in printf at inflategro.pl line 502.
Argument "6X" isn't numeric in printf at inflategro.pl line 502.
Argument "6Y" isn't numeric in printf at inflategro.pl line 502.
Argument "7X" isn't numeric in printf at inflategro.pl line 502.
Argument "7Y" isn't numeric in printf at inflategro.pl line 502.
Argument "8X" isn't numeric in printf at inflategro.pl line 502.
Argument "8Y" isn't numeric in printf at inflategro.pl line 502.
Argument "9X" isn't numeric in printf at inflategro.pl line 502.
Argument "9Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "X" isn't numeric in printf at inflategro.pl line 502.
Argument "Y" isn't numeric in printf at inflategro.pl line 502.
Argument "Z" isn't numeric in printf at inflategro.pl line 502.
Argument "N" isn't numeric in printf at inflategro.pl line 502.
Argument "N1" isn't numeric in printf at inflategro.pl line 502.
Argument "N2" isn't numeric in printf at inflategro.pl line 502.
Argument "N3" isn't numeric in printf at inflategro.pl line 502.
Argument "A" isn't numeric in printf at inflategro.pl line 502.
Argument "B" isn't numeric in printf at inflategro.pl line 502.
Argument "A" isn't numeric in printf at inflategro.pl line 502.
Argument "B" isn't numeric in printf at inflategro.pl line 502.
Argument "P" isn't numeric in printf at inflategro.pl line 502.
Argument "C1" isn't numeric in printf at inflategro.pl line 502.
Argument "HA" isn't numeric in printf at inflategro.pl line 502.
Argument "HB" isn't numeric in printf at inflategro.pl line 502.
Argument "C2" isn't numeric in printf at inflategro.pl line 502.
Argument "HS" isn't numeric in printf at inflategro.pl line 502.
Argument "2R" isn't numeric in printf at inflategro.pl line 502.
Argument "2S" isn't numeric in printf at inflategro.pl line 502.
Argument "C3" isn't numeric in printf at inflategro.pl line 502.
Argument "HX" isn't numeric in printf at inflategro.pl line 502.
Argument "HY" isn't numeric in printf at inflategro.pl line 502.
Argument "2X" isn't numeric in printf at inflategro.pl line 502.
Argument "2Y" isn't numeric in printf at inflategro.pl line 502.
Argument "3R" isn't numeric in printf at inflategro.pl line 502.
Argument "3S" isn't numeric in printf at inflategro.pl line 502.
Argument "4R" isn't numeric in printf at inflategro.pl line 502.
Argument "4S" isn't numeric in printf at inflategro.pl line 502.
Argument "5R" isn't numeric in printf at inflategro.pl line 502.
Argument "5S" isn't numeric in printf at inflategro.pl line 502.
Argument "6R" isn't numeric in printf at inflategro.pl line 502.
Argument "6S" isn't numeric in printf at inflategro.pl line 502.
Argument "7R" isn't numeric in printf at inflategro.pl line 502.
Argument "7S" isn't numeric in printf at inflategro.pl line 502.
Argument "8R" isn't numeric in printf at inflategro.pl line 502.
Argument "8S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "R" isn't numeric in printf at inflategro.pl line 502.
Argument "S" isn't numeric in printf at inflategro.pl line 502.
Argument "T" isn't numeric in printf at inflategro.pl line 502.
Argument "3X" isn't numeric in printf at inflategro.pl line 502.
Argument "3Y" isn't numeric in printf at inflategro.pl line 502.
Argument "4X" isn't numeric in printf at inflategro.pl line 502.
Argument "4Y" isn't numeric in printf at inflategro.pl line 502.
Argument "5X" isn't numeric in printf at inflategro.pl line 502.
Argument "5Y" isn't numeric in printf at inflategro.pl line 502.


Can you advise me on this?

Many thanks,

Meir

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