No MPI compilation.

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=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=
Please cite T. Matthey, T. Cickovski, S. S. Hampton, A. Ko, Q. Ma, M. Nyerges, T. Raeder,
T. Slabach, and J. A. Izaguirre. ProtoMol: An object-oriented framework for prototyping
novel algorithms for molecular dynamics. ACM Trans. Math. Softw., 30(3):237­265, 2004.
=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=
ProtoMol Version 2.0.4

jesus Mar 19 2007 12:18:54
Linux localhost.localdomain 2.6.9-42.0.8.ELsmp #1 SMP Tue Jan 23 13:01:26 EST 2007 i686 i686 i386 GNU/Linux
icpc -Wall -wd810,383,981,279,444,1572 -O3 -ip -DNDEBUG
32-bit
Intel(R) C++ Compiler for 32-bit applications, Version 8.1    Build 20060606Z Package ID: l_cc_pc_8.1.038
Copyright (C) 1985-2006 Intel Corporation.  All rights reserved.
Version 8.1 
=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=
Information:

protomol@cse.nd.edu
http://protomol.sourceforge.net
=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=
Ouputs:
allEnergiesFile
    allEnergiesFile               <string,non-empty>
    allEnergiesFileOutputFreq     <int,positive>	 # output frequency
    allEnergiesFileCacheFreq      <int=1,positive>	 # frequency to flush the cache to file
    allEnergiesFileCacheSize      <int=0,non-negative>	 # minimal size of cached data to flush to file
    allEnergiesFileCloseTime      <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
    molecularTemperature          <boolean=false>
    shadowEnergy                  <boolean=false>
BSDLFile
    BSDLFile                      <string,non-empty>
    BSDLFileOutputFreq            <int,positive>
    BSDLFileMinimalImage          <boolean=true>	 # whether the coordinates should be transformed to minimal image or not
    BSDLIncludeView               <boolean=true>	 # whether the camera view should be include in each frame and adapted or not
    BSDLShowWater                 <boolean=true>	 # whether to suppress water molecules or not
DCDFile
    DCDFile                       <string,non-empty>
    DCDFileOutputFreq             <int,positive>
    DCDFileMinimalImage           <boolean=false>	 # whether the coordinates should be transformed to minimal image or not
DCDVELFile
    DCDVELFile                    <string,non-empty>
    DCDVELFileOutputFreq          <int,positive>
    DCDVELFileMinimalImage        <boolean=false>	 # whether the coordinates should be transformed to minimal image or not (NA for Vel)
diffusionFile
    diffusionFile                 <string,non-empty>
    diffusionFileOutputFreq       <int,positive>	 # output frequency
    diffusionFileCacheFreq        <int=1,positive>	 # frequency to flush the cache to file
    diffusionFileCacheSize        <int=0,non-negative>	 # minimal size of cached data to flush to file
    diffusionFileCloseTime        <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
dihedralsFile
    dihedralsFile                 <string,non-empty>
    dihedralsFileOutputFreq       <int,positive>	 # output frequency
    dihedralsFileCacheFreq        <int=1,positive>	 # frequency to flush the cache to file
    dihedralsFileCacheSize        <int=0,non-negative>	 # minimal size of cached data to flush to file
    dihedralsFileCloseTime        <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
    dihedralsFileMinimalImage     <boolean=false>	 # whether the coordinates should be transformed to minimal image or not
    dihedralsIndex                <int,non-negative>
    dihedralsSet                  <boolean=false>
    dihedralsSetfile              <string,non-empty>
finPDBPosFile
    finPDBPosFile                 <string,non-empty>
    finPDBPosFileMinimalImage     <boolean=false>	 # whether the coordinates should be transformed to minimal image or not
finXYZBinPosFile
    finXYZBinPosFile              <string,non-empty>
    finXYZBinPosFileMinimalImage  <boolean=false>	 # whether the coordinates should be transformed to minimal image or not
finXYZBinVelFile
    finXYZBinVelFile              <string,non-empty>
finXYZPosFile
    finXYZPosFile                 <string,non-empty>
    finXYZPosFileMinimalImage     <boolean=false>	 # whether the coordinates should be transformed to minimal image or not
finXYZVelFile
    finXYZVelFile                 <string,non-empty>
momentumFile
    momentumFile                  <string,non-empty>
    momentumFileOutputFreq        <int,positive>	 # output frequency
    momentumFileCacheFreq         <int=1,positive>	 # frequency to flush the cache to file
    momentumFileCacheSize         <int=0,non-negative>	 # minimal size of cached data to flush to file
    momentumFileCloseTime         <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
paulFile
    paulFile                      <string,non-empty>
    paulFileOutputFreq            <int,positive>	 # output frequency
    paulFileCacheFreq             <int=1,positive>	 # frequency to flush the cache to file
    paulFileCacheSize             <int=0,non-negative>	 # minimal size of cached data to flush to file
    paulFileCloseTime             <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
    paulOmega                     <real=0,non-negative>
    paulOmegaZ                    <real=0,non-negative>
    paulLowFile                   <string=>
    doPaulLowFile                 <boolean>
    ScreenPaulTrap                <boolean=false>
PDBPosFile
    PDBPosFile                    <string,non-empty>
    PDBPosFileOutputFreq          <int=1,positive>
    PDBPosFileMinimalImage        <boolean=false>	 # whether the coordinates should be transformed to minimal image or not
REMExchangeRatesFile
    REMExchangeRatesFile          <string,non-empty>
    REMExchangeRatesFileOutputFreq<int,positive>	 # output frequency
    REMExchangeRatesFileCacheFreq <int=1,positive>	 # frequency to flush the cache to file
    REMExchangeRatesFileCacheSize <int=0,non-negative>	 # minimal size of cached data to flush to file
    REMExchangeRatesFileCloseTime <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
REMHistoryFile
    REMHistoryFile                <string,non-empty>
    REMHistoryFileOutputFreq      <int,positive>	 # output frequency
    REMHistoryFileCacheFreq       <int=1,positive>	 # frequency to flush the cache to file
    REMHistoryFileCacheSize       <int=0,non-negative>	 # minimal size of cached data to flush to file
    REMHistoryFileCloseTime       <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
Screen
    Screen                        <boolean=true>
    ScreenOutputFreq              <int,positive>
stateFile
    stateFile                     <string,non-empty>
    stateFileOutputFreq           <int,positive>	 # output frequency
    stateFileCacheFreq            <int=1,positive>	 # frequency to flush the cache to file
    stateFileCacheSize            <int=0,non-negative>	 # minimal size of cached data to flush to file
    stateFileCloseTime            <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
    statesInputFile               <string,non-empty>
TempFile
    TempFile                      <string,non-empty>
    TempFileOutputFreq            <int,positive>	 # output frequency
    TempFileCacheFreq             <int=1,positive>	 # frequency to flush the cache to file
    TempFileCacheSize             <int=0,non-negative>	 # minimal size of cached data to flush to file
    TempFileCloseTime             <real=1,non-negative>	 # minimal time interval between two writes to close the file temporarily
    TemperatureSeparateWater      <boolean=true>
XYZBinPosFile
    XYZBinPosFile                 <string,non-empty>
    XYZBinPosFileOutputFreq       <int,positive>
    XYZBinPosFileMinimalImage     <boolean=false>	 # whether the coordinates should be transformed to minimal image or not
XYZBinVelFile
    XYZBinVelFile                 <string,non-empty>
    XYZBinVelFileOutputFreq       <int,positive>
XYZForceFile
    XYZForceFile                  <string,non-empty>
    XYZForceFileOutputFreq        <int,positive>
XYZPosFile
    XYZPosFile                    <string,non-empty>
    XYZPosFileOutputFreq          <int,positive>
    XYZPosFileMinimalImage        <boolean=false>	 # whether the coordinates should be transformed to minimal image or not
XYZVelFile
    XYZVelFile                    <string,non-empty>
    XYZVelFileOutputFreq          <int,positive>
Alias:
=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=+=