| 6 |
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* redistribute this software in source and binary code form, provided |
| 7 |
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* that the following conditions are met: |
| 8 |
|
* |
| 9 |
< |
* 1. Acknowledgement of the program authors must be made in any |
| 10 |
< |
* publication of scientific results based in part on use of the |
| 11 |
< |
* program. An acceptable form of acknowledgement is citation of |
| 12 |
< |
* the article in which the program was described (Matthew |
| 13 |
< |
* A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher |
| 14 |
< |
* J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented |
| 15 |
< |
* Parallel Simulation Engine for Molecular Dynamics," |
| 16 |
< |
* J. Comput. Chem. 26, pp. 252-271 (2005)) |
| 17 |
< |
* |
| 18 |
< |
* 2. Redistributions of source code must retain the above copyright |
| 9 |
> |
* 1. Redistributions of source code must retain the above copyright |
| 10 |
|
* notice, this list of conditions and the following disclaimer. |
| 11 |
|
* |
| 12 |
< |
* 3. Redistributions in binary form must reproduce the above copyright |
| 12 |
> |
* 2. Redistributions in binary form must reproduce the above copyright |
| 13 |
|
* notice, this list of conditions and the following disclaimer in the |
| 14 |
|
* documentation and/or other materials provided with the |
| 15 |
|
* distribution. |
| 28 |
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* arising out of the use of or inability to use software, even if the |
| 29 |
|
* University of Notre Dame has been advised of the possibility of |
| 30 |
|
* such damages. |
| 31 |
+ |
* |
| 32 |
+ |
* SUPPORT OPEN SCIENCE! If you use OpenMD or its source code in your |
| 33 |
+ |
* research, please cite the appropriate papers when you publish your |
| 34 |
+ |
* work. Good starting points are: |
| 35 |
+ |
* |
| 36 |
+ |
* [1] Meineke, et al., J. Comp. Chem. 26, 252-271 (2005). |
| 37 |
+ |
* [2] Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006). |
| 38 |
+ |
* [3] Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008). |
| 39 |
+ |
* [4] Kuang & Gezelter, J. Chem. Phys. 133, 164101 (2010). |
| 40 |
+ |
* [5] Vardeman, Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011). |
| 41 |
|
*/ |
| 42 |
|
|
| 43 |
|
#ifndef MDPARSER_SIMPLEPREPROCESSOR_HPP |
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#include <iostream> |
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|
#include <set> |
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|
#include <fstream> |
| 48 |
+ |
#include <sstream> |
| 49 |
|
#include "utils/StringTokenizer.hpp" |
| 50 |
|
#include "utils/Trim.hpp" |
| 51 |
+ |
#include "utils/OpenMDException.hpp" |
| 52 |
+ |
#include "utils/simError.h" |
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+ |
|
| 54 |
+ |
|
| 55 |
|
/** |
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* @class SimplePreprocessor |
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|
* @brief A simple preprocessor. |
| 58 |
< |
* @note only support #include #ifdef, #ifndef, #endif, #define and #undef, c-like multiple line |
| 59 |
< |
* comment is not support, macro substitude is not support. |
| 58 |
> |
* @note only supports #include #ifdef, #ifndef, #endif, #define and #undef, c-like multiple line |
| 59 |
> |
* comment is not supported, macro substitute is not supported. |
| 60 |
|
*/ |
| 61 |
< |
namespace oopse { |
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> |
namespace OpenMD { |
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class SimplePreprocessor { |
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public: |
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< |
bool preprocess(const std::string& filename, ostream& os) { |
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> |
bool preprocess(std::istream& myStream, const std::string& filename, int startingLine, ostream& os) { |
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std::set<std::string> defineSet; |
| 66 |
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std::stack<bool> ifStates; |
| 67 |
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|
| 68 |
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ifStates.push(true); |
| 69 |
< |
return doPreprocess(filename, os, defineSet, ifStates); |
| 69 |
> |
return doPreprocess(myStream, filename, startingLine, os, defineSet, ifStates); |
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} |
| 71 |
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|
| 72 |
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private: |
| 73 |
< |
bool doPreprocess(const std::string& filename, ostream& os, std::set<std::string>& defineSet, std::stack<bool>& ifStates) { |
| 74 |
< |
std::ifstream input(filename.c_str()); |
| 75 |
< |
|
| 76 |
< |
int lineNo =1; |
| 73 |
> |
bool doPreprocess(std::istream& myStream, const std::string& filename, int startingLine, ostream& os, std::set<std::string>& defineSet, std::stack<bool>& ifStates) { |
| 74 |
> |
//std::ifstream input(filename.c_str()); |
| 75 |
> |
//if (!input.is_open()) { |
| 76 |
> |
// std::stringstream ss; |
| 77 |
> |
// ss << "Can not open " << filename << " for preprocessing\n"; |
| 78 |
> |
// |
| 79 |
> |
// sprintf(painCave.errMsg, |
| 80 |
> |
// "Can not open (%s) for processing. \n" |
| 81 |
> |
// "\tPlease check md file name syntax.\n", filename.c_str()); |
| 82 |
> |
// |
| 83 |
> |
// painCave.isFatal = 1; |
| 84 |
> |
// simError(); |
| 85 |
> |
// |
| 86 |
> |
// throw OpenMDException(ss.str()); |
| 87 |
> |
//} |
| 88 |
> |
int lineNo = startingLine; |
| 89 |
|
os << "#line " << lineNo << " \"" << filename << "\"\n"; |
| 90 |
< |
while(input.getline(buffer, bufferSize)) { |
| 90 |
> |
const int bufferSize = 1024; |
| 91 |
> |
char buffer[bufferSize]; |
| 92 |
> |
while(myStream.getline(buffer, bufferSize)) { |
| 93 |
|
++lineNo; |
| 94 |
|
std::string line = trimLeftCopy(buffer); |
| 95 |
|
if (!line.empty() && line[0] == '#') { |
| 111 |
|
SimplePreprocessor subPreprocessor; |
| 112 |
|
std::string includeFilename = tokens[1]; |
| 113 |
|
includeFilename = includeFilename.substr(1, includeFilename.length() -2); |
| 114 |
< |
bool ret = subPreprocessor.doPreprocess(includeFilename, os, defineSet, ifStates); |
| 114 |
> |
std::ifstream includeStream(includeFilename.c_str()); |
| 115 |
> |
if (!includeStream.is_open()) { |
| 116 |
> |
std::stringstream ss; |
| 117 |
> |
ss << "Can not open " << includeFilename << " for preprocessing\n"; |
| 118 |
> |
throw OpenMDException(ss.str()); |
| 119 |
> |
} |
| 120 |
> |
|
| 121 |
> |
bool ret = subPreprocessor.doPreprocess(includeStream, includeFilename, 1, os, defineSet, ifStates); |
| 122 |
|
if (!ret) { |
| 123 |
|
std::cout << "Error in preprocessing\n"; |
| 124 |
|
return false; |
| 145 |
|
} |
| 146 |
|
os << std::endl; |
| 147 |
|
} else { |
| 148 |
< |
std::cout << tokens[0] << " is not support" << std::endl; |
| 148 |
> |
std::cout << tokens[0] << " is not supported (yet)." << std::endl; |
| 149 |
|
return false; |
| 150 |
|
} |
| 151 |
|
}else { |
| 162 |
|
} |
| 163 |
|
private: |
| 164 |
|
|
| 138 |
– |
const static int bufferSize = 1024; |
| 139 |
– |
char buffer[bufferSize]; |
| 165 |
|
}; |
| 166 |
|
|
| 167 |
|
} |
