Args.h

/*
  Args.{h,c} : INGOR global arguments
  Copyright (C) 2018-2021, Yoshinori Tamada <tamada  A T  ytlab.jp>
  All rights reserved.
 
  See LICENSE.txt for details of the licensing agreement.
*/
#ifndef __INGOR_ARGS_H
#define __INGOR_ARGS_H
 
#include "filter/Filter.h"
#include "score/Score.h"
 
#include "math/ytGraph.h"
#include "math/ytRNG.h"
 
#define INGOR_DEFAULT_INFILE_TYPE "gdf"
#define INGOR_DEFAULT_OUTPUT_TYPE "nodelist"
 
#ifdef INGOR_PUB
#define INGOR_DEFAULT_SCORE_NAME "bnrc"
#define INGOR_DEFAULT_ALGO_NAME  "hc"
#else
#define INGOR_DEFAULT_SCORE_NAME "bndc"
#define INGOR_DEFAULT_ALGO_NAME  "cghc"
#endif /* INGOR_PUB */
#define INGOR_DEFAULT_CANDIDATES 10
#define INGOR_DEFAULT_CANDIDATES_CONT 0
#define INGOR_DEFAULT_CANDIDATES_DISC 0
#define INGOR_DEFAULT_MAX_PARENTS 10
#define INGOR_DEFAULT_MAX_PARENTS_CONT 10
#define INGOR_DEFAULT_MAX_PARENTS_DISC 10
#define INGOR_DEFAULT_TOTAL_MEMORY (1000)  /* in mega byte */
#define INGOR_DEFAULT_CACHE_RATIO (0.3)
 
typedef struct {
  ytStrArray * infiles;     /* Input file names */
  ytStrArray * infileTypes; /* Input file types */
  ytKeyValues * infileArgs; /* Input file args */
 
  int output;                /* if 0, do not output in the main program */
  char * outfile;            /* Output file name */
  char * outfileType;        /* Output file type */
  ytKeyValues * outfileArgs; /* Output file args */
 
  ytData * data; /* original data */
 
  int candidates;
  int candidatesCont;
  int candidatesDisc;
 
  int maxParents;
  int maxParentsCont;
  int maxParentsDisc;
 
  char * scoreName;
  ytKeyValues * scoreArgs;
  Score * sc;
 
  char * algoName;
 
  ytGraph * init;
  char * initFile;
  char * initType;
  ytKeyValues * initArgs;
 
  ytGraph * constrain;
  ytStrArray * constrainFiles;
  ytStrArray * constrainTypes;
  ytArray * constrainArgs;
  char * constrainWrite;
  char * constrainWriteType;
  ytKeyValues * constrainWriteArgs;
  
  ytGraph * fixed;
  char * fixedFile;
  char * fixedType;
  ytKeyValues * fixedArgs;
 
  int bootstrap;
  char * bootstrapMode;
  int blocks;
  char * bootstrapFile;
  ytData * bootstrapData;
  int offset;
 
  int dynamic;
 
  int selfLoop;
 
  int dbn; /* 1 for time expanded (multi-time steps) DBN */
  int sdh; /* 1 for time expanded dynamic-static hybrid BN */
 
  int iteration;
 
  int singleFile;
 
  ytKeyValues * algoArgs;
 
  FilterArgs * filters;
 
  double score;
 
  ytRNG * rng;
 
  int seed;
 
  int verbose;
  int logMode; /* 0: automatic */
  char * logFile;
 
  size_t totalMemory;
  double cacheRatio;
 
  int threads;
 
  int fixRange; /* 1 if value range is fixed for bootstrapping. */
  char * readRange; /* non NUll if value range is given by a file. */
 
  char * outputData; /* If non NULL, output data used for modeling into *.X, *.Y, and *.PR.Y. */
 
  int prompt; /* 1 if prompt mode specified. */
 
  int showDataStat;
 
  int mpi; /* true if USE_MPI is set. */
 
  int MPI_rank; /* 0 if USE_MPI is disabled */
  int MPI_size; /* 1 if USE_MPI is disabled */
#ifdef USE_MPI
  MPI_Comm MPI_comm; /* MPI communicator for grouping procs with simul mode. */
#endif
 
  char * saveData; /* non-NULL for saving preprocessed data. */
  ytKeyValues * saveDataArgs;
 
} Args;
 
Args * Args_parse(int argc, char * argv[]);
 
#endif /* __INGOR_ARGS_H */