source: cpp/frams/genetics/genoconv.h @ 413

// This file is a part of Framsticks SDK.  http://www.framsticks.com/
// Copyright (C) 1999-2015  Maciej Komosinski and Szymon Ulatowski.
// See LICENSE.txt for details.

#ifndef _GENCONV_H_
#define _GENCONV_H_

#include "geno.h"
#include <frams/param/param.h>
#include <frams/util/list.h>
#include <frams/util/sstring.h>

#include <string>
#include <vector>


class GenoConvManager;

class GenoConvParam : public Param
{
        GenoConvManager *gcm;
        std::vector<std::string> gcnames;
        char tmp_id[20];
        void freetab();
public:
        GenoConvParam(GenoConvManager *g);
        ~GenoConvParam();
        void *getTarget(int);
        const char* id(int i);
        void updatetab();
};

class MultiMap;

/// Base class for all Geno Converters.
/// In constructor you have to set public fields
/// indicating your identity and supported formats.
/// Each converter serves one in-out format pair.
/// Instance of your converter should be registered
/// in GenoConvManager.
class GenoConverter
{
public:
        const char *name;       //< converter name (short)
        char in_format,         //< input format, eg. '1'
                out_format;     //< output format, eg. '0'
        const char *info;       //< detailed info about converter, format or copyright
        paInt enabled;  //< don't touch this! (used by configuration module)
        paInt mapsupport; //< set to 1 if your converter supports genotype mapping

        /// You have to reimplement this method.
        /// If your converter cannot do its job, return empty string
        /// (return SString();), any other return value is assumed
        /// to be output genotype.
        /// @param map if not null, mapping informaton is requested, converter should add conversion map to this object
        virtual SString convert(SString &i, MultiMap *map) { return SString(); }

        virtual ~GenoConverter() {}
        /// Don't forget to set public fields in your constructor
        GenoConverter() :name(""), in_format(-1), out_format('0'), info(""), enabled(1), mapsupport(0) {}
};

/// This class gathers abilities of all converters and can
/// convert a genotype to any other one, provided there is
/// a path of GenoConverters between them.
/// In most cases you don't use this class directly,
/// Geno::getConverted(int) provides full converting functionality.
/// Explicit GenoConvManager object is only needed for registering
/// your GenoConverter.
/// Use DefaultGenoConvManager to register the standard genotype converters automatically.
class GenoConvManager
{
        friend class GenoConvParam;
        SList converters;
public:
        GenoConvManager();
        ~GenoConvManager();
        class GenoConvParam param;
        /// make a genotype in other format. genotype will be invalid
        /// if GenoConvManager cannot convert it.
        Geno convert(Geno &in, char format, MultiMap *map = 0, bool *converter_missing = NULL);
        /// register GenoConverter, the added object will be automatically deleted when GenoConvManager is destructed (call removeConverter() if this is not desirable)
        void addConverter(GenoConverter *conv);
        /// unregister GenoConverter
        void removeConverter(GenoConverter *conv);

        char *getPath(char in, char out, char *path, int maxlen, int *mapavailable = 0);
        char *getFormatPath(char in, char out, char *path, int maxlen, int *mapavailable = 0);
        /// returns the list of converters meeting the specified criteria
        /// pass result=0 if you only need one result (by return value)
        /// default criteria values mean "don't care", pass anything else to narrow your search
        GenoConverter *findConverters(SListTempl<GenoConverter*>* result = 0, char in = -1, char out = -1, int enabled = -1, char* name = 0);
};

#endif