MVATrainer.cc

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#include <assert.h>
#include <functional>
#include <ext/functional>
#include <algorithm>
#include <iostream>
#include <cstdarg>
#include <cstring>
#include <cstdio>
#include <string>
#include <vector>
#include <memory>
#include <map>
#include <set>

#include <xercesc/dom/DOM.hpp>

#include <TRandom.h>

#include "FWCore/Utilities/interface/Exception.h"
#include "FWCore/ParameterSet/interface/FileInPath.h"
#include "FWCore/MessageLogger/interface/MessageLogger.h"

#include "PhysicsTools/MVAComputer/interface/AtomicId.h"
#include "PhysicsTools/MVAComputer/interface/BitSet.h"
#include "PhysicsTools/MVAComputer/interface/Calibration.h"
#include "PhysicsTools/MVAComputer/interface/Variable.h"

#include "PhysicsTools/MVATrainer/interface/Interceptor.h"
#include "PhysicsTools/MVATrainer/interface/XMLDocument.h"
#include "PhysicsTools/MVATrainer/interface/XMLSimpleStr.h"
#include "PhysicsTools/MVATrainer/interface/XMLUniStr.h"
#include "PhysicsTools/MVATrainer/interface/Source.h"
#include "PhysicsTools/MVATrainer/interface/SourceVariable.h"
#include "PhysicsTools/MVATrainer/interface/TrainProcessor.h"
#include "PhysicsTools/MVATrainer/interface/TrainerMonitoring.h"
#include "PhysicsTools/MVATrainer/interface/MVATrainer.h"

XERCES_CPP_NAMESPACE_USE

namespace PhysicsTools {

namespace { // anonymous
    class MVATrainerComputer;

    class BaseInterceptor : public Calibration::Interceptor {
        public:
        BaseInterceptor() : calib(0) {}
        virtual ~BaseInterceptor() {}

        inline void setCalibration(MVATrainerComputer *calib)
        { this->calib = calib; }

        virtual std::vector<Variable::Flags>
        configure(const MVAComputer *computer, unsigned int n,
                  const std::vector<Variable::Flags> &flags) = 0;

        virtual double
        intercept(const std::vector<double> *values) const = 0;

        virtual void init() {}
        virtual void finish(bool save) {}

        protected:
        MVATrainerComputer  *calib;
    };

    class InitInterceptor : public BaseInterceptor {
        public:
        InitInterceptor() {}
        virtual ~InitInterceptor() {}

        virtual std::vector<Variable::Flags>
        configure(const MVAComputer *computer, unsigned int n,
                  const std::vector<Variable::Flags> &flags) override;

        virtual double
        intercept(const std::vector<double> *values) const override;
    };

    class TrainInterceptor : public BaseInterceptor {
        public:
        TrainInterceptor(TrainProcessor *proc) : proc(proc) {}
        virtual ~TrainInterceptor() {}

        inline TrainProcessor *getProcessor() const { return proc; }

        virtual std::vector<Variable::Flags>
        configure(const MVAComputer *computer, unsigned int n,
                  const std::vector<Variable::Flags> &flags) override;

        virtual double
        intercept(const std::vector<double> *values) const override;

        virtual void init() override;
        virtual void finish(bool save) override;

        private:
        unsigned int                    targetIdx;
        unsigned int                    weightIdx;
        mutable std::vector<std::vector<double> >   tmp;
        TrainProcessor                  *const proc;
    };

    class MVATrainerComputer : public TrainMVAComputerCalibration {
        public:
        typedef std::pair<unsigned int, BaseInterceptor*> Interceptor;

        MVATrainerComputer(const std::vector<Interceptor>
                            &interceptors,
                           bool autoSave, UInt_t seed, double split);

        virtual ~MVATrainerComputer();

        virtual std::vector<Calibration::VarProcessor*>
                            getProcessors() const override;
        virtual void initFlags(std::vector<Variable::Flags>
                            &flags) const override;

        void configured(BaseInterceptor *interceptor) const;
        void next();
        void done();

        inline void addFlag(Variable::Flags flag)
        { flags.push_back(flag); }

        inline bool useForTraining() const { return splitResult; }
        inline bool useForTesting() const
        { return split <= 0.0 || !splitResult; }

        inline bool isConfigured() const
        { return nConfigured == interceptors.size(); }

        private:
        std::vector<Interceptor>    interceptors;
        std::vector<Variable::Flags>    flags;
        mutable unsigned int        nConfigured;
        bool                doAutoSave;
        TRandom             random;
        double              split;
        bool                splitResult;
    };

    // useful litte helpers

    template<typename T>
    struct deleter : public std::unary_function<T*, void> {
        inline void operator() (T *ptr) const { delete ptr; }
    };

    template<typename T>
    struct auto_cleaner {
        inline ~auto_cleaner()
        { std::for_each(clean.begin(), clean.end(), deleter<T>()); }

        inline void add(T *ptr) { clean.push_back(ptr); }
        std::vector<T*> clean;
    };
} // anonymous namespace

static std::string stdStringVPrintf(const char *format, std::va_list va)
{
    unsigned int size = std::min<unsigned int>(128, std::strlen(format));
    char *buffer = new char[size];
    for(;;) {
        int n = std::vsnprintf(buffer, size, format, va);
        if (n >= 0 && (unsigned int)n < size)
            break;

        if (n >= 0)
            size = n + 1;
        else
            size *= 2;

        delete[] buffer;
        buffer = new char[size];
    }

    std::string result(buffer);
    delete[] buffer;
    return result;
}

static std::string stdStringPrintf(const char *format, ...)
{
    std::va_list va;
    va_start(va, format);
    std::string result = stdStringVPrintf(format, va);
    va_end(va);
    return result;
}

// implementation for InitInterceptor

std::vector<Variable::Flags>
InitInterceptor::configure(const MVAComputer *computer, unsigned int n,
                           const std::vector<Variable::Flags> &flags)
{
    calib->configured(this);
    return std::vector<Variable::Flags>(n, Variable::FLAG_ALL);
}

double
InitInterceptor::intercept(const std::vector<double> *values) const
{
    calib->next();
    return 0.0;
}

// implementation for TrainInterceptor

std::vector<Variable::Flags>
TrainInterceptor::configure(const MVAComputer *computer, unsigned int n,
                            const std::vector<Variable::Flags> &flags)
{
    const SourceVariableSet &inputSet = 
        const_cast<const TrainProcessor*>(proc)->getInputs();
    SourceVariable *target = inputSet.find(SourceVariableSet::kTarget);
    SourceVariable *weight = inputSet.find(SourceVariableSet::kWeight);

    std::vector<SourceVariable*> inputs = inputSet.get(true);

    std::vector<SourceVariable*>::const_iterator pos;
    pos = std::find(inputs.begin(), inputs.end(), target);
    assert(pos != inputs.end());
    targetIdx = pos - inputs.begin();
    pos = std::find(inputs.begin(), inputs.end(), weight);
    assert(pos != inputs.end());
    weightIdx = pos - inputs.begin();

    calib->configured(this);

    std::vector<Variable::Flags> result = flags;
    if (targetIdx < weightIdx) {
        result.erase(result.begin() + weightIdx);
        result.erase(result.begin() + targetIdx);
    } else {
        result.erase(result.begin() + targetIdx);
        result.erase(result.begin() + weightIdx);
    }

    proc->passFlags(result);

    result.clear();
    result.resize(n, proc->getDefaultFlags());
    result[targetIdx] = Variable::FLAG_NONE;
    result[weightIdx] = Variable::FLAG_OPTIONAL;

    if (targetIdx >= 2 || weightIdx >= 2)
        tmp.resize(n - 2);

    return result;
}

void TrainInterceptor::init()
{
    edm::LogInfo("MVATrainer")
        << "TrainProcessor \"" << (const char*)proc->getName()
        << "\" training iteration starting...";

    proc->doTrainBegin();
}

double
TrainInterceptor::intercept(const std::vector<double> *values) const
{
    if (values[targetIdx].size() != 1) {
        if (values[targetIdx].size() == 0)
            throw cms::Exception("MVATrainer")
                << "Trainer input lacks target variable."
                << std::endl;
        else
            throw cms::Exception("MVATrainer")
                << "Multiple targets supplied in input."
                << std::endl;
    }
    double target = values[targetIdx].front();

    double weight = 1.0;
    if (values[weightIdx].size() > 1)
        throw cms::Exception("MVATrainer")
            << "Multiple weights supplied in input."
            << std::endl;
    else if (values[weightIdx].size() == 1)
        weight = values[weightIdx].front();

    if (tmp.empty())
        proc->doTrainData(values + 2, target > 0.5, weight,
                          calib->useForTraining(),
                          calib->useForTesting());
    else {
        std::vector<std::vector<double> >::iterator pos = tmp.begin();
        for(unsigned int i = 0; pos != tmp.end(); i++)
            if (i != targetIdx && i != weightIdx)
                *pos++ = values[i];

        proc->doTrainData(&tmp.front(), target > 0.5, weight,
                          calib->useForTraining(),
                          calib->useForTesting());
    }

    return target;
}

void TrainInterceptor::finish(bool save)
{
    proc->doTrainEnd();

    edm::LogInfo("MVATrainer")
        << "... processor \"" << (const char*)proc->getName()
        << "\" training iteration done.";

    if (proc->isTrained()) {
        edm::LogInfo("MVATrainer")
            << "* Completed training of \""
            << (const char*)proc->getName() << "\".";

        if (save)
            proc->save();
    }
}

// implementation for MVATrainerComputer

MVATrainerComputer::MVATrainerComputer(const std::vector<Interceptor>
                        &interceptors, bool autoSave,
                                       UInt_t seed, double split) :
    interceptors(interceptors), nConfigured(0), doAutoSave(autoSave),
    random(seed), split(split)
{
    for(std::vector<Interceptor>::const_iterator iter =
        interceptors.begin(); iter != interceptors.end(); ++iter)
        iter->second->setCalibration(this);
}

MVATrainerComputer::~MVATrainerComputer()
{
    done();
    
    for(std::vector<Interceptor>::const_iterator iter =
        interceptors.begin(); iter != interceptors.end(); ++iter)
        delete iter->second;
}

std::vector<Calibration::VarProcessor*>
MVATrainerComputer::getProcessors() const
{
    std::vector<Calibration::VarProcessor*> processors =
            Calibration::MVAComputer::getProcessors();

    for(std::vector<Interceptor>::const_iterator iter =
        interceptors.begin(); iter != interceptors.end(); ++iter)

        processors.insert(processors.begin() + iter->first,
                          1, iter->second);

    return processors;
}

void MVATrainerComputer::initFlags(std::vector<Variable::Flags> &flags) const
{
    assert(flags.size() == this->flags.size());
    flags = this->flags;
}

void MVATrainerComputer::configured(BaseInterceptor *interceptor) const
{
    nConfigured++;
    if (isConfigured())
        for(std::vector<Interceptor>::const_iterator iter =
                        interceptors.begin();
            iter != interceptors.end(); ++iter)
            iter->second->init();
}

void MVATrainerComputer::next()
{
    splitResult = random.Uniform(1.0) >= split;
}

void MVATrainerComputer::done()
{
    if (isConfigured()) {
        for(std::vector<Interceptor>::const_iterator iter =
                        interceptors.begin();
            iter != interceptors.end(); ++iter)
            iter->second->finish(doAutoSave);
        nConfigured = 0;
    }
}

// implementation for MVATrainer

const AtomicId MVATrainer::kTargetId("__TARGET__");
const AtomicId MVATrainer::kWeightId("__WEIGHT__");

static const AtomicId kOutputId("__OUTPUT__");

static bool isMagic(AtomicId id)
{
    return id == MVATrainer::kTargetId ||
           id == MVATrainer::kWeightId ||
           id == kOutputId;
}

static std::string escape(const std::string &in)
{
    std::string result("'");
    for(std::string::const_iterator iter = in.begin();
        iter != in.end(); ++iter) {
        switch(*iter) {
            case '\'':
            result += "'\\''";
            break;
            default:
            result += *iter;
        }
    }
    result += '\'';
    return result;
}

MVATrainer::MVATrainer(const std::string &fileName, bool useXSLT,
    const char *styleSheet) :
    input(0), output(0), name("MVATrainer"),
    doAutoSave(true), doCleanup(false),
    doMonitoring(false), randomSeed(65539), crossValidation(0.0)
{
    if (useXSLT) {
        std::string sheet;
        if (!styleSheet)
            sheet = edm::FileInPath(
                "PhysicsTools/MVATrainer/data/MVATrainer.xsl")
                .fullPath();
        else
            sheet = styleSheet;

        std::string preproc = "xsltproc --xinclude " + escape(sheet) +
                              " " + escape(fileName);
        xml.reset(new XMLDocument(fileName, preproc));
    } else
        xml.reset(new XMLDocument(fileName));

    DOMNode *node = xml->getRootNode();

    if (std::strcmp(XMLSimpleStr(node->getNodeName()), "MVATrainer") != 0)
        throw cms::Exception("MVATrainer")
            << "Invalid XML root node." << std::endl;

    enum State {
        STATE_GENERAL,
        STATE_FIRST,
        STATE_MIDDLE,
        STATE_LAST
    } state = STATE_GENERAL;

    for(node = node->getFirstChild();
        node; node = node->getNextSibling()) {
        if (node->getNodeType() != DOMNode::ELEMENT_NODE)
            continue;

        std::string name = XMLSimpleStr(node->getNodeName());
        DOMElement *elem = static_cast<DOMElement*>(node);

        switch(state) {
            case STATE_GENERAL: {
            if (name != "general")
                throw cms::Exception("MVATrainer")
                    << "Expected general config as first "
                       "tag." << std::endl;

            for(DOMNode *subNode = elem->getFirstChild();
                subNode; subNode = subNode->getNextSibling()) {
                if (subNode->getNodeType() !=
                    DOMNode::ELEMENT_NODE)
                    continue;

                if (std::strcmp(XMLSimpleStr(
                    subNode->getNodeName()), "option") != 0)
                    throw cms::Exception("MVATrainer")
                        << "Expected option tag."
                        << std::endl;

                elem = static_cast<DOMElement*>(subNode);
                name = XMLDocument::readAttribute<std::string>(
                                elem, "name");
                std::string content = XMLSimpleStr(
                        elem->getTextContent());

                if (name == "id")
                    this->name = content;
                else if (name == "trainfiles")
                    trainFileMask = content;
                else
                    throw cms::Exception("MVATrainer")
                        << "Unknown option \""
                        << name << "\"." << std::endl;
            }

            state = STATE_FIRST;
            }   break;
            case STATE_FIRST: {
            if (name != "input")
                throw cms::Exception("MVATrainer")
                    << "Expected input config as second "
                       "tag." << std::endl;

            AtomicId id = XMLDocument::readAttribute<std::string>(
                                elem, "id");
            input = new Source(id, true);
            input->getOutputs().append(
                createVariable(input, kTargetId,
                               Variable::FLAG_NONE),
                SourceVariableSet::kTarget);
            input->getOutputs().append(
                createVariable(input, kWeightId,
                               Variable::FLAG_OPTIONAL),
                SourceVariableSet::kWeight);
            sources.insert(std::make_pair(id, input));
            fillOutputVars(input->getOutputs(), input, elem);

            state = STATE_MIDDLE;
            }   break;
            case STATE_MIDDLE: {
            if (name == "output") {
                AtomicId zero;
                output = new TrainProcessor("output",
                                            &zero, this);
                fillInputVars(output->getInputs(), elem);
                state = STATE_LAST;
                continue;
            } else if (name != "processor")
                throw cms::Exception("MVATrainer")
                    << "Unexpected tag after input "
                       "config." << std::endl;

            AtomicId id = XMLDocument::readAttribute<std::string>(
                                elem, "id");
            std::string name =
                XMLDocument::readAttribute<std::string>(
                    elem, "name");

            makeProcessor(elem, id, name.c_str());
            }   break;
            case STATE_LAST:
            throw cms::Exception("MVATrainer")
                << "Unexpected tag found after output."
                << std::endl;
            break;
        }
    }

    if (state == STATE_FIRST)
        throw cms::Exception("MVATrainer")
            << "Expected input variable config." << std::endl;
    else if (state == STATE_MIDDLE)
        throw cms::Exception("MVATrainer")
            << "Expected output variable config." << std::endl;

    if (trainFileMask.empty())
        trainFileMask = this->name + "_%s%s.%s";
}

MVATrainer::~MVATrainer()
{
    if (monitoring.get())
        monitoring->write();

    for(std::map<AtomicId, Source*>::const_iterator iter = sources.begin();
        iter != sources.end(); iter++) {
        TrainProcessor *proc =
                dynamic_cast<TrainProcessor*>(iter->second);

        if (proc && doCleanup)
            proc->cleanup();

        delete iter->second;
    }
    delete output;
    std::for_each(variables.begin(), variables.end(),
                  deleter<SourceVariable>());
}

void MVATrainer::loadState()
{
    for(std::vector<AtomicId>::const_iterator iter =
                        this->processors.begin();
        iter != this->processors.end(); iter++) {
        std::map<AtomicId, Source*>::const_iterator pos =
                            sources.find(*iter);
        assert(pos != sources.end());
        TrainProcessor *source =
                dynamic_cast<TrainProcessor*>(pos->second);
        assert(source);

        if (source->load())
            edm::LogInfo("MVATrainer")
                << source->getId() << " configuration for \""
                << (const char*)source->getName()
                << "\" loaded from file.";
    }
}

void MVATrainer::saveState()
{
    doCleanup = false;

    for(std::vector<AtomicId>::const_iterator iter =
                        this->processors.begin();
        iter != this->processors.end(); iter++) {
        std::map<AtomicId, Source*>::const_iterator pos =
                            sources.find(*iter);
        assert(pos != sources.end());
        TrainProcessor *source =
                dynamic_cast<TrainProcessor*>(pos->second);
        assert(source);

        if (source->isTrained())
            source->save();
    }
}

void MVATrainer::makeProcessor(DOMElement *elem, AtomicId id, const char *name)
{
    DOMElement *xmlInput = 0;
    DOMElement *xmlConfig = 0;
    DOMElement *xmlOutput = 0;
    DOMElement *xmlData = 0;

    static struct NameExpect {
        const char  *tag;
        bool        mandatory;
        DOMElement  **elem;
    } const expect[] = {
        { "input",  true,   &xmlInput },
        { "config", true,   &xmlConfig },
        { "output", true,   &xmlOutput },
        { "data",   false,  &xmlData },
        { 0, }
    };

    const NameExpect *cur = expect;
    for(DOMNode *node = elem->getFirstChild();
        node; node = node->getNextSibling()) {
        if (node->getNodeType() != DOMNode::ELEMENT_NODE)
            continue;

        std::string tag = XMLSimpleStr(node->getNodeName());
        DOMElement *elem = static_cast<DOMElement*>(node);

        if (!cur->tag)
            throw cms::Exception("MVATrainer")
                << "Superfluous tag " << tag
                << "encountered in processor." << std::endl;
        else if (tag != cur->tag && cur->mandatory)
            throw cms::Exception("MVATrainer")
                << "Expected tag " << cur->tag << ", got "
                << tag << " instead in processor."
                << std::endl;
        else if (tag != cur->tag) {
            cur++;
            continue;
        }
        *(cur++)->elem = elem;
    }

    while(cur->tag && !cur->mandatory)
        cur++;
    if (cur->tag)
        throw cms::Exception("MVATrainer")
            << "Unexpected end of processor configuration, "
            << "expected tag " << cur->tag << "." << std::endl;

    std::auto_ptr<TrainProcessor> proc(
                TrainProcessor::create(name, &id, this));
    if (!proc.get())
        throw cms::Exception("MVATrainer")
            << "Variable processor trainer " << name
            << " could not be instantiated. Most likely because"
               " the trainer plugin for \"" << name << "\""
               " does not exist." << std::endl;

    if (sources.find(id) != sources.end())
        throw cms::Exception("MVATrainer")
            << "Duplicate variable processor id "
            << (const char*)id << "."
            << std::endl;

    fillInputVars(proc->getInputs(), xmlInput);
    fillOutputVars(proc->getOutputs(), proc.get(), xmlOutput);

    edm::LogInfo("MVATrainer")
        << "Configuring " << (const char*)proc->getId()
        << " \"" << (const char*)proc->getName() << "\".";
    proc->configure(xmlConfig);

    sources.insert(std::make_pair(id, proc.release()));
    processors.push_back(id);
}

std::string MVATrainer::trainFileName(const TrainProcessor *proc,
                                      const std::string &ext,
                                      const std::string &arg) const
{
    std::string arg_ = arg.size() > 0 ? ("_" + arg) : "";
    return stdStringPrintf(trainFileMask.c_str(),
                           (const char*)proc->getName(),
                           arg_.c_str(), ext.c_str());
}

TrainerMonitoring::Module *MVATrainer::bookMonitor(const std::string &name)
{
    if (!doMonitoring)
        return 0;

    if (!monitoring.get()) {
        std::string fileName = 
            stdStringPrintf(trainFileMask.c_str(),
                            "monitoring", "", "root");
        monitoring.reset(new TrainerMonitoring(fileName));
    }

    return monitoring->book(name);
}

SourceVariable *MVATrainer::getVariable(AtomicId source, AtomicId name) const
{
    std::map<AtomicId, Source*>::const_iterator pos = sources.find(source);
    if (pos == sources.end())
        return 0;

    return pos->second->getOutput(name);
}

SourceVariable *MVATrainer::createVariable(Source *source, AtomicId name,
                                           Variable::Flags flags)
{
    SourceVariable *var = getVariable(source->getName(), name);
    if (var)
        return 0;

    var = new SourceVariable(source, name, flags);
    variables.push_back(var);
    return var;
}

void MVATrainer::fillInputVars(SourceVariableSet &vars,
                               XERCES_CPP_NAMESPACE_QUALIFIER DOMElement *xml)
{
    std::vector<SourceVariable*> tmp;
    SourceVariable *target = 0;
    SourceVariable *weight = 0;

    for(DOMNode *node = xml->getFirstChild(); node;
        node = node->getNextSibling()) {
        if (node->getNodeType() != DOMNode::ELEMENT_NODE)
            continue;

        if (std::strcmp(XMLSimpleStr(node->getNodeName()), "var") != 0)
            throw cms::Exception("MVATrainer")
                << "Invalid input variable node." << std::endl;

        DOMElement *elem = static_cast<DOMElement*>(node);

        AtomicId source = XMLDocument::readAttribute<std::string>(
                            elem, "source");
        AtomicId name = XMLDocument::readAttribute<std::string>(
                            elem, "name");

        SourceVariable *var = getVariable(source, name);
        if (!var)
            throw cms::Exception("MVATrainer")
                << "Input variable " << (const char*)source
                << ":" << (const char*)name
                << " not found." << std::endl;

        if (XMLDocument::readAttribute<bool>(elem, "target", false)) {
            if (target)
                throw cms::Exception("MVATrainer")
                    << "Target variable defined twice"
                    << std::endl;
            target = var;
        }
        if (XMLDocument::readAttribute<bool>(elem, "weight", false)) {
            if (weight)
                throw cms::Exception("MVATrainer")
                    << "Weight variable defined twice"
                    << std::endl;
            weight = var;
        }

        tmp.push_back(var);
    }

    if (!weight) {
        weight = input->getOutput(kWeightId);
        assert(weight);
        tmp.insert(tmp.begin() +
                    (target == input->getOutput(kTargetId)),
                   1, weight);
    }
    if (!target) {
        target = input->getOutput(kTargetId);
        assert(target);
        tmp.insert(tmp.begin(), 1, target);
    }

    unsigned int n = 0;
    for(std::vector<SourceVariable*>::const_iterator iter = variables.begin();
        iter != variables.end(); iter++) {
        std::vector<SourceVariable*>::const_iterator pos =
            std::find(tmp.begin(), tmp.end(), *iter);
        if (pos == tmp.end())
            continue;

        SourceVariableSet::Magic magic;
        if (*iter == target)
            magic = SourceVariableSet::kTarget;
        else if (*iter == weight)
            magic = SourceVariableSet::kWeight;
        else
            magic = SourceVariableSet::kRegular;

        if (vars.append(*iter, magic, pos - tmp.begin())) {
            AtomicId source = (*iter)->getSource()->getName();
            AtomicId name = (*iter)->getName();
            throw cms::Exception("MVATrainer")
                << "Input variable " << (const char*)source
                << ":" << (const char*)name
                << " defined twice." << std::endl;
        }

        n++;
    }

    assert(tmp.size() == n);
}

void MVATrainer::fillOutputVars(SourceVariableSet &vars, Source *source,
                                XERCES_CPP_NAMESPACE_QUALIFIER DOMElement *xml)
{
    for(DOMNode *node = xml->getFirstChild(); node;
        node = node->getNextSibling()) {
        if (node->getNodeType() != DOMNode::ELEMENT_NODE)
            continue;

        if (std::strcmp(XMLSimpleStr(node->getNodeName()), "var") != 0)
            throw cms::Exception("MVATrainer")
                << "Invalid output variable node."
                << std::endl;

        DOMElement *elem = static_cast<DOMElement*>(node);

        AtomicId name = XMLDocument::readAttribute<std::string>(
                            elem, "name");
        if (!name)
            throw cms::Exception("MVATrainer")
                << "Output variable tag missing name."
                << std::endl;
        if (isMagic(name))
            throw cms::Exception("MVATrainer")
                << "Cannot use magic variable names in output."
                << std::endl;

        Variable::Flags flags = Variable::FLAG_NONE;

        if (XMLDocument::readAttribute<bool>(elem, "optional", true))
            flags = (PhysicsTools::Variable::Flags)
                (flags | Variable::FLAG_OPTIONAL);

        if (XMLDocument::readAttribute<bool>(elem, "multiple", true))
            flags = (PhysicsTools::Variable::Flags)
                (flags | Variable::FLAG_MULTIPLE);

        SourceVariable *var = createVariable(source, name, flags);
        if (!var || vars.append(var))
            throw cms::Exception("MVATrainer")
                << "Output variable "
                << (const char*)source->getName()
                << ":" << (const char*)name
                << " defined twice." << std::endl;
    }
}

void
MVATrainer::connectProcessors(Calibration::MVAComputer *calib,
                              const std::vector<CalibratedProcessor> &procs,
                              bool withTarget) const
{
    std::map<SourceVariable*, unsigned int> vars;
    unsigned int size = 0;

    MVATrainerComputer *trainCalib =
            dynamic_cast<MVATrainerComputer*>(calib);

    for(unsigned int i = 0;
        i < input->getOutputs().size(true); i++) {
        if (i < 2 && !withTarget)
            continue;

        SourceVariable *var = variables[i];
        vars[var] = size++;

        Calibration::Variable calibVar;
        calibVar.name = (const char*)var->getName();
        calib->inputSet.push_back(calibVar);
        if (trainCalib)
            trainCalib->addFlag(var->getFlags());
    }

    for(std::vector<CalibratedProcessor>::const_iterator iter =
                procs.begin(); iter != procs.end(); iter++) {
        bool isInterceptor = dynamic_cast<BaseInterceptor*>(
                            iter->calib) != 0;

        BitSet inputSet(size);

        unsigned int last = 0;
        std::vector<SourceVariable*> inoutVars;
        if (iter->processor)
            inoutVars = iter->processor->getInputs().get(
                                isInterceptor);
        for(std::vector<SourceVariable*>::const_iterator iter2 =
            inoutVars.begin(); iter2 != inoutVars.end(); iter2++) {
            std::map<SourceVariable*,
                     unsigned int>::const_iterator pos =
                            vars.find(*iter2);

            assert(pos != vars.end());

            if (pos->second < last)
                throw cms::Exception("MVATrainer")
                    << "Input variables not declared "
                       "in order of appearance in \""
                    << (const char*)iter->processor->getName()
                    << "\"." << std::endl;

            inputSet[last = pos->second] = true;
        }

        assert(!isInterceptor || withTarget);

        iter->calib->inputVars = Calibration::convert(inputSet);

        calib->output = size;

        if (isInterceptor) {
            size++;
            continue;
        }

        calib->addProcessor(iter->calib);

        inoutVars = iter->processor->getOutputs().get();
        for(std::vector<SourceVariable*>::const_iterator iter =
            inoutVars.begin(); iter != inoutVars.end(); iter++) {

            vars[*iter] = size++;
        }
    }

    if (output->getInputs().size() != 1)
        throw cms::Exception("MVATrainer")
            << "Exactly one output variable has to be specified."
            << std::endl;

    SourceVariable *outVar = output->getInputs().get()[0];
    std::map<SourceVariable*, unsigned int>::const_iterator pos =
                            vars.find(outVar);
    if (pos != vars.end())
        calib->output = pos->second;
}

Calibration::MVAComputer *
MVATrainer::makeTrainCalibration(const AtomicId *compute,
                                 const AtomicId *train) const
{
    std::map<AtomicId, TrainInterceptor*> interceptors;
    std::vector<MVATrainerComputer::Interceptor> baseInterceptors;
    std::vector<CalibratedProcessor> processors;

    BaseInterceptor *interceptor = new InitInterceptor;
    baseInterceptors.push_back(std::make_pair(0, interceptor));
    processors.push_back(CalibratedProcessor(0, interceptor));

    for(const AtomicId *iter = train; *iter; iter++) {
        TrainProcessor *source;
        if (*iter == kOutputId)
            source = output;
        else {
            std::map<AtomicId, Source*>::const_iterator pos =
                            sources.find(*iter);
            assert(pos != sources.end());
            source = dynamic_cast<TrainProcessor*>(pos->second);
        }
        assert(source);

        interceptors[*iter] = new TrainInterceptor(source);
    }

    auto_cleaner<Calibration::VarProcessor> autoClean;

    std::set<AtomicId> done;
    for(const AtomicId *iter = compute; *iter; iter++) {
        if (done.erase(*iter))
            continue;

        std::map<AtomicId, Source*>::const_iterator pos =
                            sources.find(*iter);
        assert(pos != sources.end());
        TrainProcessor *source =
                dynamic_cast<TrainProcessor*>(pos->second);
        assert(source);
        assert(source->isTrained());

        Calibration::VarProcessor *proc = source->getCalibration();
        if (!proc)
            continue;

        autoClean.add(proc);
        processors.push_back(CalibratedProcessor(source, proc));

        Calibration::ProcForeach *looper =
                dynamic_cast<Calibration::ProcForeach*>(proc);
        if (looper) {
            std::vector<AtomicId>::const_iterator pos2 =
                std::find(this->processors.begin(),
                          this->processors.end(), *iter);
            assert(pos2 != this->processors.end());
            ++pos2;
            unsigned int n = 0;
            for(int i = 0; i < (int)looper->nProcs; ++i, ++pos2) {
                assert(pos2 != this->processors.end());

                const AtomicId *iter2 = compute;
                while(*iter2) {
                    if (*iter2 == *pos2)
                        break;
                    iter2++;
                }

                if (*iter2) {
                    n++;
                    done.insert(*iter2);
                    pos = sources.find(*iter2);
                    assert(pos != sources.end());
                    TrainProcessor *source =
                        dynamic_cast<TrainProcessor*>(
                                pos->second);
                    assert(source);
                    assert(source->isTrained());

                    proc = source->getCalibration();
                    if (proc) {
                        autoClean.add(proc);
                        processors.push_back(
                            CalibratedProcessor(
                                source, proc));
                    }
                }

                std::map<AtomicId, TrainInterceptor*>::iterator
                        pos3 = interceptors.find(*pos2);
                if (pos3 != interceptors.end()) {
                    n++;
                    baseInterceptors.push_back(
                        std::make_pair(processors.size(),
                                   pos3->second));
                    processors.push_back(
                        CalibratedProcessor(
                            pos3->second->getProcessor(),
                            pos3->second));
                    interceptors.erase(pos3);
                }
            }

            looper->nProcs = n;
            if (!n) {
                baseInterceptors.pop_back();
                processors.pop_back();
            }
        }
    }

    for(std::map<AtomicId, TrainInterceptor*>::const_iterator iter =
        interceptors.begin(); iter != interceptors.end(); ++iter) {

        TrainProcessor *proc = iter->second->getProcessor();
        baseInterceptors.push_back(std::make_pair(processors.size(),
                                                  iter->second));
        processors.push_back(CalibratedProcessor(proc, iter->second));
    }

    std::auto_ptr<Calibration::MVAComputer> calib(
        new MVATrainerComputer(baseInterceptors, doAutoSave,
                               randomSeed, crossValidation));

    connectProcessors(calib.get(), processors, true);

    return calib.release();
}

void MVATrainer::doneTraining(Calibration::MVAComputer *trainCalibration) const
{
    MVATrainerComputer *calib =
            dynamic_cast<MVATrainerComputer*>(trainCalibration);

    if (!calib)
        throw cms::Exception("MVATrainer")
            << "Invalid training calibration passed to "
               "doneTraining()" << std::endl;

    calib->done();
}

std::vector<AtomicId> MVATrainer::findFinalProcessors() const
{
    std::set<Source*> toCheck;
    toCheck.insert(output);

    std::set<Source*> done;
    while(!toCheck.empty()) {
        Source *source = *toCheck.begin();
        toCheck.erase(toCheck.begin());

        std::vector<SourceVariable*> inputs = source->inputs.get();
        for(std::vector<SourceVariable*>::const_iterator iter =
                inputs.begin(); iter != inputs.end(); ++iter) {
            source = (*iter)->getSource();
            if (done.insert(source).second)
                toCheck.insert(source);
        }
    }

    std::vector<AtomicId> result;
    for(std::vector<AtomicId>::const_iterator iter = processors.begin();
        iter != processors.end(); ++iter) {
        std::map<AtomicId, Source*>::const_iterator pos =
                            sources.find(*iter);
        if (pos != sources.end() && done.count(pos->second))
            result.push_back(*iter);
    }

    return result;
}

Calibration::MVAComputer *MVATrainer::getCalibration() const
{
    std::vector<CalibratedProcessor> processors;

    std::auto_ptr<Calibration::MVAComputer> calib(
                        new Calibration::MVAComputer);

    std::vector<AtomicId> used = findFinalProcessors();
    for(std::vector<AtomicId>::const_iterator iter = used.begin();
        iter != used.end(); iter++) {
        std::map<AtomicId, Source*>::const_iterator pos =
                            sources.find(*iter);
        assert(pos != sources.end());
        TrainProcessor *source =
                dynamic_cast<TrainProcessor*>(pos->second);
        assert(source);
        if (!source->isTrained())
            return 0;

        Calibration::VarProcessor *proc = source->getCalibration();
        if (!proc)
            continue;

        Calibration::ProcForeach *foreach =
                dynamic_cast<Calibration::ProcForeach*>(proc);
        if (foreach) {
            std::vector<AtomicId>::const_iterator begin =
                std::find(this->processors.begin(),
                          this->processors.end(), *iter);
            assert(this->processors.end() - begin >
                   (int)(foreach->nProcs + 1));
            ++begin;
            std::vector<AtomicId>::const_iterator end =
                        begin + foreach->nProcs;
            foreach->nProcs = 0;
            for(std::vector<AtomicId>::const_iterator iter2 =
                    iter; iter2 != used.end(); ++iter2)
                if (std::find(begin, end, *iter2) != end)
                    foreach->nProcs++;
        }

        processors.push_back(CalibratedProcessor(source, proc));
    }

    connectProcessors(calib.get(), processors, false);

    return calib.release();
}

void MVATrainer::findUntrainedComputers(std::vector<AtomicId> &compute,
                                        std::vector<AtomicId> &train) const
{
    compute.clear();
    train.clear();

    std::set<Source*> trainedSources;
    trainedSources.insert(input);

    for(std::vector<AtomicId>::const_iterator iter =
        processors.begin(); iter != processors.end(); iter++) {
        std::map<AtomicId, Source*>::const_iterator pos =
                            sources.find(*iter);
        assert(pos != sources.end());
        TrainProcessor *proc =
                dynamic_cast<TrainProcessor*>(pos->second);
        assert(proc);

        bool trainedDeps = true;
        std::vector<SourceVariable*> inputVars =
                    proc->getInputs().get();
        for(std::vector<SourceVariable*>::const_iterator iter2 =
            inputVars.begin(); iter2 != inputVars.end(); iter2++) {
            if (trainedSources.find((*iter2)->getSource())
                == trainedSources.end()) {
                trainedDeps = false;
                break;
            }
        }

        if (!trainedDeps)
            continue;

        if (proc->isTrained()) {
            trainedSources.insert(proc);
            compute.push_back(proc->getName());
        } else
            train.push_back(proc->getName());
    }

    if (doMonitoring && !output->isTrained() &&
        trainedSources.find(output->getInputs().get()[0]->getSource())
                        != trainedSources.end())
        train.push_back(kOutputId);
}

Calibration::MVAComputer *MVATrainer::getTrainCalibration() const
{
    std::vector<AtomicId> compute, train;
    findUntrainedComputers(compute, train);

    if (train.empty())
        return 0;

    compute.push_back(0);
    train.push_back(0);

    return makeTrainCalibration(&compute.front(), &train.front());
}

} // namespace PhysicsTools