/**
 * UGENE - Integrated Bioinformatics Tools.
 * Copyright (C) 2008-2023 UniPro <ugene@unipro.ru>
 * http://ugene.net
 *
 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
 * as published by the Free Software Foundation; either version 2
 * of the License, or (at your option) any later version.
 *
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
 * GNU General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
 * MA 02110-1301, USA.
 */

#pragma once

#include <QProcess>

#include <U2Core/AnnotationData.h>
#include <U2Core/DocumentModel.h>
#include <U2Core/Task.h>

namespace U2 {

class ExternalToolLogParser;
class ExternalToolRunTaskHelper;
class SaveDocumentTask;
class ExternalToolListener;
class ExternalTool;

// using namespace Workflow;

class U2CORE_EXPORT ProcessRun {
public:
    QProcess* process;
    QString program;
    QStringList arguments;
};

class U2CORE_EXPORT ExternalToolRunTask : public Task {
    Q_OBJECT
    Q_DISABLE_COPY(ExternalToolRunTask)
    friend class ExternalToolRunTaskHelper;

public:
    /**
     * Don't delete logParser, it will be deleted automatically.
     */
    ExternalToolRunTask(const QString& toolId, const QStringList& arguments, ExternalToolLogParser* logParser, const QString& workingDirectory = "", const QStringList& additionalPaths = QStringList(), bool parseOutputFile = false);
    ~ExternalToolRunTask() override;

    void addOutputListener(ExternalToolListener* outputListener);

    void prepare() override;

    void run() override;

    void setStandardInputFile(const QString& file) {
        inputFile = file;
    }
    void setStandardOutputFile(const QString& file) {
        outputFile = file;
    }
    void setAdditionalEnvVariables(const QMap<QString, QString>& envVariable) {
        additionalEnvVariables = envVariable;
    }

    static void killProcess(QProcess* process);

private:
    QString parseStandardOutputFile() const;
    void parseError(const QString& error) const;

    QStringList arguments;
    ExternalToolLogParser* logParser;
    const QString toolId;
    QString toolName;
    QString workingDirectory;
    QString inputFile;
    QString outputFile;
    QStringList additionalPaths;
    QMap<QString, QString> additionalEnvVariables;
    QProcess* externalToolProcess = nullptr;
    QScopedPointer<ExternalToolRunTaskHelper> helper;
    ExternalToolListener* listener = nullptr;
    QString additionalProcessToKill;
    bool parseOutputFile;
};

class U2CORE_EXPORT ExternalToolSupportTask : public Task {
public:
    ExternalToolSupportTask(const QString& _name, TaskFlags f)
        : Task(_name, f) {
    }
    void addListeners(const QList<ExternalToolListener*>& _listeners) {
        listeners.append(_listeners);
    }
    const QList<ExternalToolListener*>& getListeners() const {
        return listeners;
    }

    ExternalToolListener* getListener(int listenerNumber);

protected:
    virtual void setListenerForTask(ExternalToolRunTask* runTask, int listenerNumber = 0);
    virtual void setListenerForHelper(ExternalToolRunTaskHelper* helper, int listenerNumber = 0);

private:
    QList<ExternalToolListener*> listeners;
};

/** Part of ExternalToolRunTask that belongs to task run  thread -> get signals from that thread directly */
class U2CORE_EXPORT ExternalToolRunTaskHelper : public QObject {
    Q_OBJECT
public:
    ExternalToolRunTaskHelper(ExternalToolRunTask* t);
    ExternalToolRunTaskHelper(QProcess* process, ExternalToolLogParser* logParser, U2OpStatus& os);

    void addOutputListener(ExternalToolListener* listener);

public slots:
    void sl_onReadyToReadLog();
    void sl_onReadyToReadErrLog();

protected:
    virtual void processErrorToLog();

private:
    QMutex logMutex;
    U2OpStatus& os;
    ExternalToolLogParser* logParser;
    QProcess* process;
    QByteArray logData;
    ExternalToolListener* listener;
};

class U2CORE_EXPORT ExternalToolSupportUtils : public QObject {
    Q_OBJECT
public:
    static void removeTmpDir(const QString& absolutePath, U2OpStatus& os);
    static QString createTmpDir(const QString& domain, U2OpStatus& os);
    /**
     * Creates a new folder: prePath/domain/tmp_dir_name
     */
    static QString createTmpDir(const QString& prePath, const QString& domain, U2OpStatus& os);
    static void appendExistingFile(const QString& path, QStringList& files);
    static bool startExternalProcess(QProcess* process, const QString& program, const QStringList& arguments);
    static ProcessRun prepareProcess(const QString& toolName, const QStringList& arguments, const QString& workingDirectory, const QStringList& additionalPaths, U2OpStatus& os, ExternalToolListener* listener);
    static QString prepareArgumentsForCmdLine(const QStringList& arguments);
    static QStringList splitCmdLineArguments(const QString& execString);
    static QVariantMap getScoresGapDependencyMap();

    /*
     * Path checking
     */
    static QString checkArgumentPathLatinSymbols(const QStringList& args);
    static QString checkTemporaryDirLatinSymbols();
    static QString checkToolPathLatinSymbols(const ExternalTool* tool);
    static QString checkIndexDirLatinSymbols();

    static QString checkSpacesArgumentsLikeMakeblastdb(const QStringList& args);
    static QString checkArgumentPathSpaces(const QStringList& args);
    static QString checkTemporaryDirSpaces();
    static QString checkToolPathSpaces(const ExternalTool* tool);
};

class U2CORE_EXPORT ExternalToolLogParser : public QObject {
    Q_OBJECT
public:
    ExternalToolLogParser(bool writeErrorsToLog = true);
    virtual int getProgress() {
        return progress;
    }
    virtual void parseOutput(const QString& partOfLog);
    virtual void parseErrOutput(const QString& partOfLog);
    QString getLastError() const {
        return lastError;
    }

protected:
    virtual void processLine(const QString& line);
    virtual void processErrLine(const QString& line);
    virtual bool isError(const QString& line) const;
    virtual void setLastError(const QString& value);

private:
    /* If any error occurred, this variable will be non-empty */
    QString lastError;
    /* Percent values in range 0..100, negative if unknown. */
    int progress;
    /* Last line printed to stdout */
    QString lastLine;
    /* Last line printed to stderr */
    QString lastErrLine;
    /* The error will be written to log if true. Default - true */
    bool writeErrorsToLog;

protected:
    QStringList lastPartOfLog;
};

/**
 * @brief The ExternalToolLogProcessor class
 * Log processor is supposed to do some additional action
 * on every new output line.
 */

class U2CORE_EXPORT ExternalToolLogProcessor {
public:
    virtual ~ExternalToolLogProcessor();

    virtual void processLogMessage(const QString& message) = 0;
};

class U2CORE_EXPORT ExternalToolListener {
public:
    enum LogType {
        ERROR_LOG = 0,
        OUTPUT_LOG = 1,
        PROGRAM_WITH_ARGUMENTS = 2
    };

    ExternalToolListener(ExternalToolLogProcessor* logProcessor = nullptr);
    virtual ~ExternalToolListener();

    virtual void addNewLogMessage(const QString& message, int messageType) = 0;

    virtual void setToolName(const QString& toolName);
    void setLogProcessor(ExternalToolLogProcessor* logProcessor);
    const QString& getToolName() const;

protected:
    ExternalToolLogProcessor* logProcessor;

private:
    QString toolName;
};

}  // namespace U2
