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/*! \internal \file
 * \brief
 * Implements classes in analysissettings.h.
 *
 * \author Teemu Murtola <teemu.murtola@gmail.com>
 * \ingroup module_trajectoryanalysis
 */
#include "gmxpre.h"

#include "gromacs/trajectoryanalysis/analysissettings.h"

#include "gromacs/commandline/cmdlineoptionsmodule.h"
#include "gromacs/fileio/trxio.h"
#include "gromacs/utility/arrayref.h"
#include "gromacs/utility/gmxassert.h"

#include "analysissettings_impl.h"

namespace gmx
{


/********************************************************************
 * TrajectoryAnalysisSettings
 */

TrajectoryAnalysisSettings::TrajectoryAnalysisSettings() : impl_(new Impl)
{
    impl_->frflags |= TRX_NEED_X;
}


TrajectoryAnalysisSettings::~TrajectoryAnalysisSettings() {}


void TrajectoryAnalysisSettings::setOptionsModuleSettings(ICommandLineOptionsModuleSettings* settings)
{
    impl_->optionsModuleSettings_ = settings;
}


TimeUnit TrajectoryAnalysisSettings::timeUnit() const
{
    return impl_->timeUnit;
}


const AnalysisDataPlotSettings& TrajectoryAnalysisSettings::plotSettings() const
{
    return impl_->plotSettings;
}


unsigned long TrajectoryAnalysisSettings::flags() const
{
    return impl_->flags;
}


bool TrajectoryAnalysisSettings::hasFlag(unsigned long flag) const
{
    return (impl_->flags & flag) != 0U;
}


bool TrajectoryAnalysisSettings::hasPBC() const
{
    return impl_->bPBC;
}


bool TrajectoryAnalysisSettings::hasRmPBC() const
{
    return impl_->bRmPBC;
}


int TrajectoryAnalysisSettings::frflags() const
{
    return impl_->frflags;
}


void TrajectoryAnalysisSettings::setFlags(unsigned long flags)
{
    impl_->flags = flags;
}


void TrajectoryAnalysisSettings::setFlag(unsigned long flag, bool bSet)
{
    if (bSet)
    {
        impl_->flags |= flag;
    }
    else
    {
        impl_->flags &= ~flag;
    }
}


void TrajectoryAnalysisSettings::setPBC(bool bPBC)
{
    impl_->bPBC = bPBC;
}


void TrajectoryAnalysisSettings::setRmPBC(bool bRmPBC)
{
    impl_->bRmPBC = bRmPBC;
}


void TrajectoryAnalysisSettings::setFrameFlags(int frflags)
{
    impl_->frflags = frflags;
}

void TrajectoryAnalysisSettings::setHelpText(const ArrayRef<const char* const>& help)
{
    GMX_RELEASE_ASSERT(impl_->optionsModuleSettings_ != nullptr,
                       "setHelpText() called in invalid context");
    impl_->optionsModuleSettings_->setHelpText(help);
}

} // namespace gmx
