/* $Id: CoinIndexedVector.cpp 1448 2011-06-19 15:34:41Z stefan $ */
// Copyright (C) 2000, International Business Machines
// Corporation and others.  All Rights Reserved.
// This code is licensed under the terms of the Eclipse Public License (EPL).

#if defined(_MSC_VER)
// Turn off compiler warning about long names
#  pragma warning(disable:4786)
#endif

#include <cassert>
#include <cstdio>

#include "CoinTypes.hpp"
#include "CoinFloatEqual.hpp"
#include "CoinHelperFunctions.hpp"
#include "CoinIndexedVector.hpp"
#include "CoinTypes.hpp"
//#############################################################################

void
CoinIndexedVector::clear()
{
  if (!packedMode_) {
    if (3*nElements_<capacity_) {
      int i=0;
      if ((nElements_&1)!=0) {
	elements_[indices_[0]]=0.0;
	i=1;
      }
      for (;i<nElements_;i+=2) {
	int i0 = indices_[i];
	int i1 = indices_[i+1];
	elements_[i0]=0.0;
	elements_[i1]=0.0;
      }
    } else {
      CoinZeroN(elements_,capacity_);
    }
  } else {
    CoinZeroN(elements_,nElements_);
  }
  nElements_ = 0;
  packedMode_=false;
  //checkClear();
}

//#############################################################################

void
CoinIndexedVector::empty()
{
  delete [] indices_;
  indices_=NULL;
  if (elements_)
    delete [] (elements_-offset_);
  elements_=NULL;
  nElements_ = 0;
  capacity_=0;
  packedMode_=false;
}

//#############################################################################

CoinIndexedVector &
CoinIndexedVector::operator=(const CoinIndexedVector & rhs)
{
  if (this != &rhs) {
    clear();
    packedMode_=rhs.packedMode_;
    if (!packedMode_)
      gutsOfSetVector(rhs.capacity_,rhs.nElements_,
		      rhs.indices_, rhs.elements_);
    else
      gutsOfSetPackedVector(rhs.capacity_,rhs.nElements_,
		      rhs.indices_, rhs.elements_);
  }
  return *this;
}
/* Copy the contents of one vector into another.  If multiplier is 1
   It is the equivalent of = but if vectors are same size does
   not re-allocate memory just clears and copies */
void
CoinIndexedVector::copy(const CoinIndexedVector & rhs, double multiplier)
{
  if (capacity_==rhs.capacity_) {
    // can do fast
    clear();
    packedMode_=rhs.packedMode_;
    nElements_=0;
    if (!packedMode_) {
      for (int i=0;i<rhs.nElements_;i++) {
        int index = rhs.indices_[i];
        double value = rhs.elements_[index]*multiplier;
        if (fabs(value)<COIN_INDEXED_TINY_ELEMENT)
          value = COIN_INDEXED_REALLY_TINY_ELEMENT;
        elements_[index]=value;
        indices_[nElements_++]=index;
      }
    } else {
      for (int i=0;i<rhs.nElements_;i++) {
        int index = rhs.indices_[i];
        double value = rhs.elements_[i]*multiplier;
        if (fabs(value)<COIN_INDEXED_TINY_ELEMENT)
          value = COIN_INDEXED_REALLY_TINY_ELEMENT;
        elements_[nElements_]=value;
        indices_[nElements_++]=index;
      }
    }
  } else {
    // do as two operations
    *this = rhs;
    (*this) *= multiplier;
  }
}

//#############################################################################
#ifndef CLP_NO_VECTOR
CoinIndexedVector &
CoinIndexedVector::operator=(const CoinPackedVectorBase & rhs)
{
  clear();
  packedMode_=false;
  gutsOfSetVector(rhs.getNumElements(),
			    rhs.getIndices(), rhs.getElements());
  return *this;
}
#endif
//#############################################################################

void
CoinIndexedVector::borrowVector(int size, int numberIndices, int* inds, double* elems)
{
  empty();
  capacity_=size;
  nElements_ = numberIndices;
  indices_ = inds;
  elements_ = elems;

  // whole point about borrowvector is that it is lightweight so no testing is done
}

//#############################################################################

void
CoinIndexedVector::returnVector()
{
  indices_=NULL;
  elements_=NULL;
  nElements_ = 0;
  capacity_=0;
  packedMode_=false;
}

//#############################################################################

void
CoinIndexedVector::setVector(int size, const int * inds, const double * elems)
{
  clear();
  gutsOfSetVector(size, inds, elems);
}
//#############################################################################


void
CoinIndexedVector::setVector(int size, int numberIndices, const int * inds, const double * elems)
{
  clear();
  gutsOfSetVector(size, numberIndices, inds, elems);
}
//#############################################################################

void
CoinIndexedVector::setConstant(int size, const int * inds, double value)
{
  clear();
  gutsOfSetConstant(size, inds, value);
}

//#############################################################################

void
CoinIndexedVector::setFull(int size, const double * elems)
{
  // Clear out any values presently stored
  clear();

#ifndef COIN_FAST_CODE
  if (size<0)
    throw CoinError("negative number of indices", "setFull", "CoinIndexedVector");
#endif
  reserve(size);
  nElements_ = 0;
  // elements_ array is all zero
  int i;
  for (i=0;i<size;i++) {
    int indexValue=i;
    if (fabs(elems[i])>=COIN_INDEXED_TINY_ELEMENT) {
      elements_[indexValue]=elems[i];
      indices_[nElements_++]=indexValue;
    }
  }
}
//#############################################################################

/** Access the i'th element of the full storage vector.  */
double &
CoinIndexedVector::operator[](int index) const
{
  assert (!packedMode_);
#ifndef COIN_FAST_CODE
  if ( index >= capacity_ )
    throw CoinError("index >= capacity()", "[]", "CoinIndexedVector");
  if ( index < 0 )
    throw CoinError("index < 0" , "[]", "CoinIndexedVector");
#endif
  double * where = elements_ + index;
  return *where;

}
//#############################################################################

void
CoinIndexedVector::setElement(int index, double element)
{
#ifndef COIN_FAST_CODE
  if ( index >= nElements_ )
    throw CoinError("index >= size()", "setElement", "CoinIndexedVector");
  if ( index < 0 )
    throw CoinError("index < 0" , "setElement", "CoinIndexedVector");
#endif
  elements_[indices_[index]] = element;
}

//#############################################################################

void
CoinIndexedVector::insert( int index, double element )
{
#ifndef COIN_FAST_CODE
  if ( index < 0 )
    throw CoinError("index < 0" , "setElement", "CoinIndexedVector");
#endif
  if (index >= capacity_)
    reserve(index+1);
#ifndef COIN_FAST_CODE
  if (elements_[index])
    throw CoinError("Index already exists", "insert", "CoinIndexedVector");
#endif
  indices_[nElements_++] = index;
  elements_[index] = element;
}

//#############################################################################

void
CoinIndexedVector::add( int index, double element )
{
#ifndef COIN_FAST_CODE
  if ( index < 0 )
    throw CoinError("index < 0" , "setElement", "CoinIndexedVector");
#endif
  if (index >= capacity_)
    reserve(index+1);
  if (elements_[index]) {
    element += elements_[index];
    if (fabs(element)>= COIN_INDEXED_TINY_ELEMENT) {
      elements_[index] = element;
    } else {
      elements_[index] = COIN_INDEXED_REALLY_TINY_ELEMENT;
    }
  } else if (fabs(element)>= COIN_INDEXED_TINY_ELEMENT) {
    indices_[nElements_++] = index;
    assert (nElements_<=capacity_);
    elements_[index] = element;
   }
}

//#############################################################################

int
CoinIndexedVector::clean( double tolerance )
{
  int number = nElements_;
  int i;
  nElements_=0;
  assert(!packedMode_);
  for (i=0;i<number;i++) {
    int indexValue = indices_[i];
    if (fabs(elements_[indexValue])>=tolerance) {
      indices_[nElements_++]=indexValue;
    } else {
      elements_[indexValue]=0.0;
    }
  }
  return nElements_;
}

//#############################################################################
// For debug check vector is clear i.e. no elements
void CoinIndexedVector::checkClear()
{
#ifndef NDEBUG
  assert(!nElements_);
  assert(!packedMode_);
  int i;
  for (i=0;i<capacity_;i++) {
    assert(!elements_[i]);
  }
  // check mark array zeroed
  char * mark = reinterpret_cast<char *> (indices_+capacity_);
  for (i=0;i<capacity_;i++) {
    assert(!mark[i]);
  }
#else
  if(nElements_) {
    printf("%d nElements_ - checkClear\n",nElements_);
    abort();
  }
  if(packedMode_) {
    printf("packed mode when empty - checkClear\n");
    abort();
  }
  int i;
  int n=0;
  int k=-1;
  for (i=0;i<capacity_;i++) {
    if(elements_[i]) {
      n++;
      if (k<0)
	k=i;
    }
  }
  if(n) {
    printf("%d elements, first %d - checkClear\n",n,k);
    abort();
  }
#endif
}
// For debug check vector is clean i.e. elements match indices
void CoinIndexedVector::checkClean()
{
  int i;
  if (packedMode_) {
    for (i=0;i<nElements_;i++)
      assert(elements_[i]);
    for (;i<capacity_;i++)
      assert(!elements_[i]);
  } else {
    double * copy = new double[capacity_];
    CoinMemcpyN(elements_,capacity_,copy);
    for (i=0;i<nElements_;i++) {
      int indexValue = indices_[i];
      copy[indexValue]=0.0;
    }
    for (i=0;i<capacity_;i++)
      assert(!copy[i]);
    delete [] copy;
  }
#ifndef NDEBUG
  // check mark array zeroed
  char * mark = reinterpret_cast<char *> (indices_+capacity_);
  for (i=0;i<capacity_;i++) {
    assert(!mark[i]);
  }
#endif
}

//#############################################################################
#ifndef CLP_NO_VECTOR
void
CoinIndexedVector::append(const CoinPackedVectorBase & caboose)
{
  const int cs = caboose.getNumElements();

  const int * cind = caboose.getIndices();
  const double * celem = caboose.getElements();
  int maxIndex=-1;
  int i;
  for (i=0;i<cs;i++) {
    int indexValue = cind[i];
    if (indexValue<0)
      throw CoinError("negative index", "append", "CoinIndexedVector");
    if (maxIndex<indexValue)
      maxIndex = indexValue;
  }
  reserve(maxIndex+1);
  bool needClean=false;
  int numberDuplicates=0;
  for (i=0;i<cs;i++) {
    int indexValue=cind[i];
    if (elements_[indexValue]) {
      numberDuplicates++;
      elements_[indexValue] += celem[i] ;
      if (fabs(elements_[indexValue])<COIN_INDEXED_TINY_ELEMENT)
	needClean=true; // need to go through again
    } else {
      if (fabs(celem[i])>=COIN_INDEXED_TINY_ELEMENT) {
	elements_[indexValue]=celem[i];
	indices_[nElements_++]=indexValue;
      }
    }
  }
  if (needClean) {
    // go through again
    int size=nElements_;
    nElements_=0;
    for (i=0;i<size;i++) {
      int indexValue=indices_[i];
      double value=elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	indices_[nElements_++]=indexValue;
      } else {
        elements_[indexValue]=0.0;
      }
    }
  }
  if (numberDuplicates)
    throw CoinError("duplicate index", "append", "CoinIndexedVector");
}
#endif
//#############################################################################

void
CoinIndexedVector::swap(int i, int j)
{
  if ( i >= nElements_ )
    throw CoinError("index i >= size()","swap","CoinIndexedVector");
  if ( i < 0 )
    throw CoinError("index i < 0" ,"swap","CoinIndexedVector");
  if ( j >= nElements_ )
    throw CoinError("index j >= size()","swap","CoinIndexedVector");
  if ( j < 0 )
    throw CoinError("index j < 0" ,"swap","CoinIndexedVector");

  // Swap positions i and j of the
  // indices array

  int isave = indices_[i];
  indices_[i] = indices_[j];
  indices_[j] = isave;
}

//#############################################################################

void
CoinIndexedVector::truncate( int n )
{
  reserve(n);
}

//#############################################################################

void
CoinIndexedVector::operator+=(double value)
{
  assert (!packedMode_);
  int i,indexValue;
  for (i=0;i<nElements_;i++) {
    indexValue = indices_[i];
    double newValue = elements_[indexValue] + value;
    if (fabs(newValue)>=COIN_INDEXED_TINY_ELEMENT)
      elements_[indexValue] = newValue;
    else
      elements_[indexValue] = COIN_INDEXED_REALLY_TINY_ELEMENT;
  }
}

//-----------------------------------------------------------------------------

void
CoinIndexedVector::operator-=(double value)
{
  assert (!packedMode_);
  int i,indexValue;
  for (i=0;i<nElements_;i++) {
    indexValue = indices_[i];
    double newValue = elements_[indexValue] - value;
    if (fabs(newValue)>=COIN_INDEXED_TINY_ELEMENT)
      elements_[indexValue] = newValue;
    else
      elements_[indexValue] = COIN_INDEXED_REALLY_TINY_ELEMENT;
  }
}

//-----------------------------------------------------------------------------

void
CoinIndexedVector::operator*=(double value)
{
  assert (!packedMode_);
  int i,indexValue;
  for (i=0;i<nElements_;i++) {
    indexValue = indices_[i];
    double newValue = elements_[indexValue] * value;
    if (fabs(newValue)>=COIN_INDEXED_TINY_ELEMENT)
      elements_[indexValue] = newValue;
    else
      elements_[indexValue] = COIN_INDEXED_REALLY_TINY_ELEMENT;
  }
}

//-----------------------------------------------------------------------------

void
CoinIndexedVector::operator/=(double value)
{
  assert (!packedMode_);
  int i,indexValue;
  for (i=0;i<nElements_;i++) {
    indexValue = indices_[i];
    double newValue = elements_[indexValue] / value;
    if (fabs(newValue)>=COIN_INDEXED_TINY_ELEMENT)
      elements_[indexValue] = newValue;
    else
      elements_[indexValue] = COIN_INDEXED_REALLY_TINY_ELEMENT;
  }
}
//#############################################################################

void
CoinIndexedVector::reserve(int n)
{
  int i;
  // don't make allocated space smaller but do take off values
  if ( n < capacity_ ) {
#ifndef COIN_FAST_CODE
    if (n<0)
      throw CoinError("negative capacity", "reserve", "CoinIndexedVector");
#endif
    int nNew=0;
    for (i=0;i<nElements_;i++) {
      int indexValue=indices_[i];
      if (indexValue<n) {
        indices_[nNew++]=indexValue;
      } else {
        elements_[indexValue]=0.0;
      }
    }
    nElements_=nNew;
  } else if (n>capacity_) {

    // save pointers to existing data
    int * tempIndices = indices_;
    double * tempElements = elements_;
    double * delTemp = elements_-offset_;

    // allocate new space
    int nPlus;
    if (sizeof(int)==4*sizeof(char))
      nPlus=(n+3)>>2;
    else
      nPlus=(n+7)>>4;
    indices_ = new int [n+nPlus];
    CoinZeroN(indices_+n,nPlus);
    // align on 64 byte boundary
    double * temp = new double [n+7];
    offset_ = 0;
    CoinInt64 xx = reinterpret_cast<CoinInt64>(temp);
    int iBottom = static_cast<int>(xx & 63);
    if (iBottom)
      offset_ = (64-iBottom)>>3;
    elements_ = temp + offset_;;

    // copy data to new space
    // and zero out part of array
    if (nElements_ > 0) {
      CoinMemcpyN(tempIndices, nElements_, indices_);
      CoinMemcpyN(tempElements, capacity_, elements_);
      CoinZeroN(elements_+capacity_,n-capacity_);
    } else {
      CoinZeroN(elements_,n);
    }
    capacity_ = n;

    // free old data
    if (tempElements)
      delete [] delTemp;
    delete [] tempIndices;
  }
}

//#############################################################################

CoinIndexedVector::CoinIndexedVector () :
indices_(NULL),
elements_(NULL),
nElements_(0),
capacity_(0),
offset_(0),
packedMode_(false)
{
}


CoinIndexedVector::CoinIndexedVector (int size) :
indices_(NULL),
elements_(NULL),
nElements_(0),
capacity_(0),
offset_(0),
packedMode_(false)
{
  // Get space
  reserve(size);
}

//-----------------------------------------------------------------------------

CoinIndexedVector::CoinIndexedVector(int size,
				     const int * inds, const double * elems)  :
  indices_(NULL),
  elements_(NULL),
  nElements_(0),
  capacity_(0),
  offset_(0),
  packedMode_(false)
{
  gutsOfSetVector(size, inds, elems);
}

//-----------------------------------------------------------------------------

CoinIndexedVector::CoinIndexedVector(int size,
  const int * inds, double value) :
indices_(NULL),
elements_(NULL),
nElements_(0),
capacity_(0),
offset_(0),
packedMode_(false)
{
gutsOfSetConstant(size, inds, value);
}

//-----------------------------------------------------------------------------

CoinIndexedVector::CoinIndexedVector(int size, const double * element) :
indices_(NULL),
elements_(NULL),
nElements_(0),
capacity_(0),
offset_(0),
packedMode_(false)
{
  setFull(size, element);
}

//-----------------------------------------------------------------------------
#ifndef CLP_NO_VECTOR
CoinIndexedVector::CoinIndexedVector(const CoinPackedVectorBase & rhs) :
indices_(NULL),
elements_(NULL),
nElements_(0),
capacity_(0),
offset_(0),
packedMode_(false)
{
  gutsOfSetVector(rhs.getNumElements(),
			    rhs.getIndices(), rhs.getElements());
}
#endif
//-----------------------------------------------------------------------------

CoinIndexedVector::CoinIndexedVector(const CoinIndexedVector & rhs) :
indices_(NULL),
elements_(NULL),
nElements_(0),
capacity_(0),
offset_(0),
packedMode_(false)
{
  if (!rhs.packedMode_)
    gutsOfSetVector(rhs.capacity_,rhs.nElements_, rhs.indices_, rhs.elements_);
  else
    gutsOfSetPackedVector(rhs.capacity_,rhs.nElements_, rhs.indices_, rhs.elements_);
}

//-----------------------------------------------------------------------------

CoinIndexedVector::CoinIndexedVector(const CoinIndexedVector * rhs) :
indices_(NULL),
elements_(NULL),
nElements_(0),
capacity_(0),
offset_(0),
packedMode_(false)
{
  if (!rhs->packedMode_)
    gutsOfSetVector(rhs->capacity_,rhs->nElements_, rhs->indices_, rhs->elements_);
  else
    gutsOfSetPackedVector(rhs->capacity_,rhs->nElements_, rhs->indices_, rhs->elements_);
}

//-----------------------------------------------------------------------------

CoinIndexedVector::~CoinIndexedVector ()
{
  delete [] indices_;
  if (elements_)
    delete [] (elements_-offset_);
}
//#############################################################################
//#############################################################################

/// Return the sum of two indexed vectors
CoinIndexedVector
CoinIndexedVector::operator+(
                            const CoinIndexedVector& op2)
{
  assert (!packedMode_);
  int i;
  int nElements=nElements_;
  int capacity = CoinMax(capacity_,op2.capacity_);
  CoinIndexedVector newOne(*this);
  newOne.reserve(capacity);
  bool needClean=false;
  // new one now can hold everything so just modify old and add new
  for (i=0;i<op2.nElements_;i++) {
    int indexValue=op2.indices_[i];
    double value=op2.elements_[indexValue];
    double oldValue=elements_[indexValue];
    if (!oldValue) {
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	newOne.elements_[indexValue]=value;
	newOne.indices_[nElements++]=indexValue;
      }
    } else {
      value += oldValue;
      newOne.elements_[indexValue]=value;
      if (fabs(value)<COIN_INDEXED_TINY_ELEMENT) {
	needClean=true;
      }
    }
  }
  newOne.nElements_=nElements;
  if (needClean) {
    // go through again
    newOne.nElements_=0;
    for (i=0;i<nElements;i++) {
      int indexValue=newOne.indices_[i];
      double value=newOne.elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	newOne.indices_[newOne.nElements_++]=indexValue;
      } else {
        newOne.elements_[indexValue]=0.0;
      }
    }
  }
  return newOne;
}

/// Return the difference of two indexed vectors
CoinIndexedVector
CoinIndexedVector::operator-(
                            const CoinIndexedVector& op2)
{
  assert (!packedMode_);
  int i;
  int nElements=nElements_;
  int capacity = CoinMax(capacity_,op2.capacity_);
  CoinIndexedVector newOne(*this);
  newOne.reserve(capacity);
  bool needClean=false;
  // new one now can hold everything so just modify old and add new
  for (i=0;i<op2.nElements_;i++) {
    int indexValue=op2.indices_[i];
    double value=op2.elements_[indexValue];
    double oldValue=elements_[indexValue];
    if (!oldValue) {
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	newOne.elements_[indexValue]=-value;
	newOne.indices_[nElements++]=indexValue;
      }
    } else {
      value = oldValue-value;
      newOne.elements_[indexValue]=value;
      if (fabs(value)<COIN_INDEXED_TINY_ELEMENT) {
	needClean=true;
      }
    }
  }
  newOne.nElements_=nElements;
  if (needClean) {
    // go through again
    newOne.nElements_=0;
    for (i=0;i<nElements;i++) {
      int indexValue=newOne.indices_[i];
      double value=newOne.elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	newOne.indices_[newOne.nElements_++]=indexValue;
      } else {
        newOne.elements_[indexValue]=0.0;
      }
    }
  }
  return newOne;
}

/// Return the element-wise product of two indexed vectors
CoinIndexedVector
CoinIndexedVector::operator*(
                            const CoinIndexedVector& op2)
{
  assert (!packedMode_);
  int i;
  int nElements=nElements_;
  int capacity = CoinMax(capacity_,op2.capacity_);
  CoinIndexedVector newOne(*this);
  newOne.reserve(capacity);
  bool needClean=false;
  // new one now can hold everything so just modify old and add new
  for (i=0;i<op2.nElements_;i++) {
    int indexValue=op2.indices_[i];
    double value=op2.elements_[indexValue];
    double oldValue=elements_[indexValue];
    if (oldValue) {
      value *= oldValue;
      newOne.elements_[indexValue]=value;
      if (fabs(value)<COIN_INDEXED_TINY_ELEMENT) {
	needClean=true;
      }
    }
  }

  newOne.nElements_=nElements;

  if (needClean) {
    // go through again
    newOne.nElements_=0;
    for (i=0;i<nElements;i++) {
      int indexValue=newOne.indices_[i];
      double value=newOne.elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	newOne.indices_[newOne.nElements_++]=indexValue;
      } else {
        newOne.elements_[indexValue]=0.0;
      }
    }
  }
  return newOne;
}

/// Return the element-wise ratio of two indexed vectors
CoinIndexedVector
CoinIndexedVector::operator/ (const CoinIndexedVector& op2)
{
  assert (!packedMode_);
  // I am treating 0.0/0.0 as 0.0
  int i;
  int nElements=nElements_;
  int capacity = CoinMax(capacity_,op2.capacity_);
  CoinIndexedVector newOne(*this);
  newOne.reserve(capacity);
  bool needClean=false;
  // new one now can hold everything so just modify old and add new
  for (i=0;i<op2.nElements_;i++) {
    int indexValue=op2.indices_[i];
    double value=op2.elements_[indexValue];
    double oldValue=elements_[indexValue];
    if (oldValue) {
      if (!value)
        throw CoinError("zero divisor", "/", "CoinIndexedVector");
      value = oldValue/value;
      newOne.elements_[indexValue]=value;
      if (fabs(value)<COIN_INDEXED_TINY_ELEMENT) {
	needClean=true;
      }
    }
  }

  newOne.nElements_=nElements;

  if (needClean) {
    // go through again
    newOne.nElements_=0;
    for (i=0;i<nElements;i++) {
      int indexValue=newOne.indices_[i];
      double value=newOne.elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	newOne.indices_[newOne.nElements_++]=indexValue;
      } else {
        newOne.elements_[indexValue]=0.0;
      }
    }
  }
  return newOne;
}
// The sum of two indexed vectors
void
CoinIndexedVector::operator+=(const CoinIndexedVector& op2)
{
  // do slowly at first
  *this = *this + op2;
}

// The difference of two indexed vectors
void
CoinIndexedVector::operator-=( const CoinIndexedVector& op2)
{
  // do slowly at first
  *this = *this - op2;
}

// The element-wise product of two indexed vectors
void
CoinIndexedVector::operator*=(const CoinIndexedVector& op2)
{
  // do slowly at first
  *this = *this * op2;
}

// The element-wise ratio of two indexed vectors (0.0/0.0 => 0.0) (0 vanishes)
void
CoinIndexedVector::operator/=(const CoinIndexedVector& op2)
{
  // do slowly at first
  *this = *this / op2;
}
//#############################################################################
void
CoinIndexedVector::sortDecrIndex()
{
  // Should replace with std sort
  double * elements = new double [nElements_];
  CoinZeroN (elements,nElements_);
  CoinSort_2(indices_, indices_ + nElements_, elements,
	     CoinFirstGreater_2<int, double>());
  delete [] elements;
}

void
CoinIndexedVector::sortIncrElement()
{
  double * elements = new double [nElements_];
  int i;
  for (i=0;i<nElements_;i++)
    elements[i] = elements_[indices_[i]];
  CoinSort_2(elements, elements + nElements_, indices_,
    CoinFirstLess_2<double, int>());
  delete [] elements;
}

void
CoinIndexedVector::sortDecrElement()
{
  double * elements = new double [nElements_];
  int i;
  for (i=0;i<nElements_;i++)
    elements[i] = elements_[indices_[i]];
  CoinSort_2(elements, elements + nElements_, indices_,
    CoinFirstGreater_2<double, int>());
  delete [] elements;
}
//#############################################################################

void
CoinIndexedVector::gutsOfSetVector(int size,
				   const int * inds, const double * elems)
{
#ifndef COIN_FAST_CODE
  if (size<0)
    throw CoinError("negative number of indices", "setVector", "CoinIndexedVector");
#endif
  assert(!packedMode_);
  // find largest
  int i;
  int maxIndex=-1;
  for (i=0;i<size;i++) {
    int indexValue = inds[i];
#ifndef COIN_FAST_CODE
    if (indexValue<0)
      throw CoinError("negative index", "setVector", "CoinIndexedVector");
#endif
    if (maxIndex<indexValue)
      maxIndex = indexValue;
  }
  reserve(maxIndex+1);
  nElements_ = 0;
  // elements_ array is all zero
  bool needClean=false;
  int numberDuplicates=0;
  for (i=0;i<size;i++) {
    int indexValue=inds[i];
    if (elements_[indexValue] == 0)
    {
      if (fabs(elems[i])>=COIN_INDEXED_TINY_ELEMENT) {
	indices_[nElements_++]=indexValue;
	elements_[indexValue]=elems[i];
      }
    }
    else
    {
      numberDuplicates++;
      elements_[indexValue] += elems[i] ;
      if (fabs(elements_[indexValue])<COIN_INDEXED_TINY_ELEMENT)
	needClean=true; // need to go through again
    }
  }
  if (needClean) {
    // go through again
    size=nElements_;
    nElements_=0;
    for (i=0;i<size;i++) {
      int indexValue=indices_[i];
      double value=elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	indices_[nElements_++]=indexValue;
      } else {
        elements_[indexValue]=0.0;
      }
    }
  }
  if (numberDuplicates)
    throw CoinError("duplicate index", "setVector", "CoinIndexedVector");
}

//#############################################################################

void
CoinIndexedVector::gutsOfSetVector(int size, int numberIndices,
				   const int * inds, const double * elems)
{
  assert(!packedMode_);

  int i;
  reserve(size);
#ifndef COIN_FAST_CODE
  if (numberIndices<0)
    throw CoinError("negative number of indices", "setVector", "CoinIndexedVector");
#endif
  nElements_ = 0;
  // elements_ array is all zero
  bool needClean=false;
  int numberDuplicates=0;
  for (i=0;i<numberIndices;i++) {
    int indexValue=inds[i];
#ifndef COIN_FAST_CODE
    if (indexValue<0)
      throw CoinError("negative index", "setVector", "CoinIndexedVector");
    else if (indexValue>=size)
      throw CoinError("too large an index", "setVector", "CoinIndexedVector");
#endif
    if (elements_[indexValue]) {
      numberDuplicates++;
      elements_[indexValue] += elems[indexValue] ;
      if (fabs(elements_[indexValue])<COIN_INDEXED_TINY_ELEMENT)
	needClean=true; // need to go through again
    } else {
      if (fabs(elems[indexValue])>=COIN_INDEXED_TINY_ELEMENT) {
	elements_[indexValue]=elems[indexValue];
	indices_[nElements_++]=indexValue;
      }
    }
  }
  if (needClean) {
    // go through again
    size=nElements_;
    nElements_=0;
    for (i=0;i<size;i++) {
      int indexValue=indices_[i];
      double value=elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	indices_[nElements_++]=indexValue;
      } else {
        elements_[indexValue]=0.0;
      }
    }
  }
  if (numberDuplicates)
    throw CoinError("duplicate index", "setVector", "CoinIndexedVector");
}

//-----------------------------------------------------------------------------

void
CoinIndexedVector::gutsOfSetPackedVector(int size, int numberIndices,
				   const int * inds, const double * elems)
{
  packedMode_=true;

  int i;
  reserve(size);
#ifndef COIN_FAST_CODE
  if (numberIndices<0)
    throw CoinError("negative number of indices", "setVector", "CoinIndexedVector");
#endif
  nElements_ = 0;
  // elements_ array is all zero
  // Does not check for duplicates
  for (i=0;i<numberIndices;i++) {
    int indexValue=inds[i];
#ifndef COIN_FAST_CODE
    if (indexValue<0)
      throw CoinError("negative index", "setVector", "CoinIndexedVector");
    else if (indexValue>=size)
      throw CoinError("too large an index", "setVector", "CoinIndexedVector");
#endif
    if (fabs(elems[i])>=COIN_INDEXED_TINY_ELEMENT) {
      elements_[nElements_]=elems[i];
      indices_[nElements_++]=indexValue;
    }
  }
}

//-----------------------------------------------------------------------------

void
CoinIndexedVector::gutsOfSetConstant(int size,
				     const int * inds, double value)
{

  assert(!packedMode_);
#ifndef COIN_FAST_CODE
  if (size<0)
    throw CoinError("negative number of indices", "setConstant", "CoinIndexedVector");
#endif
  // find largest
  int i;
  int maxIndex=-1;
  for (i=0;i<size;i++) {
    int indexValue = inds[i];
#ifndef COIN_FAST_CODE
    if (indexValue<0)
      throw CoinError("negative index", "setConstant", "CoinIndexedVector");
#endif
    if (maxIndex<indexValue)
      maxIndex = indexValue;
  }

  reserve(maxIndex+1);
  nElements_ = 0;
  int numberDuplicates=0;
  // elements_ array is all zero
  bool needClean=false;
  for (i=0;i<size;i++) {
    int indexValue=inds[i];
    if (elements_[indexValue] == 0)
    {
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	elements_[indexValue] += value;
	indices_[nElements_++]=indexValue;
      }
    }
    else
    {
      numberDuplicates++;
      elements_[indexValue] += value ;
      if (fabs(elements_[indexValue])<COIN_INDEXED_TINY_ELEMENT)
	needClean=true; // need to go through again
    }
  }
  if (needClean) {
    // go through again
    size=nElements_;
    nElements_=0;
    for (i=0;i<size;i++) {
      int indexValue=indices_[i];
      double value=elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	indices_[nElements_++]=indexValue;
      } else {
        elements_[indexValue]=0.0;
      }
    }
  }
  if (numberDuplicates)
    throw CoinError("duplicate index", "setConstant", "CoinIndexedVector");
}

//#############################################################################
// Append a CoinIndexedVector to the end
void
CoinIndexedVector::append(const CoinIndexedVector & caboose)
{
  const int cs = caboose.getNumElements();

  const int * cind = caboose.getIndices();
  const double * celem = caboose.denseVector();
  int maxIndex=-1;
  int i;
  for (i=0;i<cs;i++) {
    int indexValue = cind[i];
#ifndef COIN_FAST_CODE
    if (indexValue<0)
      throw CoinError("negative index", "append", "CoinIndexedVector");
#endif
    if (maxIndex<indexValue)
      maxIndex = indexValue;
  }
  reserve(maxIndex+1);
  bool needClean=false;
  int numberDuplicates=0;
  for (i=0;i<cs;i++) {
    int indexValue=cind[i];
    if (elements_[indexValue]) {
      numberDuplicates++;
      elements_[indexValue] += celem[indexValue] ;
      if (fabs(elements_[indexValue])<COIN_INDEXED_TINY_ELEMENT)
	needClean=true; // need to go through again
    } else {
      if (fabs(celem[indexValue])>=COIN_INDEXED_TINY_ELEMENT) {
	elements_[indexValue]=celem[indexValue];
	indices_[nElements_++]=indexValue;
      }
    }
  }
  if (needClean) {
    // go through again
    int size=nElements_;
    nElements_=0;
    for (i=0;i<size;i++) {
      int indexValue=indices_[i];
      double value=elements_[indexValue];
      if (fabs(value)>=COIN_INDEXED_TINY_ELEMENT) {
	indices_[nElements_++]=indexValue;
      } else {
        elements_[indexValue]=0.0;
      }
    }
  }
  if (numberDuplicates)
    throw CoinError("duplicate index", "append", "CoinIndexedVector");
}
#ifndef CLP_NO_VECTOR
/* Equal. Returns true if vectors have same length and corresponding
   element of each vector is equal. */
bool
CoinIndexedVector::operator==(const CoinPackedVectorBase & rhs) const
{
  const int cs = rhs.getNumElements();

  const int * cind = rhs.getIndices();
  const double * celem = rhs.getElements();
  if (nElements_!=cs)
    return false;
  int i;
  bool okay=true;
  for (i=0;i<cs;i++) {
    int iRow = cind[i];
    if (celem[i]!=elements_[iRow]) {
      okay=false;
      break;
    }
  }
  return okay;
}
// Not equal
bool
CoinIndexedVector::operator!=(const CoinPackedVectorBase & rhs) const
{
  const int cs = rhs.getNumElements();

  const int * cind = rhs.getIndices();
  const double * celem = rhs.getElements();
  if (nElements_!=cs)
    return true;
  int i;
  bool okay=false;
  for (i=0;i<cs;i++) {
    int iRow = cind[i];
    if (celem[i]!=elements_[iRow]) {
      okay=true;
      break;
    }
  }
  return okay;
}
#endif
/* Equal. Returns true if vectors have same length and corresponding
   element of each vector is equal. */
bool
CoinIndexedVector::operator==(const CoinIndexedVector & rhs) const
{
  const int cs = rhs.nElements_;

  const int * cind = rhs.indices_;
  const double * celem = rhs.elements_;
  if (nElements_!=cs)
    return false;
  int i;
  bool okay=true;
  CoinRelFltEq eq(1.0e-8);
  for (i=0;i<cs;i++) {
    int iRow = cind[i];
    if (!eq(celem[iRow],elements_[iRow])) {
      okay=false;
      break;
    }
  }
  return okay;
}
/// Not equal
bool
CoinIndexedVector::operator!=(const CoinIndexedVector & rhs) const
{
  const int cs = rhs.nElements_;

  const int * cind = rhs.indices_;
  const double * celem = rhs.elements_;
  if (nElements_!=cs)
    return true;
  int i;
  bool okay=false;
  for (i=0;i<cs;i++) {
    int iRow = cind[i];
    if (celem[iRow]!=elements_[iRow]) {
      okay=true;
      break;
    }
  }
  return okay;
}
// Get value of maximum index
int
CoinIndexedVector::getMaxIndex() const
{
  int maxIndex = -COIN_INT_MAX;
  int i;
  for (i=0;i<nElements_;i++)
    maxIndex = CoinMax(maxIndex,indices_[i]);
  return maxIndex;
}
// Get value of minimum index
int
CoinIndexedVector::getMinIndex() const
{
  int minIndex = COIN_INT_MAX;
  int i;
  for (i=0;i<nElements_;i++)
    minIndex = CoinMin(minIndex,indices_[i]);
  return minIndex;
}
// Scan dense region and set up indices
int
CoinIndexedVector::scan()
{
  nElements_=0;
  return scan(0,capacity_);
}
// Scan dense region from start to < end and set up indices
int
CoinIndexedVector::scan(int start, int end)
{
  assert(!packedMode_);
  end = CoinMin(end,capacity_);
  start = CoinMax(start,0);
  int i;
  int number = 0;
  int * indices = indices_+nElements_;
  for (i=start;i<end;i++)
    if (elements_[i])
      indices[number++] = i;
  nElements_ += number;
  return number;
}
// Scan dense region and set up indices with tolerance
int
CoinIndexedVector::scan(double tolerance)
{
  nElements_=0;
  return scan(0,capacity_,tolerance);
}
// Scan dense region from start to < end and set up indices with tolerance
int
CoinIndexedVector::scan(int start, int end, double tolerance)
{
  assert(!packedMode_);
  end = CoinMin(end,capacity_);
  start = CoinMax(start,0);
  int i;
  int number = 0;
  int * indices = indices_+nElements_;
  for (i=start;i<end;i++) {
    double value = elements_[i];
    if (value) {
      if (fabs(value)>=tolerance)
	indices[number++] = i;
      else
	elements_[i]=0.0;
    }
  }
  nElements_ += number;
  return number;
}
// These pack down
int
CoinIndexedVector::cleanAndPack( double tolerance )
{
  int number = nElements_;
  int i;
  nElements_=0;
  assert(!packedMode_);
  for (i=0;i<number;i++) {
    int indexValue = indices_[i];
    double value = elements_[indexValue];
    elements_[indexValue]=0.0;
    if (fabs(value)>=tolerance) {
      elements_[nElements_]=value;
      indices_[nElements_++]=indexValue;
    }
  }
  packedMode_=true;
  return nElements_;
}
// These pack down
int
CoinIndexedVector::cleanAndPackSafe( double tolerance )
{
  int number = nElements_;
  if (number) {
    int i;
    nElements_=0;
    assert(!packedMode_);
    double * temp=NULL;
    bool gotMemory;
    if (number*3<capacity_-3-9999999) {
      // can find room without new
      gotMemory=false;
      // But may need to align on 8 byte boundary
      char * tempC = reinterpret_cast<char *> (indices_+number);
      CoinInt64 xx = reinterpret_cast<CoinInt64>(tempC);
      CoinInt64 iBottom = xx & 7;
      if (iBottom)
	tempC += 8-iBottom;
      temp = reinterpret_cast<double *> (tempC);
      xx = reinterpret_cast<CoinInt64>(temp);
      iBottom = xx & 7;
      assert(!iBottom);
    } else {
      // might be better to do complete scan
      gotMemory=true;
      temp = new double[number];
    }
    for (i=0;i<number;i++) {
      int indexValue = indices_[i];
      double value = elements_[indexValue];
      elements_[indexValue]=0.0;
      if (fabs(value)>=tolerance) {
	temp[nElements_]=value;
	indices_[nElements_++]=indexValue;
      }
    }
    CoinMemcpyN(temp,nElements_,elements_);
    if (gotMemory)
      delete [] temp;
    packedMode_=true;
  }
  return nElements_;
}
// Scan dense region and set up indices
int
CoinIndexedVector::scanAndPack()
{
  nElements_=0;
  return scanAndPack(0,capacity_);
}
// Scan dense region from start to < end and set up indices
int
CoinIndexedVector::scanAndPack(int start, int end)
{
  assert(!packedMode_);
  end = CoinMin(end,capacity_);
  start = CoinMax(start,0);
  int i;
  int number = 0;
  int * indices = indices_+nElements_;
  for (i=start;i<end;i++) {
    double value = elements_[i];
    elements_[i]=0.0;
    if (value) {
      elements_[number]=value;
      indices[number++] = i;
    }
  }
  nElements_ += number;
  packedMode_=true;
  return number;
}
// Scan dense region and set up indices with tolerance
int
CoinIndexedVector::scanAndPack(double tolerance)
{
  nElements_=0;
  return scanAndPack(0,capacity_,tolerance);
}
// Scan dense region from start to < end and set up indices with tolerance
int
CoinIndexedVector::scanAndPack(int start, int end, double tolerance)
{
  assert(!packedMode_);
  end = CoinMin(end,capacity_);
  start = CoinMax(start,0);
  int i;
  int number = 0;
  int * indices = indices_+nElements_;
  for (i=start;i<end;i++) {
    double value = elements_[i];
    elements_[i]=0.0;
    if (fabs(value)>=tolerance) {
      elements_[number]=value;
	indices[number++] = i;
    }
  }
  nElements_ += number;
  packedMode_=true;
  return number;
}
// This is mainly for testing - goes from packed to indexed
void
CoinIndexedVector::expand()
{
  if (nElements_&&packedMode_) {
    double * temp = new double[capacity_];
    int i;
    for (i=0;i<nElements_;i++)
      temp[indices_[i]]=elements_[i];
    CoinZeroN(elements_,nElements_);
    for (i=0;i<nElements_;i++) {
      int iRow = indices_[i];
      elements_[iRow]=temp[iRow];
    }
    delete [] temp;
  }
  packedMode_=false;
}
// Create packed array
void
CoinIndexedVector::createPacked(int number, const int * indices,
		    const double * elements)
{
  nElements_=number;
  packedMode_=true;
  CoinMemcpyN(indices,number,indices_);
  CoinMemcpyN(elements,number,elements_);
}
//  Print out
void
CoinIndexedVector::print() const
{
  printf("Vector has %d elements (%spacked mode)\n",nElements_,packedMode_ ? "" : "un");
  for (int i=0;i<nElements_;i++) {
    if (i&&(i%5==0))
      printf("\n");
    int index = indices_[i];
    double value = packedMode_ ? elements_[i] : elements_[index];
    printf(" (%d,%g)",index,value);
  }
  printf("\n");
}

// Zero out array
void
CoinArrayWithLength::clear()
{
  assert ((size_>0&&array_)||!array_);
  memset (array_,0,size_);
}
static char * mallocArray(long size)
{
  if (size>0) {
    char * array = new char [size];
    return array;
  } else {
    return NULL;
  }
}
static void freeArray(void * array)
{
  char * charArray = reinterpret_cast<char *> (array);
  delete [] charArray;
}
// Conditionally gets new array
char *
CoinArrayWithLength::conditionalNew(long sizeWanted)
{
  if (size_==-1) {
    freeArray(array_);
    array_ = mallocArray(sizeWanted);
  } else {
    setCapacity();
    if (sizeWanted>size_) {
      freeArray(array_);
      size_ = static_cast<int> (sizeWanted*101/100)+64;
      // round to multiple of 16
      size_ -= size_%16;
      array_ = mallocArray(size_);
    }
  }
  return array_;
}
// Conditionally deletes
void
CoinArrayWithLength::conditionalDelete()
{
  if (size_==-1) {
    freeArray(array_);
    array_=NULL;
  } else if (size_>=0) {
    size_ = -size_-2;
  }
}
/* Copy constructor. */
CoinArrayWithLength::CoinArrayWithLength(const CoinArrayWithLength & rhs)
{
  assert (rhs.getCapacity()>=0);
  size_=rhs.size_;
  array_ = mallocArray(getCapacity());
  if (size_>0)
    CoinMemcpyN(rhs.array_,size_,array_);
}

/* Copy constructor.2 */
CoinArrayWithLength::CoinArrayWithLength(const CoinArrayWithLength * rhs)
{
  assert (rhs->getCapacity()>=0);
  size_=rhs->size_;
  array_ = mallocArray(getCapacity());
  if (size_>0)
    CoinMemcpyN(rhs->array_,size_,array_);
}
/* Assignment operator. */
CoinArrayWithLength &
CoinArrayWithLength::operator=(const CoinArrayWithLength & rhs)
{
  if (this != &rhs) {
    assert (rhs.size_!=-1||!rhs.array_);
    if (rhs.size_==-1) {
      freeArray(array_);
      array_=NULL;
      size_=-1;
    } else {
      int capacity = getCapacity();
      int rhsCapacity = rhs.getCapacity();
      if (capacity<rhsCapacity) {
	freeArray(array_);
	array_ = mallocArray(rhsCapacity);
      }
      size_=rhs.size_;
      if (size_>0)
 CoinMemcpyN(rhs.array_,size_,array_);
    }
  }
  return *this;
}
/* Assignment with length (if -1 use internal length) */
void
CoinArrayWithLength::copy(const CoinArrayWithLength & rhs, int numberBytes)
{
  if (numberBytes==-1||numberBytes<=rhs.getCapacity()) {
    CoinArrayWithLength::operator=(rhs);
  } else {
    assert (numberBytes>=0);
    if (size_==-1) {
      freeArray(array_);
      array_=NULL;
    } else {
      size_=-1;
    }
    if (rhs.size_>=0)
      size_ = numberBytes;
    array_ = mallocArray(numberBytes);
    if (rhs.array_)
      CoinMemcpyN(rhs.array_,numberBytes,array_);
  }
}
/* Assignment with length - does not copy */
void
CoinArrayWithLength::allocate(const CoinArrayWithLength & rhs, int numberBytes)
{
  if (numberBytes==-1||numberBytes<=rhs.getCapacity()) {
    assert (rhs.size_!=-1||!rhs.array_);
    if (rhs.size_==-1) {
      freeArray(array_);
      array_=NULL;
      size_=-1;
    } else {
      int capacity = getCapacity();
      int rhsCapacity = rhs.getCapacity();
      if (capacity<rhsCapacity) {
	freeArray(array_);
	array_ = mallocArray(rhsCapacity);
      }
      size_=rhs.size_;
    }
  } else {
    assert (numberBytes>=0);
    if (size_==-1) {
      freeArray(array_);
      array_=NULL;
    } else {
      size_=-1;
    }
    if (rhs.size_>=0)
      size_ = numberBytes;
    array_ = mallocArray(numberBytes);
  }
}
// Does what is needed to set persistence
void
CoinArrayWithLength::setPersistence(int flag,int currentLength)
{
  if (flag) {
    if (size_==-1) {
      if (currentLength&&array_) {
	size_=currentLength;
      } else {
	size_=0;
	freeArray(array_);
	array_=NULL;
      }
    }
  } else {
    size_=-1;
  }
}
// Swaps memory between two members
void
CoinArrayWithLength::swap(CoinArrayWithLength & other)
{
#ifdef COIN_DEVELOP
  if (!(size_==other.size_||size_==-1||other.size_==-1))
    printf("Two arrays have sizes - %d and %d\n",size_,other.size_);
#endif
  char * swapArray = other.array_;
  other.array_=array_;
  array_=swapArray;
  int swapSize = other.size_;
  other.size_=size_;
  size_=swapSize;
}
// Extend a persistent array keeping data (size in bytes)
void
CoinArrayWithLength::extend(int newSize)
{
  //assert (newSize>=getCapacity()&&getCapacity()>=0);
  assert (size_>=0); // not much point otherwise
  if (newSize>size_) {
    char * temp = mallocArray(newSize);
    CoinMemcpyN(array_,size_,temp);
    freeArray(array_);
    array_=temp;
    size_=newSize;
  }
}
