static PyArrayObject *mx2numeric(const mxArray *pArray)
{
//current function returns PyArrayObject in c order currently
mwSize nd;
npy_intp pydims[NPY_MAXDIMS];
PyArrayObject *lRetval = NULL,*t=NULL;
const double *lPR;
const double *lPI;
pyassert(PyArray_API,
"Unable to perform this function without NumPy installed");
nd = mxGetNumberOfDimensions(pArray);
{
const mwSize *dims;
dims = mxGetDimensions(pArray);
for (mwSize i=0; i != nd; i++){
pydims[i] = static_cast<npy_intp>(dims[i]);
}
}
//this function creates a fortran array
t = (PyArrayObject *)
PyArray_New(&PyArray_Type,static_cast<npy_intp>(nd), pydims,
mxIsComplex(pArray) ? PyArray_CDOUBLE : PyArray_DOUBLE,
NULL, // strides
NULL, // data
0, //(ignored itemsize),
NPY_F_CONTIGUOUS,
NULL); // obj
if (t == NULL) return NULL;
lPR = mxGetPr(pArray);
if (mxIsComplex(pArray)) {
double *lDst = (double *)PyArray_DATA(t);
// AWMS unsigned int almost certainly can overflow on some platforms!
npy_intp numberOfElements = PyArray_SIZE(t);
lPI = mxGetPi(pArray);
for (mwIndex i = 0; i != numberOfElements; i++) {
*lDst++ = *lPR++;
*lDst++ = *lPI++;
}
}
else {
double *lDst = (double *)PyArray_DATA(t);
npy_intp numberOfElements = PyArray_SIZE(t);
for (mwIndex i = 0; i != numberOfElements; i++) {
*lDst++ = *lPR++;
}
}
lRetval = (PyArrayObject *)PyArray_FromArray(t,NULL,NPY_C_CONTIGUOUS|NPY_ALIGNED|NPY_WRITEABLE);
Py_DECREF(t);
return lRetval;
error_return:
return NULL;
}
/*
* Returns input array with values inserted sequentially into places
* indicated by the mask
*/
NPY_NO_EXPORT PyObject *
arr_insert(PyObject *NPY_UNUSED(self), PyObject *args, PyObject *kwdict)
{
char *src, *dest;
npy_bool *mask_data;
PyArray_Descr *dtype;
PyArray_CopySwapFunc *copyswap;
PyObject *array0, *mask0, *values0;
PyArrayObject *array, *mask, *values;
npy_intp i, j, chunk, nm, ni, nv;
static char *kwlist[] = {"input", "mask", "vals", NULL};
NPY_BEGIN_THREADS_DEF;
values = mask = NULL;
if (!PyArg_ParseTupleAndKeywords(args, kwdict, "O!OO:place", kwlist,
&PyArray_Type, &array0, &mask0, &values0)) {
return NULL;
}
array = (PyArrayObject *)PyArray_FromArray((PyArrayObject *)array0, NULL,
NPY_ARRAY_CARRAY | NPY_ARRAY_UPDATEIFCOPY);
if (array == NULL) {
goto fail;
}
ni = PyArray_SIZE(array);
dest = PyArray_DATA(array);
chunk = PyArray_DESCR(array)->elsize;
mask = (PyArrayObject *)PyArray_FROM_OTF(mask0, NPY_BOOL,
NPY_ARRAY_CARRAY | NPY_ARRAY_FORCECAST);
if (mask == NULL) {
goto fail;
}
nm = PyArray_SIZE(mask);
if (nm != ni) {
PyErr_SetString(PyExc_ValueError,
"place: mask and data must be "
"the same size");
goto fail;
}
mask_data = PyArray_DATA(mask);
dtype = PyArray_DESCR(array);
Py_INCREF(dtype);
values = (PyArrayObject *)PyArray_FromAny(values0, dtype,
0, 0, NPY_ARRAY_CARRAY, NULL);
if (values == NULL) {
goto fail;
}
nv = PyArray_SIZE(values); /* zero if null array */
if (nv <= 0) {
npy_bool allFalse = 1;
i = 0;
while (allFalse && i < ni) {
if (mask_data[i]) {
allFalse = 0;
} else {
i++;
}
}
if (!allFalse) {
PyErr_SetString(PyExc_ValueError,
"Cannot insert from an empty array!");
goto fail;
} else {
Py_XDECREF(values);
Py_XDECREF(mask);
Py_RETURN_NONE;
}
}
src = PyArray_DATA(values);
j = 0;
copyswap = PyArray_DESCR(array)->f->copyswap;
NPY_BEGIN_THREADS_DESCR(PyArray_DESCR(array));
for (i = 0; i < ni; i++) {
if (mask_data[i]) {
if (j >= nv) {
j = 0;
}
copyswap(dest + i*chunk, src + j*chunk, 0, array);
j++;
}
}
NPY_END_THREADS;
Py_XDECREF(values);
Py_XDECREF(mask);
Py_DECREF(array);
Py_RETURN_NONE;
fail:
Py_XDECREF(mask);
Py_XDECREF(array);
Py_XDECREF(values);
return NULL;
}
static mxArray *makeMxFromNumeric(const PyArrayObject *pSrc)
{
npy_intp lRows=0, lCols=0;
bool lIsComplex;
bool lIsNotAMatrix = false;
double *lR = NULL;
double *lI = NULL;
mxArray *lRetval = NULL;
mwSize dims[NPY_MAXDIMS];
mwSize nDims = pSrc->nd;
const PyArrayObject *ap=NULL;
switch (pSrc->nd) {
case 0: // XXX the evil 0D
lRows = 1;
lCols = 1;
lIsNotAMatrix = true;
break;
case 1:
lRows = pSrc->dimensions[0];
lCols = min(1, lRows); // for array([]): to avoid zeros((0,1)) !
lIsNotAMatrix = true;
break;
default:
for (mwSize i = 0;i != nDims; i++) {
dims[i]=(mwSize)pSrc->dimensions[i];
}
break;
}
switch (pSrc->descr->type_num) {
case PyArray_OBJECT:
PyErr_SetString(PyExc_TypeError, "Non-numeric array types not supported");
return NULL;
case PyArray_CFLOAT:
case PyArray_CDOUBLE:
lIsComplex = true;
break;
default:
lIsComplex = false;
}
// converts to fortran order if not already
if(!PyArray_ISFORTRAN(pSrc)){
ap = (PyArrayObject * const)PyArray_FromArray((PyArrayObject*)pSrc,NULL,NPY_ALIGNED|NPY_F_CONTIGUOUS);
}
else{
ap = pSrc;
}
if(lIsNotAMatrix)
lRetval = mxCreateDoubleMatrix(lRows, lCols, lIsComplex ? mxCOMPLEX : mxREAL);
else
lRetval = mxCreateNumericArray(nDims,dims,mxDOUBLE_CLASS,lIsComplex ? mxCOMPLEX : mxREAL);
if (lRetval == NULL) return NULL;
lR = mxGetPr(lRetval);
lI = mxGetPi(lRetval);
if (lIsNotAMatrix) {
void *p = PyArray_DATA(ap);
switch (ap->descr->type_num) {
case PyArray_CHAR:
copyNumericVector2Mx((char *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_UBYTE:
copyNumericVector2Mx((unsigned char *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_SBYTE:
copyNumericVector2Mx((signed char *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_SHORT:
copyNumericVector2Mx((short *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_INT:
copyNumericVector2Mx((int *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_LONG:
copyNumericVector2Mx((long *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_FLOAT:
copyNumericVector2Mx((float *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_DOUBLE:
copyNumericVector2Mx((double *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_CFLOAT:
copyCplxNumericVector2Mx((float *)(p), lRows, lR, lI, pSrc->strides);
break;
case PyArray_CDOUBLE:
copyCplxNumericVector2Mx((double *)(p), lRows, lR, lI, pSrc->strides);
break;
}
} else {
void *p = PyArray_DATA(ap);
npy_intp size = PyArray_SIZE(pSrc);
switch (pSrc->descr->type_num) {
case PyArray_CHAR:
copyNumeric2Mx((char *)p,size,lR);
break;
case PyArray_UBYTE:
copyNumeric2Mx((unsigned char *)p,size,lR);
break;
case PyArray_SBYTE:
copyNumeric2Mx((signed char *)p,size,lR);
break;
case PyArray_SHORT:
copyNumeric2Mx((short *)p,size,lR);
break;
case PyArray_INT:
copyNumeric2Mx((int *)p,size,lR);
break;
case PyArray_LONG:
copyNumeric2Mx((long *)p,size,lR);
break;
case PyArray_FLOAT:
copyNumeric2Mx((float *)p,size,lR);
break;
case PyArray_DOUBLE:
copyNumeric2Mx((double *)p,size,lR);
break;
case PyArray_CFLOAT:
copyCplxNumeric2Mx((float *)p,size,lR,lI);
break;
case PyArray_CDOUBLE:
copyCplxNumeric2Mx((double *)p,size,lR,lI);
break;
}
}
if(ap != pSrc){
Py_DECREF(const_cast<PyArrayObject *>(ap));
}
return lRetval;
}
/*NUMPY_API
* ArgMax
*/
NPY_NO_EXPORT PyObject *
PyArray_ArgMax(PyArrayObject *op, int axis, PyArrayObject *out)
{
PyArrayObject *ap = NULL, *rp = NULL;
PyArray_ArgFunc* arg_func;
char *ip;
intp *rptr;
intp i, n, m;
int elsize;
int copyret = 0;
NPY_BEGIN_THREADS_DEF;
if ((ap=(PyAO *)_check_axis(op, &axis, 0)) == NULL) {
return NULL;
}
/*
* We need to permute the array so that axis is placed at the end.
* And all other dimensions are shifted left.
*/
if (axis != ap->nd-1) {
PyArray_Dims newaxes;
intp dims[MAX_DIMS];
int i;
newaxes.ptr = dims;
newaxes.len = ap->nd;
for (i = 0; i < axis; i++) dims[i] = i;
for (i = axis; i < ap->nd - 1; i++) dims[i] = i + 1;
dims[ap->nd - 1] = axis;
op = (PyAO *)PyArray_Transpose(ap, &newaxes);
Py_DECREF(ap);
if (op == NULL) {
return NULL;
}
}
else {
op = ap;
}
/* Will get native-byte order contiguous copy. */
ap = (PyArrayObject *)
PyArray_ContiguousFromAny((PyObject *)op,
op->descr->type_num, 1, 0);
Py_DECREF(op);
if (ap == NULL) {
return NULL;
}
arg_func = ap->descr->f->argmax;
if (arg_func == NULL) {
PyErr_SetString(PyExc_TypeError, "data type not ordered");
goto fail;
}
elsize = ap->descr->elsize;
m = ap->dimensions[ap->nd-1];
if (m == 0) {
PyErr_SetString(PyExc_ValueError,
"attempt to get argmax/argmin "\
"of an empty sequence");
goto fail;
}
if (!out) {
rp = (PyArrayObject *)PyArray_New(ap->ob_type, ap->nd-1,
ap->dimensions, PyArray_INTP,
NULL, NULL, 0, 0,
(PyObject *)ap);
if (rp == NULL) {
goto fail;
}
}
else {
if (PyArray_SIZE(out) !=
PyArray_MultiplyList(ap->dimensions, ap->nd - 1)) {
PyErr_SetString(PyExc_TypeError,
"invalid shape for output array.");
}
rp = (PyArrayObject *)\
PyArray_FromArray(out,
PyArray_DescrFromType(PyArray_INTP),
NPY_CARRAY | NPY_UPDATEIFCOPY);
if (rp == NULL) {
goto fail;
}
if (rp != out) {
copyret = 1;
}
}
NPY_BEGIN_THREADS_DESCR(ap->descr);
n = PyArray_SIZE(ap)/m;
rptr = (intp *)rp->data;
for (ip = ap->data, i = 0; i < n; i++, ip += elsize*m) {
arg_func(ip, m, rptr, ap);
rptr += 1;
}
NPY_END_THREADS_DESCR(ap->descr);
Py_DECREF(ap);
if (copyret) {
PyArrayObject *obj;
obj = (PyArrayObject *)rp->base;
Py_INCREF(obj);
Py_DECREF(rp);
rp = obj;
}
return (PyObject *)rp;
fail:
Py_DECREF(ap);
Py_XDECREF(rp);
return NULL;
}
static mxArray *makeMxFromNumeric(const PyArrayObject *pSrc, bool &is_reference)
{
npy_intp lRows=0, lCols=0;
bool lIsComplex;
bool lIsNotAMatrix = false;
double *lR = NULL;
double *lI = NULL;
mxArray *lRetval = NULL;
mwSize dims[NPY_MAXDIMS];
mwSize dimsEmpty [2];
memset(&dimsEmpty, 0, 2 * sizeof(mwSize));
mwSize nDims = pSrc->nd;
const PyArrayObject *ap=NULL;
mxClassID classID = mxUNKNOWN_CLASS;
switch (pSrc->nd) {
case 0: // XXX the evil 0D
lRows = 1;
lCols = 1;
lIsNotAMatrix = true;
break;
case 1:
lRows = pSrc->dimensions[0];
lCols = min(1, lRows); // for array([]): to avoid zeros((0,1)) !
lIsNotAMatrix = true;
break;
default:
for (mwSize i = 0;i != nDims; i++) {
dims[i]=(mwSize)pSrc->dimensions[i];
}
break;
}
switch (pSrc->descr->type_num) {
case PyArray_OBJECT:
PyErr_SetString(PyExc_TypeError, "Non-numeric array types not supported");
return NULL;
case PyArray_CFLOAT:
case PyArray_CDOUBLE:
lIsComplex = true;
break;
default:
lIsComplex = false;
}
// converts to fortran order if not already
if(!PyArray_ISFORTRAN(pSrc)){
ap = (PyArrayObject * const)PyArray_FromArray((PyArrayObject*)pSrc,NULL,NPY_ALIGNED|NPY_F_CONTIGUOUS);
}
else{
ap = pSrc;
}
if(lIsNotAMatrix)
lRetval = mxCreateDoubleMatrix(lRows, lCols, lIsComplex ? mxCOMPLEX : mxREAL);
else {
switch (ap->descr->type_num) {
case PyArray_CFLOAT:
case PyArray_CDOUBLE:
classID = mxDOUBLE_CLASS;
is_reference = false;
break;
case PyArray_BOOL:
classID = mxLOGICAL_CLASS;
is_reference = true;
break;
case PyArray_CHAR:
classID = mxCHAR_CLASS;
is_reference = true;
break;
case PyArray_DOUBLE:
classID = mxDOUBLE_CLASS;
is_reference = true;
break;
case PyArray_FLOAT:
classID = mxSINGLE_CLASS;
is_reference = true;
break;
case PyArray_INT8:
classID = mxINT8_CLASS;
is_reference = true;
break;
case PyArray_UINT8:
classID = mxUINT8_CLASS;
is_reference = true;
break;
case PyArray_INT16:
classID = mxINT16_CLASS;
is_reference = true;
break;
case PyArray_UINT16:
classID = mxUINT16_CLASS;
is_reference = true;
break;
case PyArray_INT32:
classID = mxINT32_CLASS;
is_reference = true;
break;
case PyArray_UINT32:
classID = mxUINT32_CLASS;
is_reference = true;
break;
#ifdef NPY_INT64
case PyArray_INT64:
classID = mxINT64_CLASS;
is_reference = true;
break;
case PyArray_UINT64:
classID = mxUINT64_CLASS;
is_reference = true;
break;
#endif
}
if (!is_reference) {
lRetval = mxCreateNumericArray(nDims,dims,classID,lIsComplex ? mxCOMPLEX : mxREAL);
} else {
/*
// code for create and mxArray ref on the numpy object
lRetval = mxCreateNumericArray(2, dimsEmpty, classID, lIsComplex ? mxCOMPLEX : mxREAL);
if (mxSetDimensions(lRetval, dims, nDims) == 1) {
// failed to reset the dimensions
mxDestroyArray(lRetval);
lRetval = NULL;
} else {
mxSetData(lRetval, PyArray_DATA(ap));
}
*/
// uses memcopy for faster copying
is_reference = false;
lRetval = mxCreateNumericArray(nDims, dims, classID, lIsComplex ? mxCOMPLEX : mxREAL);
// this is a sanity check, it should not fail
int matlab_nbytes = mxGetNumberOfElements(lRetval) * mxGetElementSize(lRetval);
if (matlab_nbytes == PyArray_NBYTES(pSrc)) {
memcpy(mxGetData(lRetval), PyArray_DATA(ap), PyArray_NBYTES(pSrc));
} else {
PyErr_SetString(PyExc_TypeError, "Number of bytes do not match");
}
}
}
if (lRetval == NULL) return NULL;
lR = mxGetPr(lRetval);
lI = mxGetPi(lRetval);
if (lIsNotAMatrix) {
void *p = PyArray_DATA(ap);
switch (ap->descr->type_num) {
case PyArray_CHAR:
copyNumericVector2Mx((char *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_UBYTE:
copyNumericVector2Mx((unsigned char *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_SBYTE:
copyNumericVector2Mx((signed char *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_SHORT:
copyNumericVector2Mx((short *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_INT:
copyNumericVector2Mx((int *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_LONG:
copyNumericVector2Mx((long *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_FLOAT:
copyNumericVector2Mx((float *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_DOUBLE:
copyNumericVector2Mx((double *)(p), lRows, lR, pSrc->strides);
break;
case PyArray_CFLOAT:
copyCplxNumericVector2Mx((float *)(p), lRows, lR, lI, pSrc->strides);
break;
case PyArray_CDOUBLE:
copyCplxNumericVector2Mx((double *)(p), lRows, lR, lI, pSrc->strides);
break;
}
} else {
void *p = PyArray_DATA(ap);
npy_intp size = PyArray_SIZE(pSrc);
switch (pSrc->descr->type_num) {
case PyArray_CFLOAT:
copyCplxNumeric2Mx((float *)p,size,lR,lI);
break;
case PyArray_CDOUBLE:
copyCplxNumeric2Mx((double *)p,size,lR,lI);
break;
}
}
if(ap != pSrc){
Py_DECREF(const_cast<PyArrayObject *>(ap));
}
return lRetval;
}
/*NUMPY_API
* Clip
*/
NPY_NO_EXPORT PyObject *
PyArray_Clip(PyArrayObject *self, PyObject *min, PyObject *max, PyArrayObject *out)
{
PyArray_FastClipFunc *func;
int outgood = 0, ingood = 0;
PyArrayObject *maxa = NULL;
PyArrayObject *mina = NULL;
PyArrayObject *newout = NULL, *newin = NULL;
PyArray_Descr *indescr = NULL, *newdescr = NULL;
char *max_data, *min_data;
PyObject *zero;
/* Treat None the same as NULL */
if (min == Py_None) {
min = NULL;
}
if (max == Py_None) {
max = NULL;
}
if ((max == NULL) && (min == NULL)) {
PyErr_SetString(PyExc_ValueError,
"array_clip: must set either max or min");
return NULL;
}
func = PyArray_DESCR(self)->f->fastclip;
if (func == NULL
|| (min != NULL && !PyArray_CheckAnyScalar(min))
|| (max != NULL && !PyArray_CheckAnyScalar(max))
|| PyArray_ISBYTESWAPPED(self)
|| (out && PyArray_ISBYTESWAPPED(out))) {
return _slow_array_clip(self, min, max, out);
}
/* Use the fast scalar clip function */
/* First we need to figure out the correct type */
if (min != NULL) {
indescr = PyArray_DescrFromObject(min, NULL);
if (indescr == NULL) {
goto fail;
}
}
if (max != NULL) {
newdescr = PyArray_DescrFromObject(max, indescr);
Py_XDECREF(indescr);
indescr = NULL;
if (newdescr == NULL) {
goto fail;
}
}
else {
/* Steal the reference */
newdescr = indescr;
indescr = NULL;
}
/*
* Use the scalar descriptor only if it is of a bigger
* KIND than the input array (and then find the
* type that matches both).
*/
if (PyArray_ScalarKind(newdescr->type_num, NULL) >
PyArray_ScalarKind(PyArray_DESCR(self)->type_num, NULL)) {
indescr = PyArray_PromoteTypes(newdescr, PyArray_DESCR(self));
if (indescr == NULL) {
goto fail;
}
func = indescr->f->fastclip;
if (func == NULL) {
Py_DECREF(indescr);
return _slow_array_clip(self, min, max, out);
}
}
else {
indescr = PyArray_DESCR(self);
Py_INCREF(indescr);
}
Py_DECREF(newdescr);
newdescr = NULL;
if (!PyDataType_ISNOTSWAPPED(indescr)) {
PyArray_Descr *descr2;
descr2 = PyArray_DescrNewByteorder(indescr, '=');
Py_DECREF(indescr);
indescr = NULL;
if (descr2 == NULL) {
goto fail;
}
indescr = descr2;
}
/* Convert max to an array */
if (max != NULL) {
Py_INCREF(indescr);
maxa = (PyArrayObject *)PyArray_FromAny(max, indescr, 0, 0,
NPY_ARRAY_DEFAULT, NULL);
if (maxa == NULL) {
goto fail;
}
}
/*
* If we are unsigned, then make sure min is not < 0
* This is to match the behavior of _slow_array_clip
*
* We allow min and max to go beyond the limits
* for other data-types in which case they
* are interpreted as their modular counterparts.
*/
if (min != NULL) {
if (PyArray_ISUNSIGNED(self)) {
int cmp;
zero = PyInt_FromLong(0);
cmp = PyObject_RichCompareBool(min, zero, Py_LT);
if (cmp == -1) {
Py_DECREF(zero);
goto fail;
}
if (cmp == 1) {
min = zero;
}
else {
Py_DECREF(zero);
Py_INCREF(min);
}
}
else {
Py_INCREF(min);
}
/* Convert min to an array */
Py_INCREF(indescr);
mina = (PyArrayObject *)PyArray_FromAny(min, indescr, 0, 0,
NPY_ARRAY_DEFAULT, NULL);
Py_DECREF(min);
if (mina == NULL) {
goto fail;
}
}
/*
* Check to see if input is single-segment, aligned,
* and in native byteorder
*/
if (PyArray_ISONESEGMENT(self) &&
PyArray_CHKFLAGS(self, NPY_ARRAY_ALIGNED) &&
PyArray_ISNOTSWAPPED(self) &&
(PyArray_DESCR(self) == indescr)) {
ingood = 1;
}
if (!ingood) {
int flags;
if (PyArray_ISFORTRAN(self)) {
flags = NPY_ARRAY_FARRAY;
}
else {
flags = NPY_ARRAY_CARRAY;
}
Py_INCREF(indescr);
newin = (PyArrayObject *)PyArray_FromArray(self, indescr, flags);
if (newin == NULL) {
goto fail;
}
}
else {
newin = self;
Py_INCREF(newin);
}
/*
* At this point, newin is a single-segment, aligned, and correct
* byte-order array of the correct type
*
* if ingood == 0, then it is a copy, otherwise,
* it is the original input.
*/
/*
* If we have already made a copy of the data, then use
* that as the output array
*/
if (out == NULL && !ingood) {
out = newin;
}
/*
* Now, we know newin is a usable array for fastclip,
* we need to make sure the output array is available
* and usable
*/
if (out == NULL) {
Py_INCREF(indescr);
out = (PyArrayObject*)PyArray_NewFromDescr(Py_TYPE(self),
indescr, PyArray_NDIM(self),
PyArray_DIMS(self),
NULL, NULL,
PyArray_ISFORTRAN(self),
(PyObject *)self);
if (out == NULL) {
goto fail;
}
outgood = 1;
}
else Py_INCREF(out);
/* Input is good at this point */
if (out == newin) {
outgood = 1;
}
/* make sure the shape of the output array is the same */
if (!PyArray_SAMESHAPE(newin, out)) {
PyErr_SetString(PyExc_ValueError, "clip: Output array must have the"
"same shape as the input.");
goto fail;
}
if (!outgood && PyArray_EQUIVALENTLY_ITERABLE(
self, out, PyArray_TRIVIALLY_ITERABLE_OP_READ,
PyArray_TRIVIALLY_ITERABLE_OP_NOREAD) &&
PyArray_CHKFLAGS(out, NPY_ARRAY_ALIGNED) &&
PyArray_ISNOTSWAPPED(out) &&
PyArray_EquivTypes(PyArray_DESCR(out), indescr)) {
outgood = 1;
}
/*
* Do we still not have a suitable output array?
* Create one, now. No matter why the array is not suitable a copy has
* to be made. This may be just to avoid memory overlap though.
*/
if (!outgood) {
int oflags;
if (PyArray_ISFORTRAN(self)) {
oflags = NPY_ARRAY_FARRAY;
}
else {
oflags = NPY_ARRAY_CARRAY;
}
oflags |= (NPY_ARRAY_WRITEBACKIFCOPY | NPY_ARRAY_FORCECAST |
NPY_ARRAY_ENSURECOPY);
Py_INCREF(indescr);
newout = (PyArrayObject*)PyArray_FromArray(out, indescr, oflags);
if (newout == NULL) {
goto fail;
}
}
else {
newout = out;
Py_INCREF(newout);
}
/* Now we can call the fast-clip function */
min_data = max_data = NULL;
if (mina != NULL) {
min_data = PyArray_DATA(mina);
}
if (maxa != NULL) {
max_data = PyArray_DATA(maxa);
}
func(PyArray_DATA(newin), PyArray_SIZE(newin), min_data, max_data, PyArray_DATA(newout));
/* Clean up temporary variables */
Py_XDECREF(indescr);
Py_XDECREF(newdescr);
Py_XDECREF(mina);
Py_XDECREF(maxa);
Py_DECREF(newin);
/* Copy back into out if out was not already a nice array. */
PyArray_ResolveWritebackIfCopy(newout);
Py_DECREF(newout);
return (PyObject *)out;
fail:
Py_XDECREF(indescr);
Py_XDECREF(newdescr);
Py_XDECREF(maxa);
Py_XDECREF(mina);
Py_XDECREF(newin);
PyArray_DiscardWritebackIfCopy(newout);
Py_XDECREF(newout);
return NULL;
}
/*NUMPY_API
* ArgMax
*/
NPY_NO_EXPORT PyObject *
PyArray_ArgMax(PyArrayObject *op, int axis, PyArrayObject *out)
{
PyArrayObject *ap = NULL, *rp = NULL;
PyArray_ArgFunc* arg_func;
char *ip;
npy_intp *rptr;
npy_intp i, n, m;
int elsize;
NPY_BEGIN_THREADS_DEF;
if ((ap = (PyArrayObject *)PyArray_CheckAxis(op, &axis, 0)) == NULL) {
return NULL;
}
/*
* We need to permute the array so that axis is placed at the end.
* And all other dimensions are shifted left.
*/
if (axis != PyArray_NDIM(ap)-1) {
PyArray_Dims newaxes;
npy_intp dims[NPY_MAXDIMS];
int j;
newaxes.ptr = dims;
newaxes.len = PyArray_NDIM(ap);
for (j = 0; j < axis; j++) {
dims[j] = j;
}
for (j = axis; j < PyArray_NDIM(ap) - 1; j++) {
dims[j] = j + 1;
}
dims[PyArray_NDIM(ap) - 1] = axis;
op = (PyArrayObject *)PyArray_Transpose(ap, &newaxes);
Py_DECREF(ap);
if (op == NULL) {
return NULL;
}
}
else {
op = ap;
}
/* Will get native-byte order contiguous copy. */
ap = (PyArrayObject *)PyArray_ContiguousFromAny((PyObject *)op,
PyArray_DESCR(op)->type_num, 1, 0);
Py_DECREF(op);
if (ap == NULL) {
return NULL;
}
arg_func = PyArray_DESCR(ap)->f->argmax;
if (arg_func == NULL) {
PyErr_SetString(PyExc_TypeError,
"data type not ordered");
goto fail;
}
elsize = PyArray_DESCR(ap)->elsize;
m = PyArray_DIMS(ap)[PyArray_NDIM(ap)-1];
if (m == 0) {
PyErr_SetString(PyExc_ValueError,
"attempt to get argmax of an empty sequence");
goto fail;
}
if (!out) {
rp = (PyArrayObject *)PyArray_NewFromDescr(
Py_TYPE(ap), PyArray_DescrFromType(NPY_INTP),
PyArray_NDIM(ap) - 1, PyArray_DIMS(ap), NULL, NULL,
0, (PyObject *)ap);
if (rp == NULL) {
goto fail;
}
}
else {
if ((PyArray_NDIM(out) != PyArray_NDIM(ap) - 1) ||
!PyArray_CompareLists(PyArray_DIMS(out), PyArray_DIMS(ap),
PyArray_NDIM(out))) {
PyErr_SetString(PyExc_ValueError,
"output array does not match result of np.argmax.");
goto fail;
}
rp = (PyArrayObject *)PyArray_FromArray(out,
PyArray_DescrFromType(NPY_INTP),
NPY_ARRAY_CARRAY | NPY_ARRAY_WRITEBACKIFCOPY);
if (rp == NULL) {
goto fail;
}
}
NPY_BEGIN_THREADS_DESCR(PyArray_DESCR(ap));
n = PyArray_SIZE(ap)/m;
rptr = (npy_intp *)PyArray_DATA(rp);
for (ip = PyArray_DATA(ap), i = 0; i < n; i++, ip += elsize*m) {
arg_func(ip, m, rptr, ap);
rptr += 1;
}
NPY_END_THREADS_DESCR(PyArray_DESCR(ap));
Py_DECREF(ap);
/* Trigger the UPDATEIFCOPY/WRTIEBACKIFCOPY if necessary */
if (out != NULL && out != rp) {
PyArray_ResolveWritebackIfCopy(rp);
Py_DECREF(rp);
rp = out;
Py_INCREF(rp);
}
return (PyObject *)rp;
fail:
Py_DECREF(ap);
Py_XDECREF(rp);
return NULL;
}
/*!
@brief save an ANA format image to disk
@param [in] filename Full path to write data to
@param [in] data Data to write (numpy array)
@param [in] compress Apply (Rice) compression or not
@param [in] header Add a header to the file (or use default)
@return number of bytes read on success, NULL pointer on failure
*/
static PyObject * pyana_fzwrite(PyObject *self, PyObject *args) {
// Python function arguments
char *filename = NULL;
PyArrayObject *anadata;
int compress = 1, debug=0;
char *header = NULL;
// Processed data goes here
PyObject *anadata_align;
uint8_t *anadata_bytes;
// ANA file writing
int type, d;
// Parse arguments from Python function
if (!PyArg_ParseTuple(args, "sO!|isi", &filename, &PyArray_Type, &anadata, &compress, &header, &debug))
return NULL;
// Check if filename was parsed correctly (should be, otherwise
// PyArg_ParseTuple should have raised an error, obsolete?)
if (NULL == filename) {
PyErr_SetString(PyExc_ValueError, "In pyana_fzwrite: invalid filename.");
return NULL;
}
// If header is NULL, then set the comment to a default value
if (NULL == header) {
if (debug == 1) printf("pyana_fzwrite(): Setting default header\n");
struct timeval *tv_time=NULL;
struct tm *tm_time=NULL;
gettimeofday(tv_time, NULL);
tm_time = gmtime(&(tv_time->tv_sec));
asprintf(&header, "#%-42s compress=%d date=%02d:%02d:%02d.%03ld\n",
filename,
compress,
tm_time->tm_hour, tm_time->tm_min, tm_time->tm_sec, (long) (tv_time->tv_usec/1000));
}
if (debug == 1) printf("pyana_fzwrite(): Header: '%s'\n", header);
// Convert datatype from PyArray type to ANA type, and verify that ANA
// supports it
switch (PyArray_TYPE((PyObject *) anadata)) {
case (PyArray_INT8):
type = INT8;
if (debug == 1)
printf("pyana_fzwrite(): Found type PyArray_INT8\n");
break;
case (PyArray_INT16):
type = INT16;
if (debug == 1)
printf("pyana_fzwrite(): Found type PyArray_INT16\n");
break;
case (PyArray_FLOAT32):
type = FLOAT32;
if (debug == 1)
printf("pyana_fzwrite(): Found type PyArray_FLOAT32\n");
break;
case (PyArray_FLOAT64):
type = FLOAT64;
if (debug == 1)
printf("pyana_fzwrite(): Found type PyArray_FLOAT64\n");
break;
//case (PyArray_INT64): type = INT64; break;
default:
PyErr_SetString(PyExc_ValueError, "In pyana_fzwrite: datatype cannot be stored as ANA file.");
return NULL;
break;
}
// Check if compression flag is sane
if (compress == 1 && (type == FLOAT32 || type == FLOAT64)) {
PyErr_SetString(PyExc_RuntimeError, "In pyana_fzwrite: datatype requested cannot be compressed.");
return NULL;
}
if (debug == 1)
printf("pyana_fzwrite(): pyarray datatype is %d, ana datatype is %d\n",
PyArray_TYPE((PyObject *) anadata), type);
// Sanitize data, make a new array from the old array and force the
// NPY_CARRAY_RO requirement which ensures a C-contiguous and aligned
// array will be made
anadata_align = PyArray_FromArray(anadata, PyArray_DESCR((PyObject *) anadata), NPY_CARRAY_RO);
// Get a pointer to the aligned data
anadata_bytes = (uint8_t *) PyArray_BYTES(anadata_align);
// Get the number of dimensions
PyArrayObject *arrobj = (PyArrayObject*) anadata_align;
int nd = arrobj->nd;
int *dims = malloc(nd*sizeof(int));
// Get the dimensions and number of elements
npy_intp *npy_dims = PyArray_DIMS(anadata_align);
//npy_intp npy_nelem = PyArray_SIZE(anadata_align);
if (debug == 1) printf("pyana_fzwrite(): Dimensions: ");
for (d=0; d<nd; d++) {
// ANA stores dimensions the other way around?
//dims[d] = npy_dims[d];
dims[d] = npy_dims[nd-1-d];
if (debug == 1) printf(" %d", dims[d]);
}
if (debug == 1) printf("\npyana_fzwrite(): Total is %d-dimensional\n", nd);
// Write ANA file
if (debug == 1) printf("pyana_fzwrite(): Compress: %d\n", compress);
if (compress == 1)
ana_fcwrite(anadata_bytes, filename, dims, nd, header, type, 5);
else
ana_fzwrite(anadata_bytes, filename, dims, nd, header, type);
free(dims);
// If we didn't crash up to here, we're probably ok :P
return Py_BuildValue("i", 1);
}
/*NUMPY_API
* ArgMin
*/
NPY_NO_EXPORT PyObject *
PyArray_ArgMin(PyArrayObject *op, int axis, PyArrayObject *out)
{
PyArrayObject *ap = NULL, *rp = NULL;
PyArray_ArgFunc* arg_func;
char *ip;
intp *rptr;
intp i, n, m;
int elsize;
NPY_BEGIN_THREADS_DEF;
if ((ap = (PyArrayObject *)PyArray_CheckAxis(op, &axis, 0)) == NULL) {
return NULL;
}
/*
* We need to permute the array so that axis is placed at the end.
* And all other dimensions are shifted left.
*/
if (axis != PyArray_NDIM(ap)-1) {
PyArray_Dims newaxes;
intp dims[MAX_DIMS];
int i;
newaxes.ptr = dims;
newaxes.len = PyArray_NDIM(ap);
for (i = 0; i < axis; i++) {
dims[i] = i;
}
for (i = axis; i < PyArray_NDIM(ap) - 1; i++) {
dims[i] = i + 1;
}
dims[PyArray_NDIM(ap) - 1] = axis;
op = (PyArrayObject *)PyArray_Transpose(ap, &newaxes);
Py_DECREF(ap);
if (op == NULL) {
return NULL;
}
}
else {
op = ap;
}
/* Will get native-byte order contiguous copy. */
ap = (PyArrayObject *)PyArray_ContiguousFromAny((PyObject *)op,
PyArray_DESCR(op)->type_num, 1, 0);
Py_DECREF(op);
if (ap == NULL) {
return NULL;
}
arg_func = PyArray_DESCR(ap)->f->argmin;
if (arg_func == NULL) {
PyErr_SetString(PyExc_TypeError,
"data type not ordered");
goto fail;
}
elsize = PyArray_DESCR(ap)->elsize;
m = PyArray_DIMS(ap)[PyArray_NDIM(ap)-1];
if (m == 0) {
PyErr_SetString(PyExc_ValueError,
"attempt to get argmin of an empty sequence");
goto fail;
}
if (!out) {
rp = (PyArrayObject *)PyArray_New(Py_TYPE(ap), PyArray_NDIM(ap)-1,
PyArray_DIMS(ap), PyArray_INTP,
NULL, NULL, 0, 0,
(PyObject *)ap);
if (rp == NULL) {
goto fail;
}
}
else {
if (PyArray_SIZE(out) !=
PyArray_MultiplyList(PyArray_DIMS(ap), PyArray_NDIM(ap) - 1)) {
PyErr_SetString(PyExc_TypeError,
"invalid shape for output array.");
}
rp = (PyArrayObject *)PyArray_FromArray(out,
PyArray_DescrFromType(PyArray_INTP),
NPY_ARRAY_CARRAY | NPY_ARRAY_UPDATEIFCOPY);
if (rp == NULL) {
goto fail;
}
}
NPY_BEGIN_THREADS_DESCR(PyArray_DESCR(ap));
n = PyArray_SIZE(ap)/m;
rptr = (intp *)PyArray_DATA(rp);
for (ip = PyArray_DATA(ap), i = 0; i < n; i++, ip += elsize*m) {
arg_func(ip, m, rptr, ap);
rptr += 1;
}
NPY_END_THREADS_DESCR(PyArray_DESCR(ap));
Py_DECREF(ap);
/* Trigger the UPDATEIFCOPY if necessary */
if (out != NULL && out != rp) {
Py_DECREF(rp);
rp = out;
Py_INCREF(rp);
}
return (PyObject *)rp;
fail:
Py_DECREF(ap);
Py_XDECREF(rp);
return NULL;
}