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#include "data.h"
#include "fileio.h"
#include "utils.h"
#include <tjutils/tjtest.h>
//////////////////////////////////////////////////
int fileio_autowrite(const Data<float,4>& data, const STD_string& filename, const FileWriteOpts& opts, const Protocol* prot) {
Log<OdinData> odinlog("","fileio_autowrite");
FileIO::ProtocolDataMap pdmap;
ODINLOG(odinlog,normalDebug) << "filename:opts.format:opts.datatype=" << filename << ":" << opts.format << ":" << opts.datatype << STD_endl;
if(prot) {
pdmap[*prot].reference(data);
} else {
Protocol prot;
// set extensions in the protocol
prot.seqpars.set_NumOfRepetitions(data.extent(0));
prot.geometry.set_nSlices(data.extent(1));
prot.seqpars.set_MatrixSize(phaseDirection,data.extent(2));
prot.seqpars.set_MatrixSize(readDirection,data.extent(3));
pdmap[prot].reference(data);
}
return FileIO::autowrite(pdmap, filename, opts);
}
int fileio_autoread(Data<float,4>& data, const STD_string& filename, const FileReadOpts& opts, Protocol* prot, ProgressMeter* progmeter) {
Log<OdinData> odinlog("","fileio_autoread");
FileIO::ProtocolDataMap pdmap;
ODINLOG(odinlog,normalDebug) << "data/filename/prot=" << data.shape() << "/" << filename << "/" << prot << STD_endl;
Protocol protocol_template;
// set defaults for reading raw data
protocol_template.seqpars.set_MatrixSize(readDirection,1);
protocol_template.seqpars.set_MatrixSize(phaseDirection,1);
protocol_template.seqpars.set_MatrixSize(sliceDirection,1);
if(prot) protocol_template=(*prot);
int result=FileIO::autoread(pdmap, filename, opts, protocol_template, progmeter);
if(result<0) return -1;
FileIO::ProtocolDataMap::const_iterator it=pdmap.begin();
if(it!=pdmap.end()) {
if(prot) (*prot)=it->first;
data.reference(it->second);
} else {
ODINLOG(odinlog,errorLog) << "Empty protocol-data map" << STD_endl;
return -1;
}
return result;
}
//////////////////////////////////////////////////
// Unit Test
#ifndef NO_UNIT_TEST
class DataTest : public UnitTest {
public:
DataTest() : UnitTest("Data") {}
private:
template <typename Type, int Rank>
bool conversion_test(const Data<float,2>& testarray) const {
Log<UnitTest> odinlog(this,"conversion_test");
Data<Type,Rank> dst; testarray.convert_to(dst);
STD_string prefix=STD_string("convert_to<")+TypeTraits::type2label((Type)0)+","+itos(Rank)+"> failed, ";
TinyVector<int,Rank> expected_shape; expected_shape=1;
expected_shape(Rank-1)*=testarray.extent(1);
expected_shape(STD_max(0,Rank-2))*=testarray.extent(0);
if(expected_shape!=dst.shape()) {
ODINLOG(odinlog,errorLog) << prefix << "wrong shape=" << dst.shape() << ", but expected " << expected_shape << STD_endl;
return false;
}
if(std::numeric_limits<Type>::is_integer) {
// just check whether numeric range is fully covered for full-scale mode
float minnum=std::numeric_limits<Type>::min();
float maxnum=std::numeric_limits<Type>::max();
float deltanum=maxnum-minnum;
float minval=min(dst);
float maxval=max(dst);
float relmaxdiff_plus=fabs(maxval-maxnum)/deltanum;
float relmaxdiff_minus=fabs(minval-minnum)/deltanum;
if(relmaxdiff_plus>.02 && relmaxdiff_minus>.02) {
ODINLOG(odinlog,errorLog) << prefix << "auto-scale range relmaxdiff=" << relmaxdiff_minus << "/" << relmaxdiff_plus << STD_endl;
ODINLOG(odinlog,errorLog) << "minval/maxval=" << minval << "/" << maxval << STD_endl;
ODINLOG(odinlog,errorLog) << "minnum/maxnum=" << minnum << "/" << maxnum << STD_endl;
return false;
}
// Convert back to float
Data<float,2> dstfloat;
dst.convert_to(dstfloat);
minval=min(dstfloat);
maxval=max(dstfloat);
relmaxdiff_plus=fabs(maxval-maxnum)/deltanum;
relmaxdiff_minus=fabs(minval-minnum)/deltanum;
if(relmaxdiff_plus>.02 && relmaxdiff_minus>.02) {
ODINLOG(odinlog,errorLog) << prefix << "convert-back relmaxdiff=" << relmaxdiff_minus << "/" << relmaxdiff_plus << STD_endl;
ODINLOG(odinlog,errorLog) << "minval/maxval=" << minval << "/" << maxval << STD_endl;
ODINLOG(odinlog,errorLog) << "minnum/maxnum=" << minnum << "/" << maxnum << STD_endl;
return false;
}
// Test down-scaling separately
Data<float,2> largevals(testarray.copy());largevals(3,3)=minnum-100.0;largevals(2,2)=maxnum+100.0; // Make sure data is out of range of Type
largevals.convert_to(dst);
minval=min(dst);
maxval=max(dst);
relmaxdiff_plus=fabs(maxval-maxnum)/deltanum;
relmaxdiff_minus=fabs(minval-minnum)/deltanum;
if(relmaxdiff_plus>.02 && relmaxdiff_minus>.02) {
ODINLOG(odinlog,errorLog) << prefix << "down-scale range relmaxdiff=" << relmaxdiff_minus << "/" << relmaxdiff_plus << STD_endl;
ODINLOG(odinlog,errorLog) << "minval/maxval=" << minval << "/" << maxval << STD_endl;
ODINLOG(odinlog,errorLog) << "minnum/maxnum=" << minnum << "/" << maxnum << STD_endl;
return false;
}
// Test up-scaling
Data<float,2> smallvals(testarray.copy()); smallvals*=0.001/STD_max(fabs(min(testarray)),fabs(max(testarray)));
smallvals.convert_to(dst);
minval=min(dst);
maxval=max(dst);
relmaxdiff_plus=fabs(maxval-maxnum)/deltanum;
relmaxdiff_minus=fabs(minval-minnum)/deltanum;
if(relmaxdiff_plus>.02 && deltanum>.02) {
ODINLOG(odinlog,errorLog) << prefix << "up-scale range relmaxdiff=" << relmaxdiff_minus << "/" << relmaxdiff_plus << STD_endl;
ODINLOG(odinlog,errorLog) << "smallvals=" << smallvals << STD_endl;
ODINLOG(odinlog,errorLog) << "minval/maxval=" << minval << "/" << maxval << STD_endl;
ODINLOG(odinlog,errorLog) << "minnum/maxnum=" << minnum << "/" << maxnum << STD_endl;
return false;
}
/*
// Test non-upscaled conversion of small numbers
smallvals.convert_to(dst,noupscale);
minval=min(dst);
maxval=max(dst);
if(minval || maxval) { // should be zero
ODINLOG(odinlog,errorLog) << prefix << "noupscale failed" << STD_endl;
ODINLOG(odinlog,errorLog) << "smallvals=" << smallvals << STD_endl;
ODINLOG(odinlog,errorLog) << "minval/maxval=" << minval << "/" << maxval << STD_endl;
ODINLOG(odinlog,errorLog) << "minnum/maxnum=" << minnum << "/" << maxnum << STD_endl;
return false;
}
*/
// do an additional test without auto-scaling if data is signed
if(std::numeric_limits<Type>::is_signed) {
testarray.convert_to(dst,false);
float sumdiff=sum(dst)-sum(testarray);
if(fabs(sumdiff)>0.1) {
ODINLOG(odinlog,errorLog) << prefix << "no-scale sum sumdiff=" << sumdiff << STD_endl;
ODINLOG(odinlog,errorLog) << "dst=" << dst << STD_endl;
ODINLOG(odinlog,errorLog) << "testarray=" << testarray << STD_endl;
return false;
}
}
} else {
for(unsigned int i=0; i<testarray.size(); i++) {
TinyVector<int,2> testindex=testarray.create_index(i);
TinyVector<int,Rank> dstindex=dst.create_index(i);
if(testarray(testindex)!=dst(dstindex)) {
ODINLOG(odinlog,errorLog) << prefix << "value mismatch at index " << testindex << STD_endl;
ODINLOG(odinlog,errorLog) << testarray(testindex) << " != " << dst(dstindex) << STD_endl;
return false;
}
}
}
return true;
}
template <typename Type>
bool readwrite_mmap_test(const Data<float,2>& testarray) const {
Log<UnitTest> odinlog(this,"readwrite_mmap_test");
Data<Type,2> dst; testarray.convert_to(dst);
STD_string prefix=STD_string("read/write/mmap<")+TypeTraits::type2label((Type)0)+"> failed, ";
STD_string testfname(tempfile());
// Testing (f)write against filemap
int testoffset=10000; // bytes
Data<u8bit,1>(testfname, false, testoffset); // Create offset
if(dst.write(testfname, appendMode)) { // append to offset
ODINLOG(odinlog,errorLog) << prefix << "write(" << testfname <<")" << STD_endl;
return false;
}
Data<Type,2> mmappedarray(testfname, true, testarray.shape(), testoffset);
if(!mmappedarray.is_filemapped()) {
ODINLOG(odinlog,errorLog) << prefix << "filemap of >" << testfname << "<" << STD_endl;
return false;
}
if(mmappedarray.shape()!=dst.shape()) {
ODINLOG(odinlog,errorLog) << prefix << "wrong shape=" << mmappedarray.shape() << ", but expected " << dst.shape() << STD_endl;
return false;
}
for(unsigned int i=0; i<dst.size(); i++) {
TinyVector<int,2> index=dst.create_index(i);
if(mmappedarray(index)!=dst(index)) {
ODINLOG(odinlog,errorLog) << prefix << "mmap value mismatch at index " << index << STD_endl;
ODINLOG(odinlog,errorLog) << mmappedarray(index) << " != " << dst(index) << STD_endl;
return false;
}
}
// Cross-wise testing of template vs. format read/write
if(testarray.write(TypeTraits::type2label((Type)0),testfname,true)) { // implicit conversion, use full range of integer
ODINLOG(odinlog,errorLog) << prefix << "write(" << TypeTraits::type2label((Type)0) << "," << testfname <<")" << STD_endl;
return false;
}
#if __GNUC__ > 3 // The following gives parse error on earlier GCC versions
Data<float,2> testread(testarray.shape());
testread=0.0;
if(testread.read<Type>(testfname)) {
ODINLOG(odinlog,errorLog) << "read<" << TypeTraits::type2label((Type)0) << ">(" << testfname <<")" << STD_endl;
return false;
}
if(std::numeric_limits<Type>::is_integer) {
// Check wheter full range was used
float minnum=std::numeric_limits<Type>::min();
float maxnum=std::numeric_limits<Type>::max();
float deltanum=maxnum-minnum;
float minval=min(testread);
float maxval=max(testread);
float relmaxdiff_plus=fabs(maxval-maxnum)/deltanum;
float relmaxdiff_minus=fabs(minval-minnum)/deltanum;
if(relmaxdiff_plus>.02 && relmaxdiff_minus>.02) {
ODINLOG(odinlog,errorLog) << prefix << "read relmaxdiff=" << relmaxdiff_minus << "/" << relmaxdiff_plus << STD_endl;
ODINLOG(odinlog,errorLog) << "minval/maxval=" << minval << "/" << maxval << STD_endl;
ODINLOG(odinlog,errorLog) << "minnum/maxnum=" << minnum << "/" << maxnum << STD_endl;
return false;
}
} else {
if(testarray.shape()!=testread.shape()) {
ODINLOG(odinlog,errorLog) << prefix << "shape mismatch: " << testarray.shape() << " != " << testread.shape() << STD_endl;
return false;
}
for(unsigned int i=0; i<testarray.size(); i++) { // convert both implicitely and explicitely converted arrays
TinyVector<int,2> index=testarray.create_index(i);
if(testarray(index)!=testread(index)) {
ODINLOG(odinlog,errorLog) << prefix << "read/write value mismatch at index " << index << STD_endl;
ODINLOG(odinlog,errorLog) << testarray(index) << " != " << testread(index) << STD_endl;
return false;
}
}
}
#endif
return true;
}
bool check() const {
Log<UnitTest> odinlog(this,"check");
int testsize=10;
Data<float,2> testarray(testsize,testsize);
// checking create_index against create_linear_index, thereby filling testarray
TinyVector<int,2> indexvec;
for(unsigned int i=0; i<testarray.numElements(); i++) {
indexvec=testarray.create_index(i);
unsigned int linindex=testarray.create_linear_index(indexvec);
if(linindex!=i) {
ODINLOG(odinlog,errorLog) << "linindex/i/indexvec=" << linindex << "/" << i << "/" << indexvec << STD_endl;
ODINLOG(odinlog,errorLog) << "indexvec test failed" << STD_endl;
return false;
}
testarray(indexvec)=pow(-1.0,indexvec(0))*sqrt(float(sum(indexvec))); // some real-valued pos and neg values
}
Data<float,2> testarray_copy(testarray);
testarray_copy.makeUnique();
// test cyclical identitiy shift
testarray.shift(1,3);
float diff=sum(abs(testarray-testarray_copy));
if(!diff) {
ODINLOG(odinlog,errorLog) << "shift ineffective, zero diff" << STD_endl;
return false;
}
testarray.shift(1,4);
testarray.shift(1,3);
diff=sum(abs(testarray-testarray_copy));
if(diff) {
ODINLOG(odinlog,errorLog) << "cyclical shift failed, diff=" << diff << STD_endl;
return false;
}
if(!conversion_test<float,2>(testarray)) return false;
if(!conversion_test<float,1>(testarray)) return false;
if(!conversion_test<float,4>(testarray)) return false;
if(!conversion_test<u8bit,3>(testarray)) return false;
if(!conversion_test<s8bit,3>(testarray)) return false;
if(!conversion_test<u16bit,3>(testarray)) return false;
if(!conversion_test<s16bit,3>(testarray)) return false;
if(!conversion_test<u32bit,3>(testarray)) return false;
if(!conversion_test<s32bit,3>(testarray)) return false;
// Testing complex conversion and convert_from_ptr() simultaneously
Data<STD_complex,2> cmplxarr; testarray.convert_to(cmplxarr);
Data<float,2> testarray2;
convert_from_ptr(testarray2, cmplxarr.c_array(), testarray.shape());
diff=sum(testarray-testarray2);
if(diff) {
ODINLOG(odinlog,errorLog) << "convert_to/from_ptr failed, diff=" << diff << STD_endl;
ODINLOG(odinlog,errorLog) << "testarray=" << testarray << STD_endl;
ODINLOG(odinlog,errorLog) << "cmplxarr=" << cmplxarr << STD_endl;
ODINLOG(odinlog,errorLog) << "testarray2=" << testarray2 << STD_endl;
return false;
}
if(!readwrite_mmap_test<float>(testarray)) return false;
if(!readwrite_mmap_test<double>(testarray)) return false;
if(!readwrite_mmap_test<u8bit>(testarray)) return false;
if(!readwrite_mmap_test<s8bit>(testarray)) return false;
if(!readwrite_mmap_test<u16bit>(testarray)) return false;
if(!readwrite_mmap_test<s16bit>(testarray)) return false;
if(!readwrite_mmap_test<u32bit>(testarray)) return false;
if(!readwrite_mmap_test<s32bit>(testarray)) return false;
// testing conversion to from tjarray
farray fa(testarray);
Data<float,4> testarray4d(fa); // should be padded with ones at front
return true;
}
};
void alloc_DataTest() {new DataTest();} // create test instance
#endif
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