ResultStatus LoadFile(const std::string& filename) {
FileUtil::IOFile file(filename, "rb");
if (!file.IsOpen()) {
LOG_ERROR(Loader, "Failed to load file %s", filename.c_str());
return ResultStatus::Error;
}
std::string filename_filename, filename_extension;
Common::SplitPath(filename, nullptr, &filename_filename, &filename_extension);
FileType type = IdentifyFile(file);
FileType filename_type = GuessFromExtension(filename_extension);
if (type != filename_type) {
LOG_WARNING(Loader, "File %s has a different type than its extension.", filename.c_str());
if (FileType::Unknown == type)
type = filename_type;
}
LOG_INFO(Loader, "Loading file %s as %s...", filename.c_str(), GetFileTypeString(type));
std::unique_ptr<AppLoader> app_loader = GetLoader(std::move(file), type, filename_filename, filename);
switch (type) {
// 3DSX file format...
// or NCCH/NCSD container formats...
case FileType::THREEDSX:
case FileType::CXI:
case FileType::CCI:
{
// Load application and RomFS
ResultStatus result = app_loader->Load();
if (ResultStatus::Success == result) {
Service::FS::RegisterArchiveType(std::make_unique<FileSys::ArchiveFactory_RomFS>(*app_loader), Service::FS::ArchiveIdCode::RomFS);
return ResultStatus::Success;
}
return result;
}
// Standard ELF file format...
case FileType::ELF:
return app_loader->Load();
// CIA file format...
case FileType::CIA:
return ResultStatus::ErrorNotImplemented;
// Error occurred durring IdentifyFile...
case FileType::Error:
// IdentifyFile could know identify file type...
case FileType::Unknown:
{
LOG_CRITICAL(Loader, "File %s is of unknown type.", filename.c_str());
return ResultStatus::ErrorInvalidFormat;
}
}
return ResultStatus::Error;
}
std::unique_ptr<AppLoader> GetLoader(const std::string& filename) {
FileUtil::IOFile file(filename, "rb");
if (!file.IsOpen()) {
LOG_ERROR(Loader, "Failed to load file %s", filename.c_str());
return nullptr;
}
std::string filename_filename, filename_extension;
Common::SplitPath(filename, nullptr, &filename_filename, &filename_extension);
FileType type = IdentifyFile(file);
FileType filename_type = GuessFromExtension(filename_extension);
if (type != filename_type) {
LOG_WARNING(Loader, "File %s has a different type than its extension.", filename.c_str());
if (FileType::Unknown == type)
type = filename_type;
}
LOG_DEBUG(Loader, "Loading file %s as %s...", filename.c_str(), GetFileTypeString(type));
return GetFileLoader(std::move(file), type, filename_filename, filename);
}
/*
* Add a preservation string.
*
* "pathBuf" is assumed to have enough space to hold the current path
* plus kMaxPathGrowth more. It will be modified in place.
*/
static void AddPreservationString(NulibState* pState,
const NuPathnameProposal* pPathProposal, char* pathBuf)
{
char extBuf[kMaxPathGrowth +1];
const NuRecord* pRecord;
const NuThread* pThread;
NuThreadID threadID;
char* cp;
Assert(pState != NULL);
Assert(pPathProposal != NULL);
Assert(pathBuf != NULL);
Assert(NState_GetModPreserveType(pState));
pRecord = pPathProposal->pRecord;
pThread = pPathProposal->pThread;
Assert(pRecord != NULL);
Assert(pThread != NULL);
cp = extBuf;
/*
* Cons up a preservation string. On some platforms "sprintf" doesn't
* return the #of characters written, so we add it up manually.
*/
if (pRecord->recFileType < 0x100 && pRecord->recExtraType < 0x10000) {
sprintf(cp, "%c%02x%04x", kPreserveIndic, pRecord->recFileType,
pRecord->recExtraType);
cp += 7;
} else {
sprintf(cp, "%c%08x%08x", kPreserveIndic, pRecord->recFileType,
pRecord->recExtraType);
cp += 17;
}
threadID = NuMakeThreadID(pThread->thThreadClass, pThread->thThreadKind);
if (threadID == kNuThreadIDRsrcFork)
*cp++ = kResourceFlag;
else if (threadID == kNuThreadIDDiskImage)
*cp++ = kDiskImageFlag;
/*
* If they've asked for "extended" type preservation, then we need
* to retain either the existing extension or append an extension
* based on the ProDOS file type.
*/
if (NState_GetModPreserveTypeExtended(pState)) {
const char* pExt;
char* end;
/*
* Find extension. Note FindExtension guarantees there's at least
* one char after '.'.
*
* It's hard to know when this is right and when it isn't. It's
* fairly likely that a text file really ought to end in ".txt",
* and it's fairly unlikely that a BIN file should be ".bin", but
* where do the rest fall in? We might want to force TXT files
* to be ".txt", and perhaps do something clever for some others.
*/
if (pRecord->recFileType == 0x04 || threadID == kNuThreadIDDiskImage)
pExt = NULL;
else
pExt = FindExtension(pState, pathBuf);
if (pExt != NULL) {
pExt++; /* skip past the '.' */
if (strlen(pExt) >= kMaxExtLen) {
/* too long, forget it */
pExt = NULL;
} else {
/* if strictly decimal-numeric, don't use it (.1, .2, etc) */
(void) strtoul(pExt, &end, 10);
if (*end == '\0') {
pExt = NULL;
} else {
/* if '#' appears in it, don't use it -- it'll confuse us */
const char* ccp = pExt;
while (*ccp != '\0') {
if (*ccp == '#') {
pExt = NULL;
break;
}
ccp++;
}
}
}
} else {
/*
* There's no extension on the filename. Use the standard
* ProDOS type, if one exists for this entry. We don't use
* the table if it's "NON" or a hex value.
*/
if (threadID == kNuThreadIDDiskImage)
pExt = "PO"; /* indicate it's a ProDOS-ordered image */
else if (pRecord->recFileType) {
pExt = GetFileTypeString(pRecord->recFileType);
if (pExt[0] == '?' || pExt[0] == '$')
pExt = NULL;
}
}
if (pExt != NULL) {
*cp++ = kFilenameExtDelim;
strcpy(cp, pExt);
cp += strlen(pExt);
}
}
/* make sure it's terminated */
*cp = '\0';
Assert(cp - extBuf <= kMaxPathGrowth);
strcat(pathBuf, extBuf);
}
Param::Param(const std::string &fileName, FileType fileType)
: Param(nullptr, GetFileTypeString(fileType))
{
LoadXML(fileName, *this);
}
void mexFunction(
int nlhs, /* number of expected outputs */
mxArray *plhs[], /* array of pointers to output arguments */
int nrhs, /* number of inputs */
const mxArray *prhs[] /* array of pointers to input arguments */
)
{
size_t k,k1;
const mxArray *arg;
mxArray *HDR;
HDRTYPE *hdr;
CHANNEL_TYPE* cp;
size_t count;
time_t T0;
char *FileName=NULL;
int status;
int CHAN = 0;
int TARGETSEGMENT = 1;
double *ChanList=NULL;
int NS = -1;
char FlagOverflowDetection = 1, FlagUCAL = 0;
int argSweepSel = -1;
#ifdef CHOLMOD_H
cholmod_sparse RR,*rr=NULL;
double dummy;
#endif
// ToDO: output single data
// mxClassId FlagMXclass=mxDOUBLE_CLASS;
if (nrhs<1) {
#ifdef mexSOPEN
mexPrintf(" Usage of mexSOPEN:\n");
mexPrintf("\tHDR = mexSOPEN(f)\n");
mexPrintf(" Input:\n\tf\tfilename\n");
mexPrintf(" Output:\n\tHDR\theader structure\n\n");
#else
mexPrintf(" Usage of mexSLOAD:\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f)\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan)\n\t\tchan must be sorted in ascending order\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,ReRef)\n\t\treref is a (sparse) matrix for rerefencing\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan,'...')\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan,'OVERFLOWDETECTION:ON')\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan,'OVERFLOWDETECTION:OFF')\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan,'UCAL:ON')\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan,'UCAL:OFF')\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan,'OUTPUT:SINGLE')\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan,'TARGETSEGMENT:<N>')\n");
mexPrintf("\t[s,HDR]=mexSLOAD(f,chan,'SWEEP',[NE, NG, NS])\n");
mexPrintf(" Input:\n\tf\tfilename\n");
mexPrintf("\tchan\tlist of selected channels; 0=all channels [default]\n");
mexPrintf("\tUCAL\tON: do not calibrate data; default=OFF\n");
// mexPrintf("\tOUTPUT\tSINGLE: single precision; default='double'\n");
mexPrintf("\tOVERFLOWDETECTION\tdefault = ON\n\t\tON: values outside dynamic range are not-a-number (NaN)\n");
mexPrintf("\tTARGETSEGMENT:<N>\n\t\tselect segment <N> in multisegment files (like Nihon-Khoden), default=1\n\t\tIt has no effect for other data formats.\n");
mexPrintf("\t[NE, NG, NS] are the number of the experiment, the series and the sweep, resp. for sweep selection in HEKA/PatchMaster files. (0 indicates all)\n");
mexPrintf("\t\t examples: [1,2,3] the 3rd sweep from the 2nd series of experiment 1; [1,3,0] selects all sweeps from experiment=1, series=3. \n\n");
mexPrintf(" Output:\n\ts\tsignal data, each column is one channel\n");
mexPrintf("\tHDR\theader structure\n\n");
#endif
return;
}
/*
improve checks for input arguments
*/
/* process input arguments */
for (k = 0; k < nrhs; k++) {
arg = prhs[k];
if (mxIsEmpty(arg) && (k>0)) {
#ifdef DEBUG
mexPrintf("arg[%i] Empty\n",k);
#endif
}
else if ((k==0) && mxIsCell(arg) && mxGetNumberOfElements(arg)==1 && mxGetCell(arg,0) && mxIsChar(mxGetCell(arg,0))) {
FileName = mxArrayToString(mxGetCell(arg,0));
#ifdef DEBUG
mexPrintf("arg[%i] IsCell\n",k);
#endif
}
else if ((k==0) && mxIsStruct(arg)) {
FileName = mxArrayToString(mxGetField(prhs[k],0,"FileName"));
#ifdef DEBUG
mexPrintf("arg[%i] IsStruct\n",k);
#endif
}
#ifdef CHOLMOD_H
else if ((k==1) && mxIsSparse(arg)) {
rr = sputil_get_sparse(arg,&RR,&dummy,0);
}
#endif
else if ((k==1) && mxIsNumeric(arg)) {
#ifdef DEBUG
mexPrintf("arg[%i] IsNumeric\n",k);
#endif
ChanList = (double*)mxGetData(prhs[k]);
NS = mxGetNumberOfElements(prhs[k]);
}
else if (mxIsChar(arg)) {
#ifdef DEBUG
mexPrintf("arg[%i]=%s \n",k,mxArrayToString(prhs[k]));
#endif
if (k==0)
FileName = mxArrayToString(prhs[k]);
else if (!strcmp(mxArrayToString(prhs[k]), "CNT32"))
; // obsolete - supported for backwards compatibility
else if (!strcmp(mxArrayToString(prhs[k]), "OVERFLOWDETECTION:ON"))
FlagOverflowDetection = 1;
else if (!strcmp(mxArrayToString(prhs[k]), "OVERFLOWDETECTION:OFF"))
FlagOverflowDetection = 0;
else if (!strcmp(mxArrayToString(prhs[k]), "UCAL:ON"))
FlagUCAL = 1;
else if (!strcmp(mxArrayToString(prhs[k]), "UCAL:OFF"))
FlagUCAL = 0;
// else if (!strcmp(mxArrayToString(prhs[k]),"OUTPUT:SINGLE"))
// FlagMXclass = mxSINGLE_CLASS;
else if (!strncmp(mxArrayToString(prhs[k]),"TARGETSEGMENT:",14))
TARGETSEGMENT = atoi(mxArrayToString(prhs[k])+14);
else if (!strcasecmp(mxArrayToString(prhs[k]), "SWEEP") && (prhs[k+1] != NULL) && mxIsNumeric(prhs[k+1]))
argSweepSel = ++k;
}
else {
#ifndef mexSOPEN
mexPrintf("mexSLOAD: argument #%i is invalid.",k+1);
mexErrMsgTxt("mexSLOAD failes because of unknown parameter\n");
#else
mexPrintf("mexSOPEN: argument #%i is invalid.",k+1);
mexErrMsgTxt("mexSOPEN fails because of unknown parameter\n");
#endif
}
}
if (VERBOSE_LEVEL>7)
mexPrintf("110: input arguments checked\n");
hdr = constructHDR(0,0);
#ifdef __LIBBIOSIG2_H__
unsigned flags = (!!FlagOverflowDetection)*BIOSIG_FLAG_OVERFLOWDETECTION + (!!FlagUCAL)*BIOSIG_FLAG_UCAL;
#ifdef CHOLMOD_H
flags += (rr!=NULL)*BIOSIG_FLAG_ROW_BASED_CHANNELS;
#else
biosig_reset_flag(hdr, BIOSIG_FLAG_ROW_BASED_CHANNELS);
#endif
biosig_set_flag(hdr, flags);
biosig_set_targetsegment(hdr, TARGETSEGMENT);
// sweep selection for Heka format
if (argSweepSel>0) {
double *SZ = (double*) mxGetData(prhs[argSweepSel]);
k = 0;
while (k < mxGetNumberOfElements(prhs[argSweepSel]) && k < 5) {
biosig_set_segment_selection(hdr, k+1, (uint32_t)SZ[k]);
k++;
}
}
#else //__LIBBIOSIG2_H__
hdr->FLAG.OVERFLOWDETECTION = FlagOverflowDetection;
hdr->FLAG.UCAL = FlagUCAL;
#ifdef CHOLMOD_H
hdr->FLAG.ROW_BASED_CHANNELS = (rr!=NULL);
#else
hdr->FLAG.ROW_BASED_CHANNELS = 0;
#endif
hdr->FLAG.TARGETSEGMENT = TARGETSEGMENT;
// sweep selection for Heka format
if (argSweepSel>0) {
double *SZ = (double*) mxGetData(prhs[argSweepSel]);
k = 0;
while (k < mxGetNumberOfElements(prhs[argSweepSel]) && k < 5) {
hdr->AS.SegSel[k] = (uint32_t)SZ[k];
k++;
}
}
#endif // __LIBBIOSIG2_H__ : TODO: below, nothing is converted to level-2 interface, yet
if (VERBOSE_LEVEL>7)
mexPrintf("120: going to sopen\n");
hdr = sopen(FileName, "r", hdr);
/*
#ifdef WITH_PDP
if (hdr->AS.B4C_ERRNUM) {
hdr->AS.B4C_ERRNUM = 0;
sopen_pdp_read(hdr);
}
#endif
*/
if (VERBOSE_LEVEL>7)
mexPrintf("121: sopen done\n");
if ((status=serror2(hdr))) {
const char* fields[]={"TYPE","VERSION","FileName","FLAG","ErrNum","ErrMsg"};
HDR = mxCreateStructMatrix(1, 1, 6, fields);
#ifdef __LIBBIOSIG2_H__
mxSetField(HDR,0,"FileName",mxCreateString(biosig_get_filename(hdr)));
const char *FileTypeString = GetFileTypeString(biosig_get_filetype(hdr));
mxSetField(HDR,0,"VERSION",mxCreateDoubleScalar(biosig_get_version(hdr)));
#else
mxSetField(HDR,0,"FileName",mxCreateString(hdr->FileName));
const char *FileTypeString = GetFileTypeString(hdr->TYPE);
mxSetField(HDR,0,"VERSION",mxCreateDoubleScalar(hdr->VERSION));
#endif
mxArray *errnum = mxCreateNumericMatrix(1,1,mxUINT8_CLASS,mxREAL);
*(uint8_t*)mxGetData(errnum) = (uint8_t)status;
mxSetField(HDR,0,"ErrNum",errnum);
#ifdef HAVE_OCTAVE
// handle bug in octave: mxCreateString(NULL) causes segmentation fault
// Octave 3.2.3 causes a seg-fault in mxCreateString(NULL)
if (FileTypeString) FileTypeString="\0";
#endif
mxSetField(HDR,0,"TYPE",mxCreateString(FileTypeString));
char *msg = (char*)malloc(72+23+strlen(FileName)); // 72: max length of constant text, 23: max length of GetFileTypeString()
if (msg == NULL)
mxSetField(HDR,0,"ErrMsg",mxCreateString("Error mexSLOAD: Cannot open file\n"));
else {
if (status==B4C_CANNOT_OPEN_FILE)
sprintf(msg,"Error mexSLOAD: file %s not found.\n",FileName); /* Flawfinder: ignore *** sufficient memory is allocated above */
else if (status==B4C_FORMAT_UNKNOWN)
sprintf(msg,"Error mexSLOAD: Cannot open file %s - format %s not known.\n",FileName,FileTypeString); /* Flawfinder: ignore *** sufficient memory is allocated above */
else if (status==B4C_FORMAT_UNSUPPORTED)
sprintf(msg,"Error mexSLOAD: Cannot open file %s - format %s not supported [%s].\n", FileName, FileTypeString, hdr->AS.B4C_ERRMSG); /* Flawfinder: ignore *** sufficient memory is allocated above */
else
sprintf(msg,"Error %i mexSLOAD: Cannot open file %s - format %s not supported [%s].\n", status, FileName, FileTypeString, hdr->AS.B4C_ERRMSG); /* Flawfinder: ignore *** sufficient memory is allocated above */
mxSetField(HDR,0,"ErrMsg",mxCreateString(msg));
free(msg);
}
if (VERBOSE_LEVEL>7)
mexPrintf("737: abort mexSLOAD - sopen failed\n");
destructHDR(hdr);
if (VERBOSE_LEVEL>7)
mexPrintf("757: abort mexSLOAD - sopen failed\n");
#ifdef mexSOPEN
plhs[0] = HDR;
#else
plhs[0] = mxCreateDoubleMatrix(0,0, mxREAL);
plhs[1] = HDR;
#endif
if (VERBOSE_LEVEL>7)
mexPrintf("777: abort mexSLOAD - sopen failed\n");
return;
}
#ifdef CHOLMOD_H
RerefCHANNEL(hdr,rr,2);
#endif
if (hdr->FLAG.OVERFLOWDETECTION != FlagOverflowDetection)
mexPrintf("Warning mexSLOAD: Overflowdetection not supported in file %s\n",hdr->FileName);
if (hdr->FLAG.UCAL != FlagUCAL)
mexPrintf("Warning mexSLOAD: Flag UCAL is %i instead of %i (%s)\n",hdr->FLAG.UCAL,FlagUCAL,hdr->FileName);
if (VERBOSE_LEVEL>7)
fprintf(stderr,"[112] SOPEN-R finished NS=%i %i\n",hdr->NS,NS);
// convert2to4_eventtable(hdr);
#ifdef CHOLMOD_H
if (hdr->Calib != NULL) {
NS = hdr->Calib->ncol;
}
else
#endif
if ((NS<0) || ((NS==1) && (ChanList[0] == 0.0))) { // all channels
for (k=0, NS=0; k<hdr->NS; ++k) {
if (hdr->CHANNEL[k].OnOff) NS++;
}
}
else {
for (k=0; k<hdr->NS; ++k)
hdr->CHANNEL[k].OnOff = 0; // reset
for (k=0; k<NS; ++k) {
int ch = (int)ChanList[k];
if ((ch < 1) || (ch > hdr->NS))
mexPrintf("Invalid channel number CHAN(%i) = %i!\n",k+1,ch);
else
hdr->CHANNEL[ch-1].OnOff = 1; // set
}
}
if (VERBOSE_LEVEL>7)
fprintf(stderr,"[113] NS=%i %i\n",hdr->NS,NS);
#ifndef mexSOPEN
if (hdr->FLAG.ROW_BASED_CHANNELS)
plhs[0] = mxCreateDoubleMatrix(NS, hdr->NRec*hdr->SPR, mxREAL);
else
plhs[0] = mxCreateDoubleMatrix(hdr->NRec*hdr->SPR, NS, mxREAL);
count = sread(mxGetPr(plhs[0]), 0, hdr->NRec, hdr);
hdr->NRec = count;
#endif
sclose(hdr);
#ifdef CHOLMOD_H
if (hdr->Calib && hdr->rerefCHANNEL) {
hdr->NS = hdr->Calib->ncol;
free(hdr->CHANNEL);
hdr->CHANNEL = hdr->rerefCHANNEL;
hdr->rerefCHANNEL = NULL;
hdr->Calib = NULL;
}
#endif
if ((status=serror2(hdr))) return;
if (VERBOSE_LEVEL>7)
fprintf(stderr,"\n[129] SREAD/SCLOSE on %s successful [%i,%i] [%i,%i] %i.\n",hdr->FileName,(int)hdr->data.size[0],(int)hdr->data.size[1],(int)hdr->NRec,(int)count,(int)NS);
// hdr2ascii(hdr,stderr,4);
#ifndef mexSOPEN
if (nlhs>1) {
#endif
char* mexFileName = (char*)mxMalloc(strlen(hdr->FileName)+1);
mxArray *tmp, *tmp2, *Patient, *Manufacturer, *ID, *EVENT, *Filter, *Flag, *FileType;
uint16_t numfields;
const char *fnames[] = {"TYPE","VERSION","FileName","T0","tzmin","FILE","Patient",\
"HeadLen","NS","SPR","NRec","SampleRate", "FLAG", \
"EVENT","Label","LeadIdCode","PhysDimCode","PhysDim","Filter",\
"PhysMax","PhysMin","DigMax","DigMin","Transducer","Cal","Off","GDFTYP","TOffset",\
"LowPass","HighPass","Notch","ELEC","Impedance","fZ","AS","Dur","REC","Manufacturer",NULL};
for (numfields=0; fnames[numfields++] != NULL; );
HDR = mxCreateStructMatrix(1, 1, --numfields, fnames);
mxSetField(HDR,0,"TYPE",mxCreateString(GetFileTypeString(hdr->TYPE)));
mxSetField(HDR,0,"HeadLen",mxCreateDoubleScalar(hdr->HeadLen));
mxSetField(HDR,0,"VERSION",mxCreateDoubleScalar(hdr->VERSION));
mxSetField(HDR,0,"NS",mxCreateDoubleScalar(NS));
mxSetField(HDR,0,"SPR",mxCreateDoubleScalar(hdr->SPR));
mxSetField(HDR,0,"NRec",mxCreateDoubleScalar(hdr->NRec));
mxSetField(HDR,0,"SampleRate",mxCreateDoubleScalar(hdr->SampleRate));
mxSetField(HDR,0,"Dur",mxCreateDoubleScalar(hdr->SPR/hdr->SampleRate));
mxSetField(HDR,0,"FileName",mxCreateString(hdr->FileName));
mxSetField(HDR,0,"T0",mxCreateDoubleScalar(ldexp(hdr->T0,-32)));
mxSetField(HDR,0,"tzmin",mxCreateDoubleScalar(hdr->tzmin));
/* Channel information */
#ifdef CHOLMOD_H
/*
if (hdr->Calib == NULL) { // is refering to &RR, do not destroy
mxArray *Calib = mxCreateDoubleMatrix(hdr->Calib->nrow, hdr->Calib->ncol, mxREAL);
}
*/
#endif
mxArray *LeadIdCode = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *PhysDimCode = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *GDFTYP = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *PhysMax = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *PhysMin = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *DigMax = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *DigMin = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *Cal = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *Off = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *Toffset = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *ELEC_POS = mxCreateDoubleMatrix(NS,3, mxREAL);
/*
mxArray *ELEC_Orient = mxCreateDoubleMatrix(NS,3, mxREAL);
mxArray *ELEC_Area = mxCreateDoubleMatrix(NS,1, mxREAL);
*/
mxArray *LowPass = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *HighPass = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *Notch = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *Impedance = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *fZ = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *SPR = mxCreateDoubleMatrix(1,NS, mxREAL);
mxArray *Label = mxCreateCellMatrix(NS,1);
mxArray *Transducer = mxCreateCellMatrix(NS,1);
mxArray *PhysDim1 = mxCreateCellMatrix(NS,1);
for (k=0,k1=0; k1<NS; ++k)
if (hdr->CHANNEL[k].OnOff) {
*(mxGetPr(LeadIdCode)+k1) = (double)hdr->CHANNEL[k].LeadIdCode;
*(mxGetPr(PhysDimCode)+k1) = (double)hdr->CHANNEL[k].PhysDimCode;
*(mxGetPr(GDFTYP)+k1) = (double)hdr->CHANNEL[k].GDFTYP;
*(mxGetPr(PhysMax)+k1) = (double)hdr->CHANNEL[k].PhysMax;
*(mxGetPr(PhysMin)+k1) = (double)hdr->CHANNEL[k].PhysMin;
*(mxGetPr(DigMax)+k1) = (double)hdr->CHANNEL[k].DigMax;
*(mxGetPr(DigMin)+k1) = (double)hdr->CHANNEL[k].DigMin;
*(mxGetPr(Toffset)+k1) = (double)hdr->CHANNEL[k].TOffset;
*(mxGetPr(Cal)+k1) = (double)hdr->CHANNEL[k].Cal;
*(mxGetPr(Off)+k1) = (double)hdr->CHANNEL[k].Off;
*(mxGetPr(SPR)+k1) = (double)hdr->CHANNEL[k].SPR;
*(mxGetPr(LowPass)+k1) = (double)hdr->CHANNEL[k].LowPass;
*(mxGetPr(HighPass)+k1) = (double)hdr->CHANNEL[k].HighPass;
*(mxGetPr(Notch)+k1) = (double)hdr->CHANNEL[k].Notch;
*(mxGetPr(Impedance)+k1) = (double)hdr->CHANNEL[k].Impedance;
*(mxGetPr(fZ)+k1) = (double)hdr->CHANNEL[k].fZ;
*(mxGetPr(ELEC_POS)+k1) = (double)hdr->CHANNEL[k].XYZ[0];
*(mxGetPr(ELEC_POS)+k1+NS) = (double)hdr->CHANNEL[k].XYZ[1];
*(mxGetPr(ELEC_POS)+k1+NS*2) = (double)hdr->CHANNEL[k].XYZ[2];
/*
*(mxGetPr(ELEC_Orient)+k1) = (double)hdr->CHANNEL[k].Orientation[0];
*(mxGetPr(ELEC_Orient)+k1+NS) = (double)hdr->CHANNEL[k].Orientation[1];
*(mxGetPr(ELEC_Orient)+k1+NS*2) = (double)hdr->CHANNEL[k].Orientation[2];
*(mxGetPr(ELEC_Area)+k1) = (double)hdr->CHANNEL[k].Area;
*/
mxSetCell(Label,k1,mxCreateString(hdr->CHANNEL[k].Label));
mxSetCell(Transducer,k1,mxCreateString(hdr->CHANNEL[k].Transducer));
mxSetCell(PhysDim1,k1,mxCreateString(PhysDim3(hdr->CHANNEL[k].PhysDimCode)));
k1++;
}
mxSetField(HDR,0,"LeadIdCode",LeadIdCode);
mxSetField(HDR,0,"PhysDimCode",PhysDimCode);
mxSetField(HDR,0,"GDFTYP",GDFTYP);
mxSetField(HDR,0,"PhysMax",PhysMax);
mxSetField(HDR,0,"PhysMin",PhysMin);
mxSetField(HDR,0,"DigMax",DigMax);
mxSetField(HDR,0,"DigMin",DigMin);
mxSetField(HDR,0,"TOffset",Toffset);
mxSetField(HDR,0,"Cal",Cal);
mxSetField(HDR,0,"Off",Off);
mxSetField(HDR,0,"Impedance",Impedance);
mxSetField(HDR,0,"fZ",fZ);
mxSetField(HDR,0,"Off",Off);
mxSetField(HDR,0,"PhysDim",PhysDim1);
mxSetField(HDR,0,"Transducer",Transducer);
mxSetField(HDR,0,"Label",Label);
const char* field[] = {"XYZ","Orientation","Area","GND","REF",NULL};
for (numfields=0; field[numfields++] != 0; );
tmp = mxCreateStructMatrix(1, 1, --numfields, field);
mxSetField(tmp,0,"XYZ",ELEC_POS);
/*
mxSetField(tmp,0,"Orientation",ELEC_Orient);
mxSetField(tmp,0,"Area",ELEC_Area);
*/
mxSetField(HDR,0,"ELEC",tmp);
const char* field2[] = {"SPR",NULL};
for (numfields=0; field2[numfields++] != 0; );
tmp2 = mxCreateStructMatrix(1, 1, --numfields, field2);
mxSetField(tmp2,0,"SPR",SPR);
if (hdr->AS.bci2000!=NULL) {
mxAddField(tmp2, "BCI2000");
mxSetField(tmp2,0,"BCI2000",mxCreateString(hdr->AS.bci2000));
}
if (hdr->TYPE==Sigma) {
mxAddField(tmp2, "H1");
mxSetField(tmp2,0,"H1",mxCreateString((char*)hdr->AS.Header));
}
mxSetField(HDR,0,"AS",tmp2);
/* FLAG */
const char* field3[] = {"UCAL","OVERFLOWDETECTION","ROW_BASED_CHANNELS",NULL};
for (numfields=0; field3[numfields++] != 0; );
Flag = mxCreateStructMatrix(1, 1, --numfields, field3);
#ifdef MX_API_VER
//#if 1
// Matlab, Octave 3.6.1
mxSetField(Flag,0,"UCAL",mxCreateLogicalScalar(hdr->FLAG.UCAL));
mxSetField(Flag,0,"OVERFLOWDETECTION",mxCreateLogicalScalar(hdr->FLAG.OVERFLOWDETECTION));
mxSetField(Flag,0,"ROW_BASED_CHANNELS",mxCreateLogicalScalar(hdr->FLAG.ROW_BASED_CHANNELS));
#else
// mxCreateLogicalScalar are not included in Octave 3.0
mxSetField(Flag,0,"UCAL",mxCreateDoubleScalar(hdr->FLAG.UCAL));
mxSetField(Flag,0,"OVERFLOWDETECTION",mxCreateDoubleScalar(hdr->FLAG.OVERFLOWDETECTION));
mxSetField(Flag,0,"ROW_BASED_CHANNELS",mxCreateDoubleScalar(hdr->FLAG.ROW_BASED_CHANNELS));
#endif
mxSetField(HDR,0,"FLAG",Flag);
/* Filter */
const char *filter_fields[] = {"HighPass","LowPass","Notch",NULL};
for (numfields=0; filter_fields[numfields++] != 0; );
Filter = mxCreateStructMatrix(1, 1, --numfields, filter_fields);
mxSetField(Filter,0,"LowPass",LowPass);
mxSetField(Filter,0,"HighPass",HighPass);
mxSetField(Filter,0,"Notch",Notch);
mxSetField(HDR,0,"Filter",Filter);
/* annotation, marker, event table */
const char *event_fields[] = {"SampleRate","TYP","POS","DUR","CHN","Desc",NULL};
if (hdr->EVENT.DUR == NULL)
EVENT = mxCreateStructMatrix(1, 1, 3, event_fields);
else {
EVENT = mxCreateStructMatrix(1, 1, 5, event_fields);
mxArray *DUR = mxCreateDoubleMatrix(hdr->EVENT.N,1, mxREAL);
mxArray *CHN = mxCreateDoubleMatrix(hdr->EVENT.N,1, mxREAL);
for (k=0; k<hdr->EVENT.N; ++k) {
*(mxGetPr(DUR)+k) = (double)hdr->EVENT.DUR[k];
*(mxGetPr(CHN)+k) = (double)hdr->EVENT.CHN[k]; // channels use a 1-based index, 0 indicates all channels
}
mxSetField(EVENT,0,"DUR",DUR);
mxSetField(EVENT,0,"CHN",CHN);
}
if (hdr->EVENT.CodeDesc != NULL) {
mxAddField(EVENT, "CodeDesc");
mxArray *CodeDesc = mxCreateCellMatrix(hdr->EVENT.LenCodeDesc-1,1);
for (k=1; k < hdr->EVENT.LenCodeDesc; ++k) {
mxSetCell(CodeDesc,k-1,mxCreateString(hdr->EVENT.CodeDesc[k]));
}
mxSetField(EVENT,0,"CodeDesc",CodeDesc);
}
mxArray *TYP = mxCreateDoubleMatrix(hdr->EVENT.N,1, mxREAL);
mxArray *POS = mxCreateDoubleMatrix(hdr->EVENT.N,1, mxREAL);
for (k=0; k<hdr->EVENT.N; ++k) {
*(mxGetPr(TYP)+k) = (double)hdr->EVENT.TYP[k];
*(mxGetPr(POS)+k) = (double)hdr->EVENT.POS[k]+1; // conversion from 0-based to 1-based indexing
}
mxSetField(EVENT,0,"TYP",TYP);
mxSetField(EVENT,0,"POS",POS);
#if (BIOSIG_VERSION >= 10500)
if (hdr->EVENT.TimeStamp) {
mxArray *TimeStamp = mxCreateDoubleMatrix(hdr->EVENT.N,1, mxREAL);
for (k=0; k<hdr->EVENT.N; ++k) {
*(mxGetPr(TimeStamp)+k) = ldexp(hdr->EVENT.TimeStamp[k],-32);
}
mxAddField(EVENT, "TimeStamp");
mxSetField(EVENT,0,"TimeStamp",TimeStamp);
}
#endif
mxSetField(EVENT,0,"SampleRate",mxCreateDoubleScalar(hdr->EVENT.SampleRate));
mxSetField(HDR,0,"EVENT",EVENT);
/* Record identification */
const char *ID_fields[] = {"Recording","Technician","Hospital","Equipment","IPaddr",NULL};
for (numfields=0; ID_fields[numfields++] != 0; );
ID = mxCreateStructMatrix(1, 1, --numfields, ID_fields);
mxSetField(ID,0,"Recording",mxCreateString(hdr->ID.Recording));
mxSetField(ID,0,"Technician",mxCreateString(hdr->ID.Technician));
mxSetField(ID,0,"Hospital",mxCreateString(hdr->ID.Hospital));
mxSetField(ID,0,"Equipment",mxCreateString((char*)&hdr->ID.Equipment));
int len = 4;
uint8_t IPv6=0;
for (k=4; k<16; k++) IPv6 |= hdr->IPaddr[k];
if (IPv6) len=16;
mxArray *IPaddr = mxCreateNumericMatrix(1,len,mxUINT8_CLASS,mxREAL);
memcpy(mxGetData(IPaddr),hdr->IPaddr,len);
mxSetField(ID,0,"IPaddr",IPaddr);
mxSetField(HDR,0,"REC",ID);
/* Patient Information */
const char *patient_fields[] = {"Sex","Handedness","Id","Name","Weight","Height","Birthday",NULL};
for (numfields=0; patient_fields[numfields++] != 0; );
Patient = mxCreateStructMatrix(1, 1, --numfields, patient_fields);
const char *strarray[1];
#ifdef __LIBBIOSIG2_H__
strarray[0] = biosig_get_patient_name(hdr);
if (strarray[0]) {
mxSetField(Patient,0,"Name",mxCreateCharMatrixFromStrings(1,strarray));
}
strarray[0] = biosig_get_patient_id(hdr);
if (strarray[0]) {
mxSetField(Patient,0,"Id",mxCreateCharMatrixFromStrings(1,strarray));
}
#else
strarray[0] = hdr->Patient.Name;
if (strarray[0]) {
mxSetField(Patient,0,"Name",mxCreateCharMatrixFromStrings(1,strarray));
}
strarray[0] = hdr->Patient.Id;
if (strarray[0]) {
mxSetField(Patient,0,"Id",mxCreateCharMatrixFromStrings(1,strarray));
}
#endif
mxSetField(Patient,0,"Handedness",mxCreateDoubleScalar(hdr->Patient.Handedness));
mxSetField(Patient,0,"Sex",mxCreateDoubleScalar(hdr->Patient.Sex));
mxSetField(Patient,0,"Weight",mxCreateDoubleScalar((double)hdr->Patient.Weight));
mxSetField(Patient,0,"Height",mxCreateDoubleScalar((double)hdr->Patient.Height));
mxSetField(Patient,0,"Birthday",mxCreateDoubleScalar(ldexp(hdr->Patient.Birthday,-32)));
double d;
if (hdr->Patient.Weight==0) d = NAN; // not-a-number
else if (hdr->Patient.Weight==255) d = INFINITY; // Overflow
else d = (double)hdr->Patient.Weight;
mxSetField(Patient,0,"Weight",mxCreateDoubleScalar(d));
if (hdr->Patient.Height==0) d = NAN; // not-a-number
else if (hdr->Patient.Height==255) d = INFINITY; // Overflow
else d = (double)hdr->Patient.Height;
mxSetField(Patient,0,"Height",mxCreateDoubleScalar(d));
/* Manufacturer Information */
const char *manufacturer_fields[] = {"Name","Model","Version","SerialNumber",NULL};
for (numfields=0; manufacturer_fields[numfields++] != 0; );
Manufacturer = mxCreateStructMatrix(1, 1, --numfields, manufacturer_fields);
#ifdef __LIBBIOSIG2_H__
strarray[0] = biosig_get_manufacturer_name(hdr);
if (strarray[0]) {
mxSetField(Manufacturer,0,"Name",mxCreateCharMatrixFromStrings(1,strarray));
}
strarray[0] = biosig_get_manufacturer_model(hdr);
if (strarray[0]) {
biosig_get_manufacturer_model(hdr);
mxSetField(Manufacturer,0,"Model",mxCreateCharMatrixFromStrings(1,strarray));
}
strarray[0] = biosig_get_manufacturer_version(hdr);
if (strarray[0]) {
biosig_get_manufacturer_version(hdr);
mxSetField(Manufacturer,0,"Version",mxCreateCharMatrixFromStrings(1,strarray));
}
strarray[0] = biosig_get_manufacturer_serial_number(hdr);
if (strarray[0]) {
mxSetField(Manufacturer,0,"SerialNumber",mxCreateCharMatrixFromStrings(1,strarray));
}
#else
strarray[0] = hdr->ID.Manufacturer.Name;
if (strarray[0]) {
mxSetField(Manufacturer,0,"Name",mxCreateCharMatrixFromStrings(1,strarray));
}
strarray[0] = hdr->ID.Manufacturer.Model;
if (strarray[0]) {
mxSetField(Manufacturer,0,"Model",mxCreateCharMatrixFromStrings(1,strarray));
}
strarray[0] = hdr->ID.Manufacturer.Version;
if (strarray[0]) {
mxSetField(Manufacturer,0,"Version",mxCreateCharMatrixFromStrings(1,strarray));
}
strarray[0] = hdr->ID.Manufacturer.SerialNumber;
if (strarray[0]) {
mxSetField(Manufacturer,0,"SerialNumber",mxCreateCharMatrixFromStrings(1,strarray));
}
#endif
mxSetField(HDR,0,"Manufacturer",Manufacturer);
if (VERBOSE_LEVEL>7)
fprintf(stdout,"[148] going for SCLOSE\n");
mxSetField(HDR,0,"Patient",Patient);
#ifndef mexSOPEN
plhs[1] = HDR;
}
#else
plhs[0] = HDR;
#endif
if (VERBOSE_LEVEL>7) fprintf(stdout,"[151] going for SCLOSE\n");
#ifdef CHOLMOD_H
hdr->Calib = NULL; // is refering to &RR, do not destroy
#endif
if (VERBOSE_LEVEL>7) fprintf(stdout,"[156] SCLOSE finished\n");
destructHDR(hdr);
hdr = NULL;
if (VERBOSE_LEVEL>7) fprintf(stdout,"[157] SCLOSE finished\n");
};
