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Use new annotations in EVE and CSL loaders

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This commit is contained in:
Phil Olynyk 2019-08-15 20:30:54 -04:00
parent b8b4acb804
commit e5d1723c27
1 changed files with 78 additions and 235 deletions
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313
oscar/SleepLib/loader_plugins/resmed_loader.cpp
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@ -2147,135 +2147,54 @@ bool ResmedLoader::LoadCSL(Session *sess, const QString & path)
QString t; QString t;
// long recs; // long recs;
double duration; // double duration;
char *data; // char *data;
// char c; // char c;
long pos; // long pos;
bool sign, ok; // bool sign, ok;
double d; // double d;
double tt; double tt;
// Notes: Event headers have useless duration value.
// sess->updateFirst(edf.startdate);
EventList *CSR = nullptr; EventList *CSR = nullptr;
// Allow for empty sessions.. // Allow for empty sessions..
qint64 csr_starts = 0; qint64 csr_starts = 0;
// Process event annotation records // Process event annotation records
for (int s = 0; s < edf.GetNumSignals(); s++) { qDebug() << "File has " << edf.annotations.size() << "annotation vectors";
int recs = edf.edfsignals[s].sampleCnt * edf.GetNumDataRecords() * 2; int vec = 1;
for (auto annoVec = edf.annotations.begin(); annoVec != edf.annotations.end(); annoVec++ ) {
qDebug() << "Vector " << vec++ << " has " << annoVec->size() << " annotations";
for (auto anno = annoVec->begin(); anno != annoVec->end(); anno++ ) {
qDebug() << "Offset: " << anno->offset << " Duration: " << anno->duration << " Text: " << anno->text;
tt = edf.startdate + qint64(anno->offset*1000.0);
data = (char *)edf.edfsignals[s].dataArray; if ( ! anno->text.isEmpty()) {
pos = 0; if (anno->text == "csr start") {
tt = edf.startdate; csr_starts = tt;
// sess->updateFirst(tt); } else if (anno->text == "csr end") {
duration = 0; if ( ! CSR) {
CSR = sess->AddEventList(CPAP_CSR, EVL_Event);
while (pos < recs) {
char c = data[pos];
if ((c != '+') && (c != '-')) {
break;
}
if (data[pos++] == '+') { sign = true; }
else { sign = false; }
t = "";
c = data[pos];
do {
t += c;
pos++;
c = data[pos];
} while ((c != 20) && (c != 21)); // start code
d = t.toDouble(&ok);
if (!ok) {
qDebug() << "Faulty EDF CSL file " << edf.filename;
break;
}
if (!sign) { d = -d; }
tt = edf.startdate + qint64(d * 1000.0);
duration = 0;
// First entry
if (data[pos] == 21) {
pos++;
// get duration.
t = "";
do {
t += data[pos];
pos++;
} while ((data[pos] != 20) && (pos < recs)); // start code
duration = t.toDouble(&ok);
if (!ok) {
qDebug() << "Faulty EDF CSL file (at %" << pos << ") " << edf.filename;
break;
}
}
while ((data[pos] == 20) && (pos < recs)) {
t = "";
pos++;
if (data[pos] == 0) {
break;
}
if (data[pos] == 20) {
pos++;
break;
}
do {
t += tolower(data[pos++]);
} while ((data[pos] != 20) && (pos < recs)); // start code
if (!t.isEmpty()) {
if (t == "csr start") {
csr_starts = tt;
} else if (t == "csr end") {
if (!CSR) {
CSR = sess->AddEventList(CPAP_CSR, EVL_Event);
}
if (csr_starts > 0) {
if (sess->checkInside(csr_starts)) {
CSR->AddEvent(tt, double(tt - csr_starts) / 1000.0);
}
csr_starts = 0;
} else {
qDebug() << "If you can read this, ResMed sucks and split CSR flagging!";
}
} else if (t != "recording starts") {
qDebug() << "Unobserved ResMed CSL annotation field: " << t;
} }
if (csr_starts > 0) {
if (sess->checkInside(csr_starts)) {
CSR->AddEvent(tt, double(tt - csr_starts) / 1000.0);
}
csr_starts = 0;
} else {
qDebug() << "Split csr event flag in " << edf.filename;
}
} else if (t != "recording starts") {
qDebug() << "Unobserved ResMed CSL annotation field: " << t;
} }
if (pos >= recs) {
qDebug() << "Short EDF CSL file" << edf.filename;
break;
}
// pos++;
} }
while ((pos < recs) && (data[pos] == 0)) { pos++; }
if (pos >= recs) { break; }
} }
// sess->updateLast(tt);
} }
Q_UNUSED(duration) if (csr_starts > 0) {
qDebug() << "Unfinished csr event in " << edf.filename;
}
#ifdef DEBUG_EFFICIENCY #ifdef DEBUG_EFFICIENCY
timeMutex.lock(); timeMutex.lock();
timeInLoadCSL += time.elapsed(); timeInLoadCSL += time.elapsed();
@ -2306,15 +2225,15 @@ bool ResmedLoader::LoadEVE(Session *sess, const QString & path)
time.start(); time.start();
#endif #endif
QString t; // QString t;
long recs; // long recs;
double duration=0; // double duration=0;
char *data; // char *data;
char c; // char c;
long pos; // long pos;
bool sign, ok; // bool sign, ok;
double d; // double d;
double tt; double tt;
// Notes: Event records have useless duration record. // Notes: Event records have useless duration record.
@ -2324,132 +2243,56 @@ bool ResmedLoader::LoadEVE(Session *sess, const QString & path)
// Allow for empty sessions.. // Allow for empty sessions..
// Create EventLists // Create some EventLists
OA = sess->AddEventList(CPAP_Obstructive, EVL_Event); OA = sess->AddEventList(CPAP_Obstructive, EVL_Event);
HY = sess->AddEventList(CPAP_Hypopnea, EVL_Event); HY = sess->AddEventList(CPAP_Hypopnea, EVL_Event);
UA = sess->AddEventList(CPAP_Apnea, EVL_Event); UA = sess->AddEventList(CPAP_Apnea, EVL_Event);
// Process event annotation records // Process event annotation records
for (int s = 0; s < edf.GetNumSignals(); s++) { qDebug() << "File has " << edf.annotations.size() << "annotation vectors";
recs = edf.edfsignals[s].sampleCnt * edf.GetNumDataRecords() * 2; int vec = 1;
for (auto annoVec = edf.annotations.begin(); annoVec != edf.annotations.end(); annoVec++ ) {
qDebug() << "Vector " << vec++ << " has " << annoVec->size() << " annotations";
for (auto anno = annoVec->begin(); anno != annoVec->end(); anno++ ) {
qDebug() << "Offset: " << anno->offset << " Duration: " << anno->duration << " Text: " << anno->text;
tt = edf.startdate + qint64(anno->offset*1000.0);
data = (char *)edf.edfsignals[s].dataArray; if ( ! anno->text.isEmpty()) {
pos = 0; if (matchSignal(CPAP_Obstructive, anno->text)) {
tt = edf.startdate; if (sess->checkInside(tt))
OA->AddEvent(tt, anno->duration);
while (pos < recs) { } else if (matchSignal(CPAP_Hypopnea, anno->text)) {
c = data[pos]; if (sess->checkInside(tt))
HY->AddEvent(tt, anno->duration); // Hyponeas don't have any duration!
if ((c != '+') && (c != '-')) { } else if (matchSignal(CPAP_Apnea, anno->text)) {
break; if (sess->checkInside(tt))
} UA->AddEvent(tt, anno->duration);
} else if (matchSignal(CPAP_RERA, anno->text)) {
if (data[pos++] == '+') { sign = true; } // Not all machines have it, so only create it when necessary..
else { sign = false; } if (!RE) {
if (!(RE = sess->AddEventList(CPAP_RERA, EVL_Event)))
t = ""; return false;
c = data[pos]; }
if (sess->checkInside(tt))
do { RE->AddEvent(tt, anno->duration);
t += c; } else if (matchSignal(CPAP_ClearAirway, anno->text)) {
pos++; // Not all machines have it, so only create it when necessary..
c = data[pos]; if (!CA) {
} while ((c != 20) && (c != 21)); // start code if (!(CA = sess->AddEventList(CPAP_ClearAirway, EVL_Event)))
return false;
d = t.toDouble(&ok); }
if (sess->checkInside(tt))
if (!ok) { CA->AddEvent(tt, anno->duration);
qDebug() << "Faulty EDF EVE file " << edf.filename; } else {
break; if (anno->text != "recording starts") {
} qDebug() << "Unobserved ResMed annotation field: " << anno->text;
if (!sign) { d = -d; }
tt = edf.startdate + qint64(d * 1000.0);
duration = 0;
// First entry
if (data[pos] == 21) {
pos++;
// get duration.
t = "";
do {
t += data[pos];
pos++;
} while ((data[pos] != 20) && (pos < recs)); // start code
duration = t.toDouble(&ok);
if (!ok) {
qDebug() << "Faulty EDF EVE file (at %" << pos << ") " << edf.filename;
break;
}
}
while ((data[pos] == 20) && (pos < recs)) {
t = "";
pos++;
if (data[pos] == 0) {
break;
}
if (data[pos] == 20) {
pos++;
break;
}
do {
t += tolower(data[pos++]);
} while ((data[pos] != 20) && (pos < recs)); // start code
if (!t.isEmpty()) {
if (matchSignal(CPAP_Obstructive, t)) {
if (sess->checkInside(tt)) OA->AddEvent(tt, duration);
} else if (matchSignal(CPAP_Hypopnea, t)) {
if (sess->checkInside(tt)) HY->AddEvent(tt, duration /*+ 10*/); // Only Hyponea's Need the extra duration???
} else if (matchSignal(CPAP_Apnea, t)) {
if (sess->checkInside(tt)) UA->AddEvent(tt, duration);
} else if (matchSignal(CPAP_RERA, t)) {
// Not all machines have it, so only create it when necessary..
if (!RE) {
if (!(RE = sess->AddEventList(CPAP_RERA, EVL_Event))) {
return false;
}
}
if (sess->checkInside(tt)) RE->AddEvent(tt, duration);
} else if (matchSignal(CPAP_ClearAirway, t)) {
// Not all machines have it, so only create it when necessary..
if (!CA) {
if (!(CA = sess->AddEventList(CPAP_ClearAirway, EVL_Event))) {
return false;
}
}
if (sess->checkInside(tt)) CA->AddEvent(tt, duration);
} else {
if (t != "recording starts") {
qDebug() << "Unobserved ResMed annotation field: " << t;
}
} }
} }
if (pos >= recs) {
qDebug() << "Short EDF EVE file" << edf.filename;
break;
}
// pos++;
} }
while ((pos < recs) && (data[pos] == 0)) { pos++; }
if (pos >= recs) { break; }
} }
} }
#ifdef DEBUG_EFFICIENCY #ifdef DEBUG_EFFICIENCY
timeMutex.lock(); timeMutex.lock();
timeInLoadEVE += time.elapsed(); timeInLoadEVE += time.elapsed();