edfcore 0.2.17 → 0.2.19

package/CHANGELOG.md

@@ -6,6 +6,37 @@ alone does not tell you whether you were affected.
 edfcore is pre-1.0. Patch releases have carried behaviour changes where the old behaviour was a
 defect; those are called out below.
 
+## 0.2.19
+
+- **Fixed** `mergeChunks` merging across a real gap whenever the index had not been scanned — the
+  one thing the helper exists to refuse. Its gap check read `precededByGap`, which is `undefined`
+  in two different situations: no gap, and nobody looked. `openEdf` returns a probed index that has
+  looked for none, and `readRecords` reads by record number without consulting the timeline, so two
+  chunks five seconds apart arrived record-adjacent with that field empty on both and were joined
+  silently. The refusal now compares the chunks' own `startSeconds` in exact ticks — each chunk
+  decoded its onset from its own bytes, so the evidence was in hand the whole time and never needed
+  an index. The `precededByGap` branch stays, because its message names the indexed gap's duration.
+
+## 0.2.18
+
+- **Fixed** `readTriggers` timing every event on the nominal grid — `sampleIndex * recordDuration /
+  samplesPerRecord` — instead of from its record's true onset. On an EDF+D file every event after a
+  gap was early by the whole gap: a stimulus the amplifier latched at 10 s was reported at 2 s, and
+  the same call was self-inconsistent, answering a request for `[10, 12)` with events labelled 2 s
+  and 3 s. `readWindow` on the identical records returned the correct onsets, so one file had two
+  timebases depending on which function you asked. This is the 0.1.4 defect in the one function
+  that never got the fix.
+- **Fixed** `readTriggers` returning events from outside the requested window, and — the worse
+  half — manufacturing an onset that is not in the file. The scan is record-aligned, and its
+  running trigger state reset at the record boundary rather than carrying across it, so a window
+  starting at 1.5 s reported a *transition* to a code that had been held since 1.0 s. In a file
+  whose only real transition was at 0.75 s, a window containing no transition at all returned a
+  stimulus onset. The error is up to one record duration, which is 30 s in many clinical files.
+- **Changed**, as a consequence: a windowed `readTriggers` now reports the code **in force** at the
+  window's left edge plus every transition inside it, and nothing outside it. That generalises the
+  rule a whole-file read already followed at `t = 0`, so an aligned and an unaligned window behave
+  alike. All eight existing BioSemi tests pass unmodified.
+
 ## 0.2.17
 
 - **Changed** the README's compatibility section to say what the browser claim now rests on. The

package/dist/biosemi.d.ts

@@ -40,6 +40,24 @@ export declare function decodeStatusWord(sample: number): EdfStatusWord;
  * Code 0 is "no trigger asserted", so a return to 0 is reported as an event with `trigger: 0`
  * and is easy to filter out. It is reported rather than dropped because the release time is what
  * gives a trigger its duration.
+ *
+ * TIMES ARE ELAPSED RECORDING TIME, on the one axis the package uses: `t = 0` is the start of
+ * record 0, the same axis `selection.startSeconds`, `chunk.startSeconds` and `segment.startSeconds`
+ * live on. A sample's time is its own record's TRUE onset plus its offset within that record —
+ * never the record index times the record duration. The two agree on a contiguous file and diverge
+ * by the whole gap on an EDF+D one, where the nominal form reported a stimulus at 2 s that the
+ * hardware latched at 10 s (fixed in 0.2.18).
+ *
+ * THE WINDOW IS HONOURED. The scan is record-aligned, because records are the unit of I/O, but a
+ * sample outside `[startSeconds, startSeconds + durationSeconds)` is never reported — it only
+ * updates the running trigger state. Reporting the whole record would place events outside the
+ * window a caller asked for, and, worse, would let the first sample of a record report a
+ * "transition" to a code that was already held long before it.
+ *
+ * At the left edge this reports the code IN FORCE, not only transitions strictly inside: the first
+ * in-window sample always produces an event. That is the same rule a whole-file read already
+ * follows — `t = 0` yields an event for whatever the first sample holds, transition or not — so an
+ * aligned and an unaligned window behave alike. Filter on `trigger` if you only want assertions.
  */
 export declare function readTriggers(recording: EdfRecording, selection: TriggerSelection, options?: ReadOptions): Promise<readonly EdfTriggerEvent[]>;
 //# sourceMappingURL=biosemi.d.ts.map

package/dist/biosemi.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"biosemi.d.ts","sourceRoot":"","sources":["../src/biosemi.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;GAeG;AAOH,OAAO,KAAK,EACV,SAAS,EACT,YAAY,EAEZ,SAAS,EACT,aAAa,EACb,eAAe,EACf,WAAW,EAEX,gBAAgB,EACjB,MAAM,YAAY,CAAC;AAWpB;;;;;GAKG;AACH,wBAAgB,eAAe,CAAC,MAAM,EAAE,SAAS,GAAG,SAAS,GAAG,SAAS,CAOxE;AAED;;;;;;GAMG;AACH,wBAAgB,gBAAgB,CAAC,MAAM,EAAE,MAAM,GAAG,aAAa,CAS9D;AAqBD;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA4BG;AACH,wBAAsB,YAAY,CAChC,SAAS,EAAE,YAAY,EACvB,SAAS,EAAE,gBAAgB,EAC3B,OAAO,CAAC,EAAE,WAAW,GACpB,OAAO,CAAC,SAAS,eAAe,EAAE,CAAC,CAyFrC"}

package/dist/biosemi.js

@@ -17,7 +17,7 @@
 import { decodeDigitalCounted } from './decode/digital.js';
 import { readRecordBytes } from './io/read.js';
 import { scanChunkRecords } from './record-index.js';
-import { ticksToSeconds } from './tal/ticks.js';
+import { secondsToTicks, ticksToSeconds } from './tal/ticks.js';
 import { resolveTimeWindow } from './time/window.js';
 /** BioSemi's own label for the channel. Matched case-insensitively after trimming. */
 const STATUS_LABEL = 'status';
@@ -59,6 +59,23 @@ export function decodeStatusWord(sample) {
         batteryLow: (raw & BATTERY_LOW_BIT) !== 0,
     };
 }
+/**
+ * The segment a record belongs to, or `undefined` when the index has not been scanned.
+ *
+ * `undefined` is not a failure: a probed index has no segments, and `resolveTimeWindow` has
+ * already refused one on any file whose span exceeds its coverage — so a caller who gets here
+ * without segments has a contiguous file, where the nominal grid IS the true one.
+ */
+function segmentContaining(segments, recordIndex) {
+    if (segments === undefined)
+        return undefined;
+    for (const segment of segments) {
+        const first = segment.records.start;
+        if (recordIndex >= first && recordIndex < first + segment.records.count)
+            return segment;
+    }
+    return undefined;
+}
 /**
  * Every change of the trigger word in a window, as timed events.
  *
@@ -69,6 +86,24 @@ export function decodeStatusWord(sample) {
  * Code 0 is "no trigger asserted", so a return to 0 is reported as an event with `trigger: 0`
  * and is easy to filter out. It is reported rather than dropped because the release time is what
  * gives a trigger its duration.
+ *
+ * TIMES ARE ELAPSED RECORDING TIME, on the one axis the package uses: `t = 0` is the start of
+ * record 0, the same axis `selection.startSeconds`, `chunk.startSeconds` and `segment.startSeconds`
+ * live on. A sample's time is its own record's TRUE onset plus its offset within that record —
+ * never the record index times the record duration. The two agree on a contiguous file and diverge
+ * by the whole gap on an EDF+D one, where the nominal form reported a stimulus at 2 s that the
+ * hardware latched at 10 s (fixed in 0.2.18).
+ *
+ * THE WINDOW IS HONOURED. The scan is record-aligned, because records are the unit of I/O, but a
+ * sample outside `[startSeconds, startSeconds + durationSeconds)` is never reported — it only
+ * updates the running trigger state. Reporting the whole record would place events outside the
+ * window a caller asked for, and, worse, would let the first sample of a record report a
+ * "transition" to a code that was already held long before it.
+ *
+ * At the left edge this reports the code IN FORCE, not only transitions strictly inside: the first
+ * in-window sample always produces an event. That is the same rule a whole-file read already
+ * follows — `t = 0` yields an event for whatever the first sample holds, transition or not — so an
+ * aligned and an unaligned window behave alike. Filter on `trigger` if you only want assertions.
  */
 export async function readTriggers(recording, selection, options) {
     const { source, header, timeline } = recording;
@@ -79,11 +114,21 @@ export async function readTriggers(recording, selection, options) {
             'annotations with readAnnotations().');
     }
     const ranges = resolveTimeWindow(timeline, recording.index, selection.startSeconds, selection.durationSeconds);
+    const windowStartTicks = secondsToTicks(selection.startSeconds);
+    const windowEndTicks = windowStartTicks + secondsToTicks(selection.durationSeconds);
+    const durationTicks = header.recordDurationTicks;
+    const samplesPerRecord = status.samplesPerRecord;
     const events = [];
-    // Carried across runs so a trigger held over a gap is not reported twice. `undefined` means
-    // nothing has been seen yet, which is what makes the very first sample an event.
+    // The last code SEEN, in the window or before it. Carried across runs so a trigger held over a
+    // gap is not reported twice, and updated for out-of-window samples too — that is what stops a
+    // code asserted before the window from being re-reported as a fresh onset inside it.
     let previous;
+    // Whether anything has been reported yet. The first in-window sample is always an event: it
+    // carries the code in force at the window's left edge, which a transitions-only rule would lose.
+    let reported = false;
     for (const records of ranges) {
+        // A range from `resolveTimeWindow` never spans a gap, so one segment covers all of it.
+        const segment = segmentContaining(recording.index.segments, records.start);
         const chunkRecords = scanChunkRecords(header, options?.maxMaterializeBytes);
         let scanned = 0;
         let scratch;
@@ -95,24 +140,35 @@ export async function readTriggers(recording, selection, options) {
             const bytes = await readRecordBytes(source, header, slice, options);
             const decoded = decodeDigitalCounted(header, bytes, slice, status.index, scratch, options);
             scratch = decoded.digital;
-            const sampleCount = status.samplesPerRecord * slice.count;
-            const firstSampleIndex = slice.start * status.samplesPerRecord;
-            for (let i = 0; i < sampleCount; i += 1) {
-                const word = decodeStatusWord(decoded.digital[i]);
-                if (previous !== undefined && word.trigger === previous)
-                    continue;
-                previous = word.trigger;
-                const sampleIndex = firstSampleIndex + i;
-                const ticks = header.recordDurationTicks > 0n && status.samplesPerRecord > 0
-                    ? (BigInt(sampleIndex) * header.recordDurationTicks) / BigInt(status.samplesPerRecord)
-                    : 0n;
-                events.push({
-                    sampleIndex,
-                    seconds: ticksToSeconds(ticks),
-                    ticks,
-                    trigger: word.trigger,
-                    status: word,
-                });
+            for (let r = 0; r < slice.count; r += 1) {
+                const recordIndex = slice.start + r;
+                // The record's own start on the recording's axis. From the segment when one has been
+                // scanned; from the nominal grid otherwise, which is exact for a contiguous file — and
+                // `resolveTimeWindow` has already refused a probed index on a file that is not.
+                const recordStartTicks = segment === undefined
+                    ? BigInt(recordIndex) * durationTicks
+                    : segment.startTicks + BigInt(recordIndex - segment.records.start) * durationTicks;
+                for (let s = 0; s < samplesPerRecord; s += 1) {
+                    const word = decodeStatusWord(decoded.digital[r * samplesPerRecord + s]);
+                    const changed = previous === undefined || word.trigger !== previous;
+                    previous = word.trigger;
+                    // A zero record duration puts every sample of the record at its start instant.
+                    const ticks = durationTicks > 0n && samplesPerRecord > 0
+                        ? recordStartTicks + (BigInt(s) * durationTicks) / BigInt(samplesPerRecord)
+                        : recordStartTicks;
+                    if (ticks < windowStartTicks || ticks >= windowEndTicks)
+                        continue;
+                    if (reported && !changed)
+                        continue;
+                    reported = true;
+                    events.push({
+                        sampleIndex: recordIndex * samplesPerRecord + s,
+                        seconds: ticksToSeconds(ticks),
+                        ticks,
+                        trigger: word.trigger,
+                        status: word,
+                    });
+                }
             }
             scanned += slice.count;
         }

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@@ -1 +1 @@
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+{"version":3,"file":"biosemi.js","sourceRoot":"","sources":["../src/biosemi.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;GAeG;AAEH,OAAO,EAAE,oBAAoB,EAAE,MAAM,qBAAqB,CAAC;AAC3D,OAAO,EAAE,eAAe,EAAE,MAAM,cAAc,CAAC;AAC/C,OAAO,EAAE,gBAAgB,EAAE,MAAM,mBAAmB,CAAC;AACrD,OAAO,EAAE,cAAc,EAAE,cAAc,EAAE,MAAM,gBAAgB,CAAC;AAChE,OAAO,EAAE,iBAAiB,EAAE,MAAM,kBAAkB,CAAC;AAarD,sFAAsF;AACtF,MAAM,YAAY,GAAG,QAAQ,CAAC;AAE9B,uFAAuF;AACvF,MAAM,YAAY,GAAG,MAAM,CAAC;AAC5B,MAAM,SAAS,GAAG,CAAC,IAAI,EAAE,CAAC;AAC1B,MAAM,gBAAgB,GAAG,CAAC,IAAI,EAAE,CAAC;AACjC,MAAM,eAAe,GAAG,CAAC,IAAI,EAAE,CAAC;AAEhC;;;;;GAKG;AACH,MAAM,UAAU,eAAe,CAAC,MAAiB;IAC/C,IAAI,MAAM,CAAC,cAAc,KAAK,CAAC;QAAE,OAAO,SAAS,CAAC;IAClD,KAAK,MAAM,KAAK,IAAI,MAAM,CAAC,iBAAiB,EAAE,CAAC;QAC7C,MAAM,MAAM,GAAG,MAAM,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC;QACrC,IAAI,MAAM,KAAK,SAAS,IAAI,MAAM,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC,WAAW,EAAE,KAAK,YAAY;YAAE,OAAO,MAAM,CAAC;IAChG,CAAC;IACD,OAAO,SAAS,CAAC;AACnB,CAAC;AAED;;;;;;GAMG;AACH,MAAM,UAAU,gBAAgB,CAAC,MAAc;IAC7C,MAAM,GAAG,GAAG,MAAM,GAAG,QAAQ,CAAC;IAC9B,OAAO;QACL,GAAG;QACH,OAAO,EAAE,GAAG,GAAG,YAAY;QAC3B,QAAQ,EAAE,CAAC,GAAG,GAAG,SAAS,CAAC,KAAK,CAAC;QACjC,UAAU,EAAE,CAAC,GAAG,GAAG,gBAAgB,CAAC,KAAK,CAAC;QAC1C,UAAU,EAAE,CAAC,GAAG,GAAG,eAAe,CAAC,KAAK,CAAC;KAC1C,CAAC;AACJ,CAAC;AAED;;;;;;GAMG;AACH,SAAS,iBAAiB,CACxB,QAA2C,EAC3C,WAAmB;IAEnB,IAAI,QAAQ,KAAK,SAAS;QAAE,OAAO,SAAS,CAAC;IAC7C,KAAK,MAAM,OAAO,IAAI,QAAQ,EAAE,CAAC;QAC/B,MAAM,KAAK,GAAG,OAAO,CAAC,OAAO,CAAC,KAAK,CAAC;QACpC,IAAI,WAAW,IAAI,KAAK,IAAI,WAAW,GAAG,KAAK,GAAG,OAAO,CAAC,OAAO,CAAC,KAAK;YAAE,OAAO,OAAO,CAAC;IAC1F,CAAC;IACD,OAAO,SAAS,CAAC;AACnB,CAAC;AAED;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA4BG;AACH,MAAM,CAAC,KAAK,UAAU,YAAY,CAChC,SAAuB,EACvB,SAA2B,EAC3B,OAAqB;IAErB,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,GAAG,SAAS,CAAC;IAE/C,MAAM,MAAM,GAAG,eAAe,CAAC,MAAM,CAAC,CAAC;IACvC,IAAI,MAAM,KAAK,SAAS,EAAE,CAAC;QACzB,MAAM,IAAI,UAAU,CAClB,yFAAyF;YACvF,8EAA8E;YAC9E,qCAAqC,CACxC,CAAC;IACJ,CAAC;IAED,MAAM,MAAM,GAAG,iBAAiB,CAC9B,QAAQ,EACR,SAAS,CAAC,KAAK,EACf,SAAS,CAAC,YAAY,EACtB,SAAS,CAAC,eAAe,CAC1B,CAAC;IAEF,MAAM,gBAAgB,GAAG,cAAc,CAAC,SAAS,CAAC,YAAY,CAAC,CAAC;IAChE,MAAM,cAAc,GAAG,gBAAgB,GAAG,cAAc,CAAC,SAAS,CAAC,eAAe,CAAC,CAAC;IACpF,MAAM,aAAa,GAAG,MAAM,CAAC,mBAAmB,CAAC;IACjD,MAAM,gBAAgB,GAAG,MAAM,CAAC,gBAAgB,CAAC;IAEjD,MAAM,MAAM,GAAsB,EAAE,CAAC;IACrC,+FAA+F;IAC/F,8FAA8F;IAC9F,qFAAqF;IACrF,IAAI,QAA4B,CAAC;IACjC,4FAA4F;IAC5F,iGAAiG;IACjG,IAAI,QAAQ,GAAG,KAAK,CAAC;IAErB,KAAK,MAAM,OAAO,IAAI,MAAM,EAAE,CAAC;QAC7B,uFAAuF;QACvF,MAAM,OAAO,GAAG,iBAAiB,CAAC,SAAS,CAAC,KAAK,CAAC,QAAQ,EAAE,OAAO,CAAC,KAAK,CAAC,CAAC;QAC3E,MAAM,YAAY,GAAG,gBAAgB,CAAC,MAAM,EAAE,OAAO,EAAE,mBAAmB,CAAC,CAAC;QAC5E,IAAI,OAAO,GAAG,CAAC,CAAC;QAChB,IAAI,OAA+B,CAAC;QAEpC,OAAO,OAAO,GAAG,OAAO,CAAC,KAAK,EAAE,CAAC;YAC/B,MAAM,KAAK,GAAgB;gBACzB,KAAK,EAAE,OAAO,CAAC,KAAK,GAAG,OAAO;gBAC9B,KAAK,EAAE,IAAI,CAAC,GAAG,CAAC,YAAY,EAAE,OAAO,CAAC,KAAK,GAAG,OAAO,CAAC;aACvD,CAAC;YACF,MAAM,KAAK,GAAG,MAAM,eAAe,CAAC,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,OAAO,CAAC,CAAC;YACpE,MAAM,OAAO,GAAG,oBAAoB,CAAC,MAAM,EAAE,KAAK,EAAE,KAAK,EAAE,MAAM,CAAC,KAAK,EAAE,OAAO,EAAE,OAAO,CAAC,CAAC;YAC3F,OAAO,GAAG,OAAO,CAAC,OAAO,CAAC;YAE1B,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,KAAK,CAAC,KAAK,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;gBACxC,MAAM,WAAW,GAAG,KAAK,CAAC,KAAK,GAAG,CAAC,CAAC;gBACpC,qFAAqF;gBACrF,uFAAuF;gBACvF,gFAAgF;gBAChF,MAAM,gBAAgB,GACpB,OAAO,KAAK,SAAS;oBACnB,CAAC,CAAC,MAAM,CAAC,WAAW,CAAC,GAAG,aAAa;oBACrC,CAAC,CAAC,OAAO,CAAC,UAAU,GAAG,MAAM,CAAC,WAAW,GAAG,OAAO,CAAC,OAAO,CAAC,KAAK,CAAC,GAAG,aAAa,CAAC;gBAEvF,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,gBAAgB,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;oBAC7C,MAAM,IAAI,GAAG,gBAAgB,CAAC,OAAO,CAAC,OAAO,CAAC,CAAC,GAAG,gBAAgB,GAAG,CAAC,CAAW,CAAC,CAAC;oBACnF,MAAM,OAAO,GAAG,QAAQ,KAAK,SAAS,IAAI,IAAI,CAAC,OAAO,KAAK,QAAQ,CAAC;oBACpE,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC;oBAExB,+EAA+E;oBAC/E,MAAM,KAAK,GACT,aAAa,GAAG,EAAE,IAAI,gBAAgB,GAAG,CAAC;wBACxC,CAAC,CAAC,gBAAgB,GAAG,CAAC,MAAM,CAAC,CAAC,CAAC,GAAG,aAAa,CAAC,GAAG,MAAM,CAAC,gBAAgB,CAAC;wBAC3E,CAAC,CAAC,gBAAgB,CAAC;oBAEvB,IAAI,KAAK,GAAG,gBAAgB,IAAI,KAAK,IAAI,cAAc;wBAAE,SAAS;oBAClE,IAAI,QAAQ,IAAI,CAAC,OAAO;wBAAE,SAAS;oBACnC,QAAQ,GAAG,IAAI,CAAC;oBAEhB,MAAM,CAAC,IAAI,CAAC;wBACV,WAAW,EAAE,WAAW,GAAG,gBAAgB,GAAG,CAAC;wBAC/C,OAAO,EAAE,cAAc,CAAC,KAAK,CAAC;wBAC9B,KAAK;wBACL,OAAO,EAAE,IAAI,CAAC,OAAO;wBACrB,MAAM,EAAE,IAAI;qBACb,CAAC,CAAC;gBACL,CAAC;YACH,CAAC;YAED,OAAO,IAAI,KAAK,CAAC,KAAK,CAAC;QACzB,CAAC;IACH,CAAC;IAED,OAAO,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC;AAC/B,CAAC"}

package/dist/chunks.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"chunks.d.ts","sourceRoot":"","sources":["../src/chunks.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;GAeG;AAGH,OAAO,KAAK,EAAE,QAAQ,EAAiC,MAAM,YAAY,CAAC;AA+D1E;;;;;;;;;GASG;AACH,wBAAgB,WAAW,CAAC,MAAM,EAAE,SAAS,QAAQ,EAAE,GAAG,QAAQ,CAwEjE"}
+{"version":3,"file":"chunks.d.ts","sourceRoot":"","sources":["../src/chunks.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;GAeG;AAIH,OAAO,KAAK,EAAE,QAAQ,EAAiC,MAAM,YAAY,CAAC;AA4F1E;;;;;;;;;GASG;AACH,wBAAgB,WAAW,CAAC,MAAM,EAAE,SAAS,QAAQ,EAAE,GAAG,QAAQ,CAwEjE"}

package/dist/chunks.js

@@ -15,6 +15,7 @@
  * convention every option check in the package follows.
  */
 import { appendDiagnostics } from './diagnostics/collector.js';
+import { secondsToTicks, ticksToSeconds } from './tal/ticks.js';
 /** Reads as one line at the call site, and keeps the `chunks[i]` non-null assertions out of it. */
 function at(chunks, index) {
     const chunk = chunks[index];
@@ -25,9 +26,19 @@ function at(chunks, index) {
 /**
  * Everything that makes two chunks joinable, checked before a byte is allocated.
  *
- * The record-adjacency test is the obvious one. The per-signal sample-index test is the one that
- * earns its place: `trimToWindow` narrows a chunk on each signal's own grid, so two chunks can
- * still be record-adjacent after a trim has removed the samples between them. Comparing
+ * Three tests, and the second and third are the ones that earn their place.
+ *
+ * `precededByGap` alone is not enough, because it is `undefined` in two different situations: no
+ * gap, and nobody looked. `openEdf` returns a probed index, `gapBefore` has nothing to report from
+ * one, and `readRecords` reads by record number without ever consulting the timeline — so two
+ * chunks a minute apart on an EDF+D file arrive record-adjacent with `precededByGap: undefined` on
+ * both, and the field the refusal was keyed on says nothing at all. Every chunk carries its own
+ * `startSeconds`, decoded from the annotation regions in its own bytes, so the evidence was in hand
+ * the whole time: the second test compares the clock instead of asking the index.
+ *
+ * The per-signal sample-index test is the third: `trimToWindow` narrows a chunk on each signal's
+ * own grid without changing the chunk's `durationSeconds`, so a trimmed chunk passes both the
+ * record and the clock test while the samples between the two are gone. Comparing
  * `firstSampleIndex` against the previous chunk's end catches exactly that, per signal, which is
  * the granularity at which it actually happens.
  */
@@ -43,6 +54,21 @@ function assertJoinable(previous, next, index) {
         throw new RangeError(`mergeChunks: chunk ${index} starts at record ${next.records.start}, but the chunk before ` +
             `it ends at ${expectedStart}. Chunks must be adjacent and in order.`);
     }
+    // In exact ticks, never in float seconds: both values were produced from ticks by
+    // `ticksToSeconds`, and rounding back recovers the tick they came from for any recording
+    // shorter than ~28.5 years — the same round trip `trimToWindow` relies on. A float comparison
+    // here would let a sub-tick discrepancy through, and an epsilon would let a real one through.
+    const previousEndTicks = secondsToTicks(previous.startSeconds) + secondsToTicks(previous.durationSeconds);
+    const nextStartTicks = secondsToTicks(next.startSeconds);
+    if (previousEndTicks !== nextStartTicks) {
+        const gapSeconds = ticksToSeconds(nextStartTicks - previousEndTicks);
+        throw new RangeError(`mergeChunks: chunk ${index} starts at ${next.startSeconds} s, but the chunk before it ends ` +
+            `at ${ticksToSeconds(previousEndTicks)} s — a discontinuity of ${gapSeconds} s. The two ` +
+            'are record-adjacent, so this is a gap in TIME that the record numbers cannot show: ' +
+            'either the index was never scanned, or these chunks came from separate reads. ' +
+            'Concatenating them would date every sample after the join wrong by that much. Next: ' +
+            'await buildRecordIndex(recording) and merge each contiguous run separately.');
+    }
     if (next.signals.length !== previous.signals.length) {
         throw new RangeError(`mergeChunks: chunk ${index} carries ${next.signals.length} signal(s), the chunk before it ` +
             `${previous.signals.length}. Every chunk must have been read with the same signal selection.`);

package/dist/chunks.js.map

@@ -1 +1 @@
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package/dist/constants.d.ts

@@ -109,5 +109,5 @@ export declare const SIGNAL_FIELD_BLOCK_OFFSETS: {
     readonly reserved: 224;
 };
 /** Published package version. Kept in sync with package.json by a test. */
-export declare const VERSION = "0.2.17";
+export declare const VERSION = "0.2.19";
 //# sourceMappingURL=constants.d.ts.map

package/dist/constants.js

@@ -79,5 +79,5 @@ export const SIGNAL_FIELD_BLOCK_OFFSETS = {
     reserved: 224,
 };
 /** Published package version. Kept in sync with package.json by a test. */
-export const VERSION = '0.2.17';
+export const VERSION = '0.2.19';
 //# sourceMappingURL=constants.js.map

package/dist/types.d.ts

@@ -391,7 +391,16 @@ export interface EdfStatusWord {
     readonly cmsInRange: boolean;
     readonly batteryLow: boolean;
 }
-/** A change of the trigger word, timed on the Status channel's own sample grid. */
+/**
+ * A change of the trigger word, located on the Status channel's own sample grid and timed on the
+ * recording's axis.
+ *
+ * Those are two different things and the distinction is load-bearing. `sampleIndex` counts samples
+ * of the Status channel from the start of the file. `seconds`/`ticks` are elapsed recording time —
+ * `t = 0` is the start of record 0 — derived from the containing record's TRUE onset, so on an
+ * EDF+D file the gaps are in them. Deriving the time from `sampleIndex` instead would place every
+ * post-gap event early by the whole gap.
+ */
 export interface EdfTriggerEvent {
     readonly sampleIndex: number;
     readonly seconds: number;

package/dist/types.d.ts.map

@@ -1 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "edfcore",
-  "version": "0.2.17",
+  "version": "0.2.19",
   "description": "Modern, typed, zero-dependency reader for EDF, EDF+, BDF and BDF+ biosignal files. Works in browsers and Node with true random access.",
   "keywords": [
     "edf",

package/src/biosemi.ts

@@ -18,11 +18,12 @@
 import { decodeDigitalCounted } from './decode/digital.js';
 import { readRecordBytes } from './io/read.js';
 import { scanChunkRecords } from './record-index.js';
-import { ticksToSeconds } from './tal/ticks.js';
+import { secondsToTicks, ticksToSeconds } from './tal/ticks.js';
 import { resolveTimeWindow } from './time/window.js';
 import type {
   EdfHeader,
   EdfRecording,
+  EdfSegment,
   EdfSignal,
   EdfStatusWord,
   EdfTriggerEvent,
@@ -73,6 +74,25 @@ export function decodeStatusWord(sample: number): EdfStatusWord {
   };
 }
 
+/**
+ * The segment a record belongs to, or `undefined` when the index has not been scanned.
+ *
+ * `undefined` is not a failure: a probed index has no segments, and `resolveTimeWindow` has
+ * already refused one on any file whose span exceeds its coverage — so a caller who gets here
+ * without segments has a contiguous file, where the nominal grid IS the true one.
+ */
+function segmentContaining(
+  segments: readonly EdfSegment[] | undefined,
+  recordIndex: number,
+): EdfSegment | undefined {
+  if (segments === undefined) return undefined;
+  for (const segment of segments) {
+    const first = segment.records.start;
+    if (recordIndex >= first && recordIndex < first + segment.records.count) return segment;
+  }
+  return undefined;
+}
+
 /**
  * Every change of the trigger word in a window, as timed events.
  *
@@ -83,6 +103,24 @@ export function decodeStatusWord(sample: number): EdfStatusWord {
  * Code 0 is "no trigger asserted", so a return to 0 is reported as an event with `trigger: 0`
  * and is easy to filter out. It is reported rather than dropped because the release time is what
  * gives a trigger its duration.
+ *
+ * TIMES ARE ELAPSED RECORDING TIME, on the one axis the package uses: `t = 0` is the start of
+ * record 0, the same axis `selection.startSeconds`, `chunk.startSeconds` and `segment.startSeconds`
+ * live on. A sample's time is its own record's TRUE onset plus its offset within that record —
+ * never the record index times the record duration. The two agree on a contiguous file and diverge
+ * by the whole gap on an EDF+D one, where the nominal form reported a stimulus at 2 s that the
+ * hardware latched at 10 s (fixed in 0.2.18).
+ *
+ * THE WINDOW IS HONOURED. The scan is record-aligned, because records are the unit of I/O, but a
+ * sample outside `[startSeconds, startSeconds + durationSeconds)` is never reported — it only
+ * updates the running trigger state. Reporting the whole record would place events outside the
+ * window a caller asked for, and, worse, would let the first sample of a record report a
+ * "transition" to a code that was already held long before it.
+ *
+ * At the left edge this reports the code IN FORCE, not only transitions strictly inside: the first
+ * in-window sample always produces an event. That is the same rule a whole-file read already
+ * follows — `t = 0` yields an event for whatever the first sample holds, transition or not — so an
+ * aligned and an unaligned window behave alike. Filter on `trigger` if you only want assertions.
  */
 export async function readTriggers(
   recording: EdfRecording,
@@ -107,12 +145,23 @@ export async function readTriggers(
     selection.durationSeconds,
   );
 
+  const windowStartTicks = secondsToTicks(selection.startSeconds);
+  const windowEndTicks = windowStartTicks + secondsToTicks(selection.durationSeconds);
+  const durationTicks = header.recordDurationTicks;
+  const samplesPerRecord = status.samplesPerRecord;
+
   const events: EdfTriggerEvent[] = [];
-  // Carried across runs so a trigger held over a gap is not reported twice. `undefined` means
-  // nothing has been seen yet, which is what makes the very first sample an event.
+  // The last code SEEN, in the window or before it. Carried across runs so a trigger held over a
+  // gap is not reported twice, and updated for out-of-window samples too — that is what stops a
+  // code asserted before the window from being re-reported as a fresh onset inside it.
   let previous: number | undefined;
+  // Whether anything has been reported yet. The first in-window sample is always an event: it
+  // carries the code in force at the window's left edge, which a transitions-only rule would lose.
+  let reported = false;
 
   for (const records of ranges) {
+    // A range from `resolveTimeWindow` never spans a gap, so one segment covers all of it.
+    const segment = segmentContaining(recording.index.segments, records.start);
     const chunkRecords = scanChunkRecords(header, options?.maxMaterializeBytes);
     let scanned = 0;
     let scratch: Int32Array | undefined;
@@ -126,26 +175,39 @@ export async function readTriggers(
       const decoded = decodeDigitalCounted(header, bytes, slice, status.index, scratch, options);
       scratch = decoded.digital;
 
-      const sampleCount = status.samplesPerRecord * slice.count;
-      const firstSampleIndex = slice.start * status.samplesPerRecord;
-
-      for (let i = 0; i < sampleCount; i += 1) {
-        const word = decodeStatusWord(decoded.digital[i] as number);
-        if (previous !== undefined && word.trigger === previous) continue;
-        previous = word.trigger;
-
-        const sampleIndex = firstSampleIndex + i;
-        const ticks =
-          header.recordDurationTicks > 0n && status.samplesPerRecord > 0
-            ? (BigInt(sampleIndex) * header.recordDurationTicks) / BigInt(status.samplesPerRecord)
-            : 0n;
-        events.push({
-          sampleIndex,
-          seconds: ticksToSeconds(ticks),
-          ticks,
-          trigger: word.trigger,
-          status: word,
-        });
+      for (let r = 0; r < slice.count; r += 1) {
+        const recordIndex = slice.start + r;
+        // The record's own start on the recording's axis. From the segment when one has been
+        // scanned; from the nominal grid otherwise, which is exact for a contiguous file — and
+        // `resolveTimeWindow` has already refused a probed index on a file that is not.
+        const recordStartTicks =
+          segment === undefined
+            ? BigInt(recordIndex) * durationTicks
+            : segment.startTicks + BigInt(recordIndex - segment.records.start) * durationTicks;
+
+        for (let s = 0; s < samplesPerRecord; s += 1) {
+          const word = decodeStatusWord(decoded.digital[r * samplesPerRecord + s] as number);
+          const changed = previous === undefined || word.trigger !== previous;
+          previous = word.trigger;
+
+          // A zero record duration puts every sample of the record at its start instant.
+          const ticks =
+            durationTicks > 0n && samplesPerRecord > 0
+              ? recordStartTicks + (BigInt(s) * durationTicks) / BigInt(samplesPerRecord)
+              : recordStartTicks;
+
+          if (ticks < windowStartTicks || ticks >= windowEndTicks) continue;
+          if (reported && !changed) continue;
+          reported = true;
+
+          events.push({
+            sampleIndex: recordIndex * samplesPerRecord + s,
+            seconds: ticksToSeconds(ticks),
+            ticks,
+            trigger: word.trigger,
+            status: word,
+          });
+        }
       }
 
       scanned += slice.count;

package/src/chunks.ts

@@ -16,6 +16,7 @@
  */
 
 import { appendDiagnostics } from './diagnostics/collector.js';
+import { secondsToTicks, ticksToSeconds } from './tal/ticks.js';
 import type { EdfChunk, EdfChunkSignal, EdfDiagnostic } from './types.js';
 
 /** Reads as one line at the call site, and keeps the `chunks[i]` non-null assertions out of it. */
@@ -28,9 +29,19 @@ function at(chunks: readonly EdfChunk[], index: number): EdfChunk {
 /**
  * Everything that makes two chunks joinable, checked before a byte is allocated.
  *
- * The record-adjacency test is the obvious one. The per-signal sample-index test is the one that
- * earns its place: `trimToWindow` narrows a chunk on each signal's own grid, so two chunks can
- * still be record-adjacent after a trim has removed the samples between them. Comparing
+ * Three tests, and the second and third are the ones that earn their place.
+ *
+ * `precededByGap` alone is not enough, because it is `undefined` in two different situations: no
+ * gap, and nobody looked. `openEdf` returns a probed index, `gapBefore` has nothing to report from
+ * one, and `readRecords` reads by record number without ever consulting the timeline — so two
+ * chunks a minute apart on an EDF+D file arrive record-adjacent with `precededByGap: undefined` on
+ * both, and the field the refusal was keyed on says nothing at all. Every chunk carries its own
+ * `startSeconds`, decoded from the annotation regions in its own bytes, so the evidence was in hand
+ * the whole time: the second test compares the clock instead of asking the index.
+ *
+ * The per-signal sample-index test is the third: `trimToWindow` narrows a chunk on each signal's
+ * own grid without changing the chunk's `durationSeconds`, so a trimmed chunk passes both the
+ * record and the clock test while the samples between the two are gone. Comparing
  * `firstSampleIndex` against the previous chunk's end catches exactly that, per signal, which is
  * the granularity at which it actually happens.
  */
@@ -52,6 +63,25 @@ function assertJoinable(previous: EdfChunk, next: EdfChunk, index: number): void
     );
   }
 
+  // In exact ticks, never in float seconds: both values were produced from ticks by
+  // `ticksToSeconds`, and rounding back recovers the tick they came from for any recording
+  // shorter than ~28.5 years — the same round trip `trimToWindow` relies on. A float comparison
+  // here would let a sub-tick discrepancy through, and an epsilon would let a real one through.
+  const previousEndTicks =
+    secondsToTicks(previous.startSeconds) + secondsToTicks(previous.durationSeconds);
+  const nextStartTicks = secondsToTicks(next.startSeconds);
+  if (previousEndTicks !== nextStartTicks) {
+    const gapSeconds = ticksToSeconds(nextStartTicks - previousEndTicks);
+    throw new RangeError(
+      `mergeChunks: chunk ${index} starts at ${next.startSeconds} s, but the chunk before it ends ` +
+        `at ${ticksToSeconds(previousEndTicks)} s — a discontinuity of ${gapSeconds} s. The two ` +
+        'are record-adjacent, so this is a gap in TIME that the record numbers cannot show: ' +
+        'either the index was never scanned, or these chunks came from separate reads. ' +
+        'Concatenating them would date every sample after the join wrong by that much. Next: ' +
+        'await buildRecordIndex(recording) and merge each contiguous run separately.',
+    );
+  }
+
   if (next.signals.length !== previous.signals.length) {
     throw new RangeError(
       `mergeChunks: chunk ${index} carries ${next.signals.length} signal(s), the chunk before it ` +

package/src/constants.ts

@@ -93,4 +93,4 @@ export const SIGNAL_FIELD_BLOCK_OFFSETS = {
 } as const;
 
 /** Published package version. Kept in sync with package.json by a test. */
-export const VERSION = '0.2.17';
+export const VERSION = '0.2.19';

package/src/types.ts

@@ -461,7 +461,16 @@ export interface EdfStatusWord {
   readonly batteryLow: boolean;
 }
 
-/** A change of the trigger word, timed on the Status channel's own sample grid. */
+/**
+ * A change of the trigger word, located on the Status channel's own sample grid and timed on the
+ * recording's axis.
+ *
+ * Those are two different things and the distinction is load-bearing. `sampleIndex` counts samples
+ * of the Status channel from the start of the file. `seconds`/`ticks` are elapsed recording time —
+ * `t = 0` is the start of record 0 — derived from the containing record's TRUE onset, so on an
+ * EDF+D file the gaps are in them. Deriving the time from `sampleIndex` instead would place every
+ * post-gap event early by the whole gap.
+ */
 export interface EdfTriggerEvent {
   readonly sampleIndex: number;
   readonly seconds: number;