edfcore 0.2.32 → 0.2.34

package/CHANGELOG.md

@@ -6,6 +6,41 @@ 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.
 
+## 0.2.34
+
+- **Added** the golden-value harness this README has withheld a numerical-interop claim for since
+  0.1.0. edfcore now **reproduces pyEDFlib's float64 physical values bit for bit** on EDF and
+  24-bit BDF, across symmetric and asymmetric declared ranges. `scripts/golden/generate.py` writes
+  the fixtures with pyEDFlib's own writer, reads them back with pyEDFlib, and records every sample
+  as its exact IEEE-754 bit pattern; the test compares with `Object.is`, so one ULP is a failure.
+  Nothing under `tests/corpus/golden/` was produced by edfcore, and the goldens are committed so
+  CI never needs Python.
+
+  Every previous test of the pinned scaling expression re-derived that same expression inside the
+  test, which proved edfcore agrees with itself and nothing more. This is the first evidence that
+  the choice to keep EDFlib's numerically worse form was worth making: substituting the textbook
+  `physicalMinimum + (digital - digitalMinimum) * gain` fails on 140 of 256 samples of the
+  symmetric fixture — `-492.15686274509807` where pyEDFlib says `-492.156862745098` — and a test
+  asserts that the goldens can tell the two apart, so the parity is a real constraint rather than
+  a coincidence of the fixtures.
+
+  Still not claimed, because no test produces it yet: parity with MNE, and validation across the
+  public corpora.
+
+## 0.2.33
+
+- **Fixed** annotations being dropped with no diagnostic naming them. `TIMEKEEPING_TAL_NONCONFORMANT`
+  covers several unrelated defects behind one once-per-call flag. Most lose nothing — the onset is
+  unambiguous either way — but a timekeeping TAL that carries TEXT has swallowed an annotation: the
+  writer merged an event into it, and the text appears in no field of the result. Because the flag
+  was shared, a file whose FIRST record used the widespread `+t 0x14 0x00` shorthand — which is most
+  of the real corpus — reported that shorthand and then suppressed every dropped event after it. On
+  a six-record fixture: two annotations gone, `annotations` empty, and one warning naming record 0
+  and a different, harmless cause. `strict: true` did not help either; it threw on record 0's
+  benign shorthand and never reached the real problem. The text-carrying kind is now reported for
+  every affected record, with the text and the byte offset where it still is; the harmless kinds
+  are still capped at one per call, and each message now says which of the two it is.
+
 ## 0.2.32
 
 - **Documented, not fixed**, and the distinction is the point: `sampleIndexAt`, `sampleStartTicks`

package/README.md

@@ -291,10 +291,17 @@ the reason to trust the reader.
 **0.1 — reads everything, lies about nothing.** All six variants, the primitive/I/O/convenience
 layers, `inspectEdf`, `edfcore/validate`, six source adapters, the full diagnostic vocabulary.
 
-**Before 1.0.** Validation against public corpora (sleep-edfx, CHB-MIT, the BioSemi and
-edfplus.info test files) and a golden-value harness cross-checking physical values against
-pyEDFlib and MNE. Until that harness exists this README makes no numerical-interop claim, and it
-will not make one that a test did not produce.
+**Numerical interop, as of 0.2.34.** edfcore reproduces **pyEDFlib's float64 physical values bit
+for bit** on EDF and 24-bit BDF, across symmetric and asymmetric ranges. That is a test, not a
+belief: `scripts/golden/generate.py` writes the fixtures with pyEDFlib's own writer, reads them
+back with pyEDFlib, and records every sample as its exact IEEE-754 bit pattern;
+`tests/corpus/golden-values.test.ts` compares with `Object.is`, so one ULP is a failure. Nothing in
+`tests/corpus/golden/` was produced by edfcore. Substituting the numerically better textbook
+expression fails it on 140 of 256 samples — which is why the EDFlib form is pinned.
+
+**Still open before 1.0.** The same harness against MNE, and validation across public corpora
+(sleep-edfx, CHB-MIT, the BioSemi and edfplus.info test files). Those claims are not made here
+until a test produces them.
 
 **Shipped since 0.1.6.** Min/max envelope decimation (`readEnvelope`,
 `readEnvelopeAtResolution`). BioSemi Status-byte helpers (`readTriggers`). Streaming iteration

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 = "0.2.32";
+export declare const VERSION = "0.2.34";
 //# 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 = '0.2.32';
+export const VERSION = '0.2.34';
 //# sourceMappingURL=constants.js.map

package/dist/tal/annotations.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"annotations.d.ts","sourceRoot":"","sources":["../../src/tal/annotations.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAgCG;AAMH,OAAO,KAAK,EACV,wBAAwB,EAExB,oBAAoB,EACpB,SAAS,EAET,WAAW,EACZ,MAAM,aAAa,CAAC;AAqSrB,wBAAgB,iBAAiB,CAC/B,MAAM,EAAE,SAAS,EACjB,WAAW,EAAE,UAAU,EACvB,OAAO,EAAE,WAAW,EACpB,OAAO,CAAC,EAAE,wBAAwB,GACjC,oBAAoB,CAiJtB"}
+{"version":3,"file":"annotations.d.ts","sourceRoot":"","sources":["../../src/tal/annotations.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAgCG;AAMH,OAAO,KAAK,EACV,wBAAwB,EAExB,oBAAoB,EACpB,SAAS,EAET,WAAW,EACZ,MAAM,aAAa,CAAC;AAyUrB,wBAAgB,iBAAiB,CAC/B,MAAM,EAAE,SAAS,EACjB,WAAW,EAAE,UAAU,EACvB,OAAO,EAAE,WAAW,EACpB,OAAO,CAAC,EAAE,wBAAwB,GACjC,oBAAoB,CAoJtB"}

package/dist/tal/annotations.js

@@ -156,29 +156,33 @@ function reportTimekeepingMissing(sink, context) {
         specReference: TIMEKEEPING_SPEC,
     });
 }
-/**
- * What is non-conformant about a timekeeping TAL, or `undefined` when it is exactly
- * `+onset 0x14 0x14 0x00`.
- *
- * Zero texts is the widespread `+t 0x14 0x00` shorthand. EDFlib rejects that file outright; we
- * treat "zero texts" and "one empty text" as the same thing and keep going, because the onset is
- * unambiguous either way and refusing the file would refuse a large part of the real corpus.
- */
 function timekeepingDefect(tal) {
     if (tal.durationRaw !== undefined) {
-        return `carries the duration "${tal.durationRaw}", which a timekeeping TAL never has`;
+        return {
+            reason: `carries the duration "${tal.durationRaw}", which a timekeeping TAL never has`,
+            destructive: false,
+        };
     }
     if (tal.texts.length === 0) {
-        return ('omits the mandatory empty text and is written "+onset 0x14 0x00" — the widespread ' +
-            'shorthand, which EDFlib rejects outright');
+        return {
+            reason: 'omits the mandatory empty text and is written "+onset 0x14 0x00" — the widespread ' +
+                'shorthand, which EDFlib rejects outright',
+            destructive: false,
+        };
     }
     const texts = tal.texts.map((run) => run.text).filter((text) => text.length > 0);
     if (texts.length > 0) {
-        return (`carries the text ${texts.map((text) => `"${text}"`).join(', ')}, which is dropped: the ` +
-            'timekeeping TAL is not an annotation');
+        return {
+            reason: `carries the text ${texts.map((text) => `"${text}"`).join(', ')}, which is dropped: the ` +
+                'timekeeping TAL is not an annotation',
+            destructive: true,
+        };
     }
     if (tal.texts.length > 1) {
-        return `carries ${tal.texts.length} empty texts, where the grammar allows exactly one`;
+        return {
+            reason: `carries ${tal.texts.length} empty texts, where the grammar allows exactly one`,
+            destructive: false,
+        };
     }
     return undefined;
 }
@@ -186,11 +190,17 @@ function reportTimekeepingDefect(sink, context, tal, defect) {
     sink.report({
         code: 'TIMEKEEPING_TAL_NONCONFORMANT',
         message: `the timekeeping TAL of record ${context.recordIndex} (annotation signal ` +
-            `${context.signal.index}, onset "${tal.onsetRaw}") ${defect}. ` +
+            `${context.signal.index}, onset "${tal.onsetRaw}") ${defect.reason}. ` +
             'Rule: a timekeeping TAL is written "+onset 0x14 0x14 0x00" — one signed onset, no ' +
             'duration, one empty text. ' +
-            "Next: the onset was used as this record's start and the file was kept; this is " +
-            'reported once per decodeAnnotations() call, so later records are not re-reported.',
+            (defect.destructive
+                ? "Next: the onset was used as this record's start, but the text above is an " +
+                    'annotation the writer merged into the timekeeping TAL and it is in no other field of ' +
+                    'the result — read it from the raw bytes at the offset above if you need it. Reported ' +
+                    'for EVERY affected record, because each one names a different event that was lost.'
+                : "Next: the onset was used as this record's start and the file was kept; nothing was " +
+                    'lost. This kind is reported once per decodeAnnotations() call, so later records are ' +
+                    'not re-reported.'),
         field: 'timekeeping TAL',
         byteOffset: context.fileOffset + tal.byteOffsetInRegion,
         byteLength: tal.byteLength,
@@ -280,8 +290,12 @@ export function decodeAnnotations(header, recordBytes, records, options) {
                         raw: timekeeping.onsetRaw,
                     };
                     const defect = timekeepingDefect(timekeeping);
-                    if (defect !== undefined && !timekeepingDefectReported) {
-                        timekeepingDefectReported = true;
+                    // The once-per-call cap applies ONLY to the defects that lose nothing. A dropped text is
+                    // a distinct annotation per record, available nowhere else in the result, so capping it
+                    // deletes evidence — and worse, a benign first record used to consume the one slot.
+                    if (defect !== undefined && (defect.destructive || !timekeepingDefectReported)) {
+                        if (!defect.destructive)
+                            timekeepingDefectReported = true;
                         reportTimekeepingDefect(sink, context, timekeeping, defect);
                     }
                 }

package/dist/tal/annotations.js.map

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

@@ -1,6 +1,6 @@
 {
   "name": "edfcore",
-  "version": "0.2.32",
+  "version": "0.2.34",
   "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/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 = '0.2.32';
+export const VERSION = '0.2.34';

package/src/tal/annotations.ts

@@ -252,25 +252,55 @@ function reportTimekeepingMissing(sink: DiagnosticSink, context: RegionContext):
  * treat "zero texts" and "one empty text" as the same thing and keep going, because the onset is
  * unambiguous either way and refusing the file would refuse a large part of the real corpus.
  */
-function timekeepingDefect(tal: ParsedTal): string | undefined {
+/**
+ * What is wrong with a timekeeping TAL, and whether saying so once is enough.
+ *
+ * `destructive` is the distinction that matters. Most of these defects lose nothing — the onset is
+ * unambiguous and lands in `recordOnsetTicks` either way — so one report per call is the right
+ * volume and a per-record flood would bury it. But a timekeeping TAL that carries TEXT is
+ * different: that text is an annotation the writer merged into the wrong TAL, it appears nowhere
+ * in the result, and each occurrence names a DIFFERENT event that is now gone.
+ *
+ * Sharing one once-per-call flag between the two meant that a file whose first record used the
+ * widespread `+t 0x14 0x00` shorthand — which is most of the real corpus — reported that shorthand
+ * and then silently swallowed every dropped event after it. Six records in, two annotations gone,
+ * one warning about a benign spelling in record 0 (fixed in 0.2.33).
+ */
+interface TimekeepingDefect {
+  readonly reason: string;
+  /** True when the TAL carried text that exists nowhere in the returned annotations. */
+  readonly destructive: boolean;
+}
+
+function timekeepingDefect(tal: ParsedTal): TimekeepingDefect | undefined {
   if (tal.durationRaw !== undefined) {
-    return `carries the duration "${tal.durationRaw}", which a timekeeping TAL never has`;
+    return {
+      reason: `carries the duration "${tal.durationRaw}", which a timekeeping TAL never has`,
+      destructive: false,
+    };
   }
   if (tal.texts.length === 0) {
-    return (
-      'omits the mandatory empty text and is written "+onset 0x14 0x00" — the widespread ' +
-      'shorthand, which EDFlib rejects outright'
-    );
+    return {
+      reason:
+        'omits the mandatory empty text and is written "+onset 0x14 0x00" — the widespread ' +
+        'shorthand, which EDFlib rejects outright',
+      destructive: false,
+    };
   }
   const texts = tal.texts.map((run) => run.text).filter((text) => text.length > 0);
   if (texts.length > 0) {
-    return (
-      `carries the text ${texts.map((text) => `"${text}"`).join(', ')}, which is dropped: the ` +
-      'timekeeping TAL is not an annotation'
-    );
+    return {
+      reason:
+        `carries the text ${texts.map((text) => `"${text}"`).join(', ')}, which is dropped: the ` +
+        'timekeeping TAL is not an annotation',
+      destructive: true,
+    };
   }
   if (tal.texts.length > 1) {
-    return `carries ${tal.texts.length} empty texts, where the grammar allows exactly one`;
+    return {
+      reason: `carries ${tal.texts.length} empty texts, where the grammar allows exactly one`,
+      destructive: false,
+    };
   }
   return undefined;
 }
@@ -279,17 +309,23 @@ function reportTimekeepingDefect(
   sink: DiagnosticSink,
   context: RegionContext,
   tal: ParsedTal,
-  defect: string,
+  defect: TimekeepingDefect,
 ): void {
   sink.report({
     code: 'TIMEKEEPING_TAL_NONCONFORMANT',
     message:
       `the timekeeping TAL of record ${context.recordIndex} (annotation signal ` +
-      `${context.signal.index}, onset "${tal.onsetRaw}") ${defect}. ` +
+      `${context.signal.index}, onset "${tal.onsetRaw}") ${defect.reason}. ` +
       'Rule: a timekeeping TAL is written "+onset 0x14 0x14 0x00" — one signed onset, no ' +
       'duration, one empty text. ' +
-      "Next: the onset was used as this record's start and the file was kept; this is " +
-      'reported once per decodeAnnotations() call, so later records are not re-reported.',
+      (defect.destructive
+        ? "Next: the onset was used as this record's start, but the text above is an " +
+          'annotation the writer merged into the timekeeping TAL and it is in no other field of ' +
+          'the result — read it from the raw bytes at the offset above if you need it. Reported ' +
+          'for EVERY affected record, because each one names a different event that was lost.'
+        : "Next: the onset was used as this record's start and the file was kept; nothing was " +
+          'lost. This kind is reported once per decodeAnnotations() call, so later records are ' +
+          'not re-reported.'),
     field: 'timekeeping TAL',
     byteOffset: context.fileOffset + tal.byteOffsetInRegion,
     byteLength: tal.byteLength,
@@ -392,8 +428,11 @@ export function decodeAnnotations(
             raw: timekeeping.onsetRaw,
           };
           const defect = timekeepingDefect(timekeeping);
-          if (defect !== undefined && !timekeepingDefectReported) {
-            timekeepingDefectReported = true;
+          // The once-per-call cap applies ONLY to the defects that lose nothing. A dropped text is
+          // a distinct annotation per record, available nowhere else in the result, so capping it
+          // deletes evidence — and worse, a benign first record used to consume the one slot.
+          if (defect !== undefined && (defect.destructive || !timekeepingDefectReported)) {
+            if (!defect.destructive) timekeepingDefectReported = true;
             reportTimekeepingDefect(sink, context, timekeeping, defect);
           }
         }