npm - edf2csv - Versions diffs - 0.4.22 → 0.4.24 - Mend

edf2csv 0.4.22 → 0.4.24

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (11) hide show

package/dist/convert/run.d.ts.map +1 -1
package/dist/convert/run.js +4 -2
package/dist/convert/run.js.map +1 -1
package/dist/convert/timing.d.ts.map +1 -1
package/dist/convert/timing.js +69 -0
package/dist/convert/timing.js.map +1 -1
package/dist/format/number.d.ts +19 -1
package/dist/format/number.d.ts.map +1 -1
package/dist/format/number.js +6 -2
package/dist/format/number.js.map +1 -1
package/package.json +1 -1

package/dist/convert/run.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"run.d.ts","sourceRoot":"","sources":["../../src/convert/run.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAWH,OAAO,EAAE,OAAO,EAAE,MAAM,kBAAkB,CAAC;AAE3C,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,kBAAkB,CAAC;~~AAQnD~~,OAAO,KAAK,EAAE,cAAc,EAAE,WAAW,EAAa,MAAM,WAAW,CAAC;AAGxE,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,eAAe,CAAC;AAExD,OAAO,EAAE,YAAY,EAAE,CAAC;AAExB,MAAM,MAAM,mBAAmB,GAC3B,eAAe,GACf,mBAAmB,GACnB,wBAAwB,GACxB,kBAAkB,GAClB,cAAc,CAAC;AAEnB,qBAAa,eAAgB,SAAQ,KAAK;IACxC,QAAQ,CAAC,IAAI,EAAE,mBAAmB,CAAC;IACnC,QAAQ,CAAC,IAAI,EAAE,MAAM,GAAG,SAAS,CAAC;gBACtB,IAAI,EAAE,mBAAmB,EAAE,OAAO,EAAE,MAAM,EAAE,IAAI,CAAC,EAAE,MAAM;CAMtE;AAED,MAAM,WAAW,cAAe,SAAQ,WAAW;IACjD,sFAAsF;IACtF,SAAS,CAAC,EAAE,MAAM,GAAG,SAAS,CAAC;IAC/B,8CAA8C;IAC9C,KAAK,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC5B,wFAAwF;IACxF,QAAQ,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC/B;;;;;;OAMG;IACH,QAAQ,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC/B,UAAU,CAAC,EAAE,CAAC,CAAC,QAAQ,EAAE,kBAAkB,KAAK,IAAI,CAAC,GAAG,SAAS,CAAC;CACnE;AAED,MAAM,WAAW,kBAAkB;IACjC,WAAW,EAAE,MAAM,CAAC;IACpB,YAAY,EAAE,MAAM,CAAC;IACrB,YAAY,EAAE,MAAM,CAAC;CACtB;AAED,MAAM,WAAW,WAAW;IAC1B,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,MAAM,CAAC;CACd;AAED,MAAM,WAAW,aAAa;IAC5B,SAAS,EAAE,MAAM,CAAC;IAClB,KAAK,EAAE,WAAW,EAAE,CAAC;IACrB,eAAe,EAAE,MAAM,CAAC;IACxB,WAAW,EAAE,UAAU,EAAE,CAAC;IAC1B,IAAI,EAAE,cAAc,CAAC;IACrB,IAAI,EAAE,OAAO,CAAC;IACd,SAAS,EAAE,MAAM,CAAC;CACnB;AAYD,wBAAsB,OAAO,CAAC,SAAS,EAAE,MAAM,EAAE,OAAO,GAAE,cAAmB,GAAG,OAAO,CAAC,aAAa,CAAC,CA+GrG;AAsDD,wBAAgB,gBAAgB,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAG1D"}
1	+ {"version":3,"file":"run.d.ts","sourceRoot":"","sources":["../../src/convert/run.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAWH,OAAO,EAAE,OAAO,EAAE,MAAM,kBAAkB,CAAC;AAE3C,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,kBAAkB,CAAC;AAanD,OAAO,KAAK,EAAE,cAAc,EAAE,WAAW,EAAa,MAAM,WAAW,CAAC;AAGxE,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,eAAe,CAAC;AAExD,OAAO,EAAE,YAAY,EAAE,CAAC;AAExB,MAAM,MAAM,mBAAmB,GAC3B,eAAe,GACf,mBAAmB,GACnB,wBAAwB,GACxB,kBAAkB,GAClB,cAAc,CAAC;AAEnB,qBAAa,eAAgB,SAAQ,KAAK;IACxC,QAAQ,CAAC,IAAI,EAAE,mBAAmB,CAAC;IACnC,QAAQ,CAAC,IAAI,EAAE,MAAM,GAAG,SAAS,CAAC;gBACtB,IAAI,EAAE,mBAAmB,EAAE,OAAO,EAAE,MAAM,EAAE,IAAI,CAAC,EAAE,MAAM;CAMtE;AAED,MAAM,WAAW,cAAe,SAAQ,WAAW;IACjD,sFAAsF;IACtF,SAAS,CAAC,EAAE,MAAM,GAAG,SAAS,CAAC;IAC/B,8CAA8C;IAC9C,KAAK,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC5B,wFAAwF;IACxF,QAAQ,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC/B;;;;;;OAMG;IACH,QAAQ,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC/B,UAAU,CAAC,EAAE,CAAC,CAAC,QAAQ,EAAE,kBAAkB,KAAK,IAAI,CAAC,GAAG,SAAS,CAAC;CACnE;AAED,MAAM,WAAW,kBAAkB;IACjC,WAAW,EAAE,MAAM,CAAC;IACpB,YAAY,EAAE,MAAM,CAAC;IACrB,YAAY,EAAE,MAAM,CAAC;CACtB;AAED,MAAM,WAAW,WAAW;IAC1B,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,MAAM,CAAC;CACd;AAED,MAAM,WAAW,aAAa;IAC5B,SAAS,EAAE,MAAM,CAAC;IAClB,KAAK,EAAE,WAAW,EAAE,CAAC;IACrB,eAAe,EAAE,MAAM,CAAC;IACxB,WAAW,EAAE,UAAU,EAAE,CAAC;IAC1B,IAAI,EAAE,cAAc,CAAC;IACrB,IAAI,EAAE,OAAO,CAAC;IACd,SAAS,EAAE,MAAM,CAAC;CACnB;AAYD,wBAAsB,OAAO,CAAC,SAAS,EAAE,MAAM,EAAE,OAAO,GAAE,cAAmB,GAAG,OAAO,CAAC,aAAa,CAAC,CA+GrG;AAsDD,wBAAgB,gBAAgB,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAG1D"}

package/dist/convert/run.js CHANGED Viewed

@@ -17,7 +17,7 @@ import { describeFormat, formatRates, formatWallClock } from '../edf/header.js';
 import { EdfError } from '../edf/errors.js';
 import { BufferedLineWriter, csvRow } from '../format/csv.js';
 import { listed } from '../format/list.js';
-import { fixed, makeSampleFormatter, makeTimeFormatter } from '../format/number.js';
+import { fixed, makeSampleFormatter, makeTimeFormatter, newOffsetBudget, } from '../format/number.js';
 import { buildPlan, withoutFileRateWarning } from './plan.js';
 import { deriveRecordStarts } from './timing.js';
 import { sampleTimeIsInRange } from './time-range.js';
@@ -264,6 +264,8 @@ function describeFsError(cause) {
     return cause instanceof Error ? cause.message : String(cause);
 }
 async function writeSignalFiles(file, plan, outputDir, recordStarts, options) {
+    // One budget for every table in this conversion, not one per table: see OffsetBudget.
+    const offsets = newOffsetBudget();
     const open = plan.groups.map((group) => {
         // A null directory means the single table goes to stdout. process.stdout is already a
         // writable stream, so the same buffered writer and backpressure handling apply.
@@ -275,7 +277,7 @@ async function writeSignalFiles(file, plan, outputDir, recordStarts, options) {
             group,
             writer,
             formatters: group.channels.map((c) => makeSampleFormatter(c.signal, c.decimals)),
-            formatTime: makeTimeFormatter(group.samplesPerRecord, group.rate, group.timeDecimals),
+            formatTime: makeTimeFormatter(group.samplesPerRecord, group.rate, group.timeDecimals, offsets),
             rows: 0,
             settled,
         };

package/dist/convert/run.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/dist/convert/timing.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"timing.d.ts","sourceRoot":"","sources":["../../src/convert/timing.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,kBAAkB,CAAC;AACnD,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,kBAAkB,CAAC;AAEhD,MAAM,WAAW,oBAAoB;IACnC,YAAY,EAAE,CAAC,MAAM,GAAG,IAAI,CAAC,EAAE,CAAC;IAChC,SAAS,EAAE,MAAM,CAAC;CACnB;AAED;;;;;;GAMG;AACH,wBAAgB,kBAAkB,CAChC,IAAI,EAAE,OAAO,EACb,cAAc,EAAE,oBAAoB,GACnC;IAAE,MAAM,EAAE,YAAY,GAAG,IAAI,CAAC;IAAC,WAAW,EAAE,UAAU,EAAE,CAAA;CAAE,~~CA2F5D~~"}
1	+ {"version":3,"file":"timing.d.ts","sourceRoot":"","sources":["../../src/convert/timing.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,kBAAkB,CAAC;AACnD,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,kBAAkB,CAAC;AAEhD,MAAM,WAAW,oBAAoB;IACnC,YAAY,EAAE,CAAC,MAAM,GAAG,IAAI,CAAC,EAAE,CAAC;IAChC,SAAS,EAAE,MAAM,CAAC;CACnB;AAED;;;;;;GAMG;AACH,wBAAgB,kBAAkB,CAChC,IAAI,EAAE,OAAO,EACb,cAAc,EAAE,oBAAoB,GACnC;IAAE,MAAM,EAAE,YAAY,GAAG,IAAI,CAAC;IAAC,WAAW,EAAE,UAAU,EAAE,CAAA;CAAE,CAuG5D"}

package/dist/convert/timing.js CHANGED Viewed

@@ -39,6 +39,11 @@ export function deriveRecordStarts(file, annotationData) {
         for (let i = 0; i < file.recordCount; i++) {
             contiguous[i] = first + i * file.header.recordDuration;
         }
+        const last = contiguous[file.recordCount - 1] ?? first;
+        if (!canCarry(last, file)) {
+            diagnostics.push(unusableOrigin(first, file));
+            return { starts: null, diagnostics };
+        }
         return { starts: contiguous, diagnostics };
     }
     if (file.annotationSignals.length === 0) {
@@ -74,6 +79,14 @@ export function deriveRecordStarts(file, annotationData) {
             hint: 'Those records are timed as if they were contiguous; treat their timestamps as unreliable.',
         });
     }
+    let furthest = 0;
+    for (const start of starts)
+        if (start > furthest)
+            furthest = start;
+    if (!canCarry(furthest, file)) {
+        diagnostics.push(unusableOrigin(furthest, file));
+        return { starts: null, diagnostics };
+    }
     let outOfOrder = 0;
     for (let i = 1; i < starts.length; i++) {
         if (starts[i] < starts[i - 1])
@@ -89,4 +102,60 @@ export function deriveRecordStarts(file, annotationData) {
     }
     return { starts, diagnostics };
 }
+/**
+ * Whether times this far out can still tell one sample from the next.
+ *
+ * A double spaces its values further apart the larger they get: at 1e16 the gap is 2
+ * seconds, so `t + 1` is `t`. Past that point a recording's declared origin stops being a
+ * position and becomes a wall — the arithmetic that places records and samples returns the
+ * origin itself, whatever is added to it.
+ *
+ * The finest thing that has to survive is the gap between two consecutive samples of the
+ * fastest channel, since that is what the time column is made of. If that survives, so does
+ * a whole record.
+ */
+function canCarry(origin, file) {
+    if (!Number.isFinite(origin))
+        return false;
+    let interval = file.header.recordDuration;
+    for (const signal of file.header.signals) {
+        if (signal.isAnnotations || !(signal.samplesPerRecord > 0))
+            continue;
+        const step = file.header.recordDuration / signal.samplesPerRecord;
+        if (step > 0 && step < interval)
+            interval = step;
+    }
+    return origin + interval > origin;
+}
+/**
+ * An origin the file's own arithmetic cannot express, reported rather than acted on.
+ *
+ * Two things went wrong when this was taken at face value, both of them quiet. A file whose
+ * records all collapsed onto one instant made the recording zero seconds long, and the
+ * window resolver — which had no reason to suspect the recording rather than the request —
+ * blamed a flag nobody had passed:
+ *
+ *     error: --start 100000000000000000s is at or past the end of this
+ *            100000000000000000s recording.
+ *
+ * Slightly below that, the collapse is partial: `records[i].start + recordDuration` equals
+ * the start again, so the test for "does this record overlap the window" fails for every
+ * record whose neighbour rounded onto it. A twelve-row recording wrote four rows, exit 0,
+ * no warning — the eight that vanished looked exactly like a file that never had them.
+ *
+ * Timing from zero is what the file did before 0.4.9 taught it to honour the first
+ * timekeeping TAL, and at this magnitude it is the only column that can hold distinct
+ * values. The origin is lost, so this says so.
+ */
+function unusableOrigin(origin, file) {
+    return {
+        code: 'DISCONTINUOUS',
+        severity: 'warning',
+        message: `This recording's timekeeping annotations place it ${origin}s from its own start ` +
+            `date, which is too far out for its ${file.header.recordDuration}s records to be told ` +
+            `apart: at that magnitude adding a sample interval leaves the number unchanged.`,
+        hint: 'Sample times are written from zero instead, so every row is present and the column ' +
+            'increases. Add the onsets in annotations.csv to recover absolute times if you need them.',
+    };
+}
 //# sourceMappingURL=timing.js.map

package/dist/convert/timing.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/format/number.d.ts CHANGED Viewed

@@ -39,6 +39,24 @@ export declare function timeDecimals(samplingRate: number): number;
 export declare function formatBytes(bytes: number): string;
 /** Human-readable duration: 1h 05m 12s. */
 export declare function formatDuration(seconds: number): string;
+/**
+ * How many cached offsets a conversion has left to spend.
+ *
+ * The cap used to be per rate group, and a file may hold as many rate groups as it has
+ * channels. Twelve channels at twelve rates just under the cap — a 25 MB file — took
+ * 1.66 GB and 36 seconds, where a 92 MB file at one rate takes 283 MB and finishes in a
+ * fraction of that; twenty-four of them never finished at all. A per-group limit is not a
+ * limit, since nothing bounds the number of groups.
+ *
+ * One budget for the whole conversion makes the single-group case identical to what it was
+ * and the many-group case bounded. Groups ask in order of rate, fastest first, so the cache
+ * goes to the tables with the most rows to write and the ones that miss out are the ones
+ * that would have gained least.
+ */
+export interface OffsetBudget {
+    remaining: number;
+}
+export declare function newOffsetBudget(): OffsetBudget;
 /**
  * Formats the time column, reusing the part of it that repeats.
  *
@@ -63,5 +81,5 @@ export declare function formatDuration(seconds: number): string;
  * a whole number of seconds, and for discontinuous files it holds per record depending on
  * where that record actually starts.
  */
-export declare function makeTimeFormatter(samplesPerRecord: number, rate: number, decimals: number): (recordStart: number, sample: number) => string;
+export declare function makeTimeFormatter(samplesPerRecord: number, rate: number, decimals: number, budget?: OffsetBudget): (recordStart: number, sample: number) => string;
 //# sourceMappingURL=number.d.ts.map

package/dist/format/number.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/format/number.js CHANGED Viewed

@@ -157,6 +157,9 @@ export function formatDuration(seconds) {
 }
 /** A record can declare a great many samples; two arrays this size is the cost of caching. */
 const MAX_CACHED_OFFSETS = 1 << 20;
+export function newOffsetBudget() {
+    return { remaining: MAX_CACHED_OFFSETS };
+}
 /**
  * Formats the time column, reusing the part of it that repeats.
  *
@@ -181,14 +184,15 @@ const MAX_CACHED_OFFSETS = 1 << 20;
  * a whole number of seconds, and for discontinuous files it holds per record depending on
  * where that record actually starts.
  */
-export function makeTimeFormatter(samplesPerRecord, rate, decimals) {
+export function makeTimeFormatter(samplesPerRecord, rate, decimals, budget = newOffsetBudget()) {
     const direct = (recordStart, sample) => fixed(recordStart + sample / rate, decimals);
     if (!(rate > 0) ||
         !Number.isFinite(rate) ||
         samplesPerRecord <= 0 ||
-        samplesPerRecord > MAX_CACHED_OFFSETS) {
+        samplesPerRecord > budget.remaining) {
         return direct;
     }
+    budget.remaining -= samplesPerRecord;
     // Whole seconds and printed fraction of each offset, taken from the formatted offset
     // itself so that an offset which rounds up to the next second (0.9996 at three places)
     // carries that second rather than losing it.

package/dist/format/number.js.map CHANGED Viewed

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

@@ -1,6 +1,6 @@
 {
   "name": "edf2csv",
-  "version": "0.4.22",
+  "version": "0.4.24",
   "description": "Convert EDF, EDF+ and BDF biosignal recordings (European Data Format) to CSV from the command line. Local, streaming, and never resamples or alters units.",
   "keywords": [
     "edf",