edf2csv 0.4.0 → 0.4.1

package/CHANGELOG.md

@@ -3,6 +3,54 @@
 Notable changes to edf2csv. Versions follow [semantic versioning](https://semver.org); while the
 major version is 0, a minor bump may contain breaking changes.
 
+## 0.4.1
+
+### Faster: large conversions run in about two thirds of the time
+
+A 19 MB recording converting to 168 MB of CSV took 1.90 s and now takes 1.35 s. The output is
+byte-identical — the 168 MB file compares equal, as does everything the fixtures produce across
+four flag combinations.
+
+Value cells were already cheap. A channel can only hold `digitalMax - digitalMin + 1` distinct
+readings, so a small cache of formatted strings serves millions of rows and `toFixed` runs a
+couple of thousand times for the whole conversion.
+
+The time column had no such luck. It rises monotonically, so no two rows share a string and it
+was formatted once per row — ten million calls on that file, and a third of the total time,
+more than reading the recording and writing the CSV put together.
+
+What repeats there is the offset *within* a record. Sample `s` sits at `s / rate` from the start
+of whichever record holds it, and a recording has only `samplesPerRecord` such offsets however
+long it runs. Splitting each one into whole seconds and printed fraction reduces the per-row
+work to an integer addition and a concatenation:
+
+```
+record starting at 42s, sample 7 of a 100 Hz record
+  ->  42 + 0 whole seconds, fraction ".070"  ->  "42.070"
+```
+
+The decomposition only holds for a record starting on a whole, non-negative second, which is
+what lets the fraction come entirely from the offset. Two cases therefore fall back to
+formatting the sum, and both were found by checking rather than by reasoning:
+
+- **A record starting mid-second** mixes the two fractions. Continuous recordings start every
+  record at `index * recordDuration`, so this only arises for a fractional record duration or a
+  discontinuous file whose stored start lands between seconds.
+- **A negative record start**, which appends the fraction the wrong way: −5 s plus half a
+  second is −4.5, but `"-5"` and `".500"` concatenate to −5.500. No recording starts before
+  zero, but an EDF+ timekeeping TAL is free to carry a negative onset, and that is reason
+  enough for the fast path to decline it.
+
+Checked against formatting the sum over 49,456 combinations — 29 sampling rates from 1e-6 Hz to
+2048 Hz, against record starts from 0 to 1e8 seconds, which is three years of continuous
+recording. Every one agrees.
+
+Past roughly 1e9 seconds the two answers separate, because the sum no longer fits its fraction
+into a double. Where they differ this one is right: 317 years in, sample 2 of a 999 Hz record
+is at 2/999 = 0.002002002…, which is `0.002002` at six places, and formatting the sum gives
+`0.002003`. Nothing real reaches that magnitude, and there is no case in which the change costs
+accuracy.
+
 ## 0.4.0
 
 ### Added: several recordings in one command

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

@@ -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;AAOnD,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,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;AAWD,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"}
+{"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;AAOnD,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,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

@@ -16,7 +16,7 @@ import { EdfFile } from '../edf/reader.js';
 import { describeFormat, formatRates, formatWallClock } from '../edf/header.js';
 import { BufferedLineWriter, csvRow } from '../format/csv.js';
 import { listed } from '../format/list.js';
-import { fixed, makeSampleFormatter } from '../format/number.js';
+import { fixed, makeSampleFormatter, makeTimeFormatter } from '../format/number.js';
 import { buildPlan, withoutFileRateWarning } from './plan.js';
 import { deriveRecordStarts } from './timing.js';
 import { sampleTimeIsInRange } from './time-range.js';
@@ -264,6 +264,7 @@ 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),
             rows: 0,
             settled,
         };
@@ -301,13 +302,13 @@ async function streamSignalRows(file, plan, open, recordStarts, options) {
             const index = batch.firstRecordIndex + r;
             const recordStart = recordStarts ? (recordStarts[index] ?? index * recordDuration) : index * recordDuration;
             for (const entry of open) {
-                const { group, writer, formatters } = entry;
-                const { channels, rate, timeDecimals: tDecimals } = group;
+                const { group, writer, formatters, formatTime } = entry;
+                const { channels, rate } = group;
                 for (let sample = 0; sample < group.samplesPerRecord; sample++) {
                     const time = recordStart + sample / rate;
                     if (!sampleTimeIsInRange(time, startSeconds, endSeconds))
                         continue;
-                    let row = fixed(time, tDecimals);
+                    let row = formatTime(recordStart, sample);
                     for (let c = 0; c < channels.length; c++) {
                         const channel = channels[c];
                         const format = formatters[c];

package/dist/convert/run.js.map

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

@@ -39,4 +39,29 @@ 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;
+/**
+ * Formats the time column, reusing the part of it that repeats.
+ *
+ * Every value cell is already cached — a channel has at most `digitalMax - digitalMin + 1`
+ * distinct readings, so the same handful of strings serve millions of rows. The time column
+ * had no such luck: it rises monotonically, so no two rows share a string and `toFixed` ran
+ * once per row. On a ten-million-row conversion that was a third of the total time, more
+ * than reading the file and writing the CSV put together.
+ *
+ * What repeats is the offset within a record. Sample `s` sits at `s / rate` from the start of
+ * whichever record holds it, and there are only `samplesPerRecord` such offsets in the whole
+ * recording. Splitting each into whole seconds and printed fraction turns the per-row work
+ * into one integer addition and a concatenation:
+ *
+ *     record starting at 42s, sample 7 of a 100 Hz record
+ *     -> 42 + 0 whole seconds, fraction ".070"  ->  "42.070"
+ *
+ * The decomposition is only valid when the record starts on a whole, non-negative second,
+ * which is what lets the fraction come entirely from the offset. A record starting at 0.5 s would mix the
+ * two, so those fall back to formatting the sum directly. Continuous recordings start every
+ * record at `index * recordDuration`, so this holds for all of them whose record duration is
+ * 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;
 //# sourceMappingURL=number.d.ts.map

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

@@ -1 +1 @@
-{"version":3,"file":"number.d.ts","sourceRoot":"","sources":["../../src/format/number.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAEH,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,kBAAkB,CAAC;AAMlD;;;;;GAKG;AACH,wBAAgB,KAAK,CAAC,KAAK,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,GAAG,MAAM,CA6B7D;AAED,iEAAiE;AACjE,MAAM,MAAM,eAAe,GAAG,CAAC,OAAO,EAAE,MAAM,KAAK,MAAM,CAAC;AAE1D,wBAAgB,mBAAmB,CAAC,MAAM,EAAE,SAAS,EAAE,QAAQ,EAAE,MAAM,GAAG,eAAe,CAkCxF;AAED;;;;;;;;;;;GAWG;AACH,wBAAgB,YAAY,CAAC,YAAY,EAAE,MAAM,GAAG,MAAM,CAMzD;AAED,2DAA2D;AAC3D,wBAAgB,WAAW,CAAC,KAAK,EAAE,MAAM,GAAG,MAAM,CAUjD;AAED,2CAA2C;AAC3C,wBAAgB,cAAc,CAAC,OAAO,EAAE,MAAM,GAAG,MAAM,CAetD"}
+{"version":3,"file":"number.d.ts","sourceRoot":"","sources":["../../src/format/number.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAEH,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,kBAAkB,CAAC;AAMlD;;;;;GAKG;AACH,wBAAgB,KAAK,CAAC,KAAK,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,GAAG,MAAM,CA6B7D;AAED,iEAAiE;AACjE,MAAM,MAAM,eAAe,GAAG,CAAC,OAAO,EAAE,MAAM,KAAK,MAAM,CAAC;AAE1D,wBAAgB,mBAAmB,CAAC,MAAM,EAAE,SAAS,EAAE,QAAQ,EAAE,MAAM,GAAG,eAAe,CAkCxF;AAED;;;;;;;;;;;GAWG;AACH,wBAAgB,YAAY,CAAC,YAAY,EAAE,MAAM,GAAG,MAAM,CAMzD;AAED,2DAA2D;AAC3D,wBAAgB,WAAW,CAAC,KAAK,EAAE,MAAM,GAAG,MAAM,CAUjD;AAED,2CAA2C;AAC3C,wBAAgB,cAAc,CAAC,OAAO,EAAE,MAAM,GAAG,MAAM,CAetD;AAKD;;;;;;;;;;;;;;;;;;;;;;;GAuBG;AACH,wBAAgB,iBAAiB,CAC/B,gBAAgB,EAAE,MAAM,EACxB,IAAI,EAAE,MAAM,EACZ,QAAQ,EAAE,MAAM,GACf,CAAC,WAAW,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,KAAK,MAAM,CA2CjD"}

package/dist/format/number.js

@@ -137,4 +137,66 @@ export function formatDuration(seconds) {
         return `${m}m ${sText}s`;
     return `${sText}s`;
 }
+/** A record can declare a great many samples; two arrays this size is the cost of caching. */
+const MAX_CACHED_OFFSETS = 1 << 20;
+/**
+ * Formats the time column, reusing the part of it that repeats.
+ *
+ * Every value cell is already cached — a channel has at most `digitalMax - digitalMin + 1`
+ * distinct readings, so the same handful of strings serve millions of rows. The time column
+ * had no such luck: it rises monotonically, so no two rows share a string and `toFixed` ran
+ * once per row. On a ten-million-row conversion that was a third of the total time, more
+ * than reading the file and writing the CSV put together.
+ *
+ * What repeats is the offset within a record. Sample `s` sits at `s / rate` from the start of
+ * whichever record holds it, and there are only `samplesPerRecord` such offsets in the whole
+ * recording. Splitting each into whole seconds and printed fraction turns the per-row work
+ * into one integer addition and a concatenation:
+ *
+ *     record starting at 42s, sample 7 of a 100 Hz record
+ *     -> 42 + 0 whole seconds, fraction ".070"  ->  "42.070"
+ *
+ * The decomposition is only valid when the record starts on a whole, non-negative second,
+ * which is what lets the fraction come entirely from the offset. A record starting at 0.5 s would mix the
+ * two, so those fall back to formatting the sum directly. Continuous recordings start every
+ * record at `index * recordDuration`, so this holds for all of them whose record duration is
+ * 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) {
+    const direct = (recordStart, sample) => fixed(recordStart + sample / rate, decimals);
+    if (!(rate > 0) ||
+        !Number.isFinite(rate) ||
+        samplesPerRecord <= 0 ||
+        samplesPerRecord > MAX_CACHED_OFFSETS) {
+        return direct;
+    }
+    // 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.
+    const wholeOffset = new Float64Array(samplesPerRecord);
+    const fractionText = new Array(samplesPerRecord);
+    for (let sample = 0; sample < samplesPerRecord; sample++) {
+        const text = fixed(sample / rate, decimals);
+        const dot = text.indexOf('.');
+        wholeOffset[sample] = dot === -1 ? Number(text) : Number(text.slice(0, dot));
+        fractionText[sample] = dot === -1 ? '' : text.slice(dot);
+    }
+    return (recordStart, sample) => {
+        /*
+          Non-negative only. Appending a fraction to a negative whole part moves the time the
+          wrong way: a record at -5 s and an offset of half a second is -4.5, but "-5" and
+          ".500" concatenate to -5.500. Recording times start at zero, so this is unreachable
+          from a well-formed file — an EDF+ timekeeping TAL is free to carry a negative onset
+          though, and that is enough reason for the fast path to decline it.
+        */
+        if (sample < 0 ||
+            sample >= samplesPerRecord ||
+            !Number.isInteger(recordStart) ||
+            recordStart < 0) {
+            return direct(recordStart, sample);
+        }
+        return `${recordStart + wholeOffset[sample]}${fractionText[sample]}`;
+    };
+}
 //# sourceMappingURL=number.js.map

package/dist/format/number.js.map

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

@@ -1,6 +1,6 @@
 {
   "name": "edf2csv",
-  "version": "0.4.0",
+  "version": "0.4.1",
   "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",