npm - edf2csv - Versions diffs - 0.2.26 → 0.2.27 - Mend

edf2csv 0.2.26 → 0.2.27

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 (10) hide show

package/CHANGELOG.md CHANGED Viewed

@@ -3,6 +3,32 @@
 Notable changes to edf2csv. Versions follow [semantic versioning](https://semver.org); while the
 major version is 0, a minor bump may contain breaking changes.
+## 0.2.27
+### Added: `--stdout` streams the CSV into a pipeline
+The README has always named "a pipeline that speaks CSV" as a use case, but getting there meant
+converting to a directory and then reading the file back out.
+```bash
+edf2csv recording.edf --stdout | duckdb -c "SELECT count(*) FROM read_csv('/dev/stdin')"
+```
+Only the samples are written — no `channels.csv`, `annotations.csv` or `metadata.json`, because a
+stream holds one table. For the same reason the recording has to produce exactly one, and a
+mixed-rate file is refused rather than merged:
+```
+error: --stdout needs exactly one table, but this recording produces 3 (its channels use 3 different sampling rates).
+       Narrow it to one rate with --channels, or convert to a directory instead.
+```
+Merging them would mean inventing rows for the slower channels, which is the one thing this tool
+exists not to do. Selecting channels that share a rate leaves one table and works.
+Row count and warnings go to stderr, so stdout carries nothing but CSV, and the progress meter is
+never drawn in this mode.
 ## 0.2.26
 ### Fixed: the README's option list had fallen behind the CLI

package/README.md CHANGED Viewed

@@ -63,6 +63,7 @@ npx edf2csv recording.edf --start 30m --duration 5m
   -q, --quiet            Less output
       --json             Machine-readable JSON on stdout (works with --info too)
       --strict           Exit 1 if the recording raised any warning
+      --stdout           Write the CSV to stdout (single-rate recordings only)
   -h, --help             Help
   -V, --version          Version
 ```

package/dist/cli.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"cli.d.ts","sourceRoot":"","sources":["../src/cli.ts"],"names":[],"mappings":";AACA;;;;;;;GAOG;AAUH,OAAO,EAA4B,gBAAgB,EAAE,MAAM,kBAAkB,CAAC;~~AA4E9E~~,wBAAsB,IAAI,CAAC,IAAI,EAAE,SAAS,MAAM,EAAE,GAAG,OAAO,CAAC,MAAM,CAAC,~~CAgOnE~~;AAqCD,OAAO,EAAE,gBAAgB,EAAE,CAAC"}
1	+ {"version":3,"file":"cli.d.ts","sourceRoot":"","sources":["../src/cli.ts"],"names":[],"mappings":";AACA;;;;;;;GAOG;AAUH,OAAO,EAA4B,gBAAgB,EAAE,MAAM,kBAAkB,CAAC;AA8E9E,wBAAsB,IAAI,CAAC,IAAI,EAAE,SAAS,MAAM,EAAE,GAAG,OAAO,CAAC,MAAM,CAAC,CA0OnE;AAqCD,OAAO,EAAE,gBAAgB,EAAE,CAAC"}

package/dist/cli.js CHANGED Viewed

@@ -42,6 +42,8 @@ Options
   -q, --quiet            Suppress the summary; warnings and errors still print
       --json             Print machine-readable JSON to stdout (works with --info too)
       --strict           Exit 1 if the recording raised any warning
+      --stdout           Write the signal CSV to stdout instead of a directory
+                         (single-rate recordings only)
   -h, --help             Show this help
   -V, --version          Show the version
@@ -109,6 +111,7 @@ export async function main(argv) {
                 quiet: { type: 'boolean', short: 'q' },
                 json: { type: 'boolean' },
                 strict: { type: 'boolean' },
+                stdout: { type: 'boolean' },
                 help: { type: 'boolean', short: 'h' },
                 version: { type: 'boolean', short: 'V' },
             },
@@ -141,6 +144,7 @@ export async function main(argv) {
     const quiet = values['quiet'] === true;
     const asJson = values['json'] === true;
     const strict = values['strict'] === true;
+    const toStdout = values['stdout'] === true;
     try {
         const channels = splitChannels(values['channels']);
         const start = optionalTime(values['start'], '--start');
@@ -200,7 +204,7 @@ export async function main(argv) {
             }
             return EXIT_OK;
         }
-        const showProgress = !quiet && !asJson && process.stderr.isTTY === true;
+        const showProgress = !quiet && !asJson && !toStdout && process.stderr.isTTY === true;
         let lastTick = 0;
         const destination = typeof values['out'] === 'string' ? values['out'] : defaultOutputDir(input);
         /*
@@ -231,6 +235,7 @@ export async function main(argv) {
             annotationsOnly: values['annotations-only'] === true,
             checksum: values['checksum'] === true,
             force: values['force'] === true,
+            toStdout,
             onProgress: showProgress
                 ? (progress) => {
                     const now = Date.now();
@@ -253,7 +258,15 @@ export async function main(argv) {
             process.stdout.write(`${summaryJson(result)}\n`);
         }
         else if (!quiet) {
-            process.stderr.write(`${formatSummary(result)}\n`);
+            // With --stdout there is no directory to summarise, and the row count is the only
+            // thing worth saying — on stderr, so the CSV on stdout stays clean.
+            if (toStdout) {
+                const rows = result.files[0]?.rows ?? 0;
+                process.stderr.write(`Wrote ${rows.toLocaleString('en-US')} rows to stdout.\n`);
+            }
+            else {
+                process.stderr.write(`${formatSummary(result)}\n`);
+            }
         }
         /*
           --strict turns any warning into a non-zero exit, for pipelines that would rather stop

package/dist/cli.js.map CHANGED Viewed

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

@@ -23,6 +23,14 @@ export interface ConvertOptions extends PlanOptions {
     force?: boolean | undefined;
     /** Record a SHA-256 of the input in metadata.json. Costs one extra read of the file. */
     checksum?: boolean | undefined;
+    /**
+     * Write the signal CSV to stdout instead of to a directory.
+     *
+     * Only valid when the conversion produces exactly one signal file: a mixed-rate
+     * recording becomes several tables, and merging them into one stream would mean
+     * inventing the samples this tool exists not to invent. No sidecar files are written.
+     */
+    toStdout?: boolean | undefined;
     onProgress?: ((progress: ConversionProgress) => void) | undefined;
 }
 export interface ConversionProgress {

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;AASH,OAAO,EAAE,OAAO,EAAE,MAAM,kBAAkB,CAAC;AAE3C,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,kBAAkB,CAAC;AAMnD,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,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;AASD,wBAAsB,OAAO,CAAC,SAAS,EAAE,MAAM,EAAE,OAAO,GAAE,cAAmB,GAAG,OAAO,CAAC,aAAa,CAAC,~~CA8ErG~~;AAqDD,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;AASH,OAAO,EAAE,OAAO,EAAE,MAAM,kBAAkB,CAAC;AAE3C,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,kBAAkB,CAAC;AAMnD,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;AASD,wBAAsB,OAAO,CAAC,SAAS,EAAE,MAAM,EAAE,OAAO,GAAE,cAAmB,GAAG,OAAO,CAAC,aAAa,CAAC,CA0GrG;AAqDD,wBAAgB,gBAAgB,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAG1D"}

package/dist/convert/run.js CHANGED Viewed

@@ -50,6 +50,25 @@ export async function convert(inputPath, options = {}) {
             recordStarts: timing.starts,
         }, options);
         plan.diagnostics.push(...timing.diagnostics);
+        if (options.toStdout === true) {
+            if (!plan.writeSignals) {
+                throw new ConversionError('OUTPUT_UNWRITABLE', '--stdout has no signal data to write because --annotations-only was given.', 'Drop one of the two flags.');
+            }
+            if (plan.groups.length !== 1) {
+                throw new ConversionError('OUTPUT_UNWRITABLE', `--stdout needs exactly one table, but this recording produces ${plan.groups.length} ` +
+                    `(its channels use ${plan.groups.length} different sampling rates).`, 'Narrow it to one rate with --channels, or convert to a directory instead.');
+            }
+            const written = await writeSignalFiles(file, plan, null, timing.starts, options);
+            return {
+                outputDir: '-',
+                files: written,
+                annotationCount: 0,
+                diagnostics: [...file.diagnostics, ...plan.diagnostics],
+                plan,
+                file,
+                elapsedMs: Date.now() - startedAt,
+            };
+        }
         const outputDir = options.outputDir ?? defaultOutputDir(inputPath);
         await assertInputDoesNotOverlapOutputs(inputPath, outputDir, file, plan);
         await prepareOutputDir(outputDir, options.force === true);
@@ -226,7 +245,9 @@ function describeFsError(cause) {
 }
 async function writeSignalFiles(file, plan, outputDir, recordStarts, options) {
     const open = plan.groups.map((group) => {
-        const stream = createWriteStream(path.join(outputDir, group.fileName));
+        // A null directory means the single table goes to stdout. process.stdout is already a
+        // writable stream, so the same buffered writer and backpressure handling apply.
+        const stream = outputDir === null ? process.stdout : createWriteStream(path.join(outputDir, group.fileName));
         const writer = new BufferedLineWriter(stream);
         writer.pushLine(csvRow(['time_s', ...group.channels.map((c) => c.column)]));
         return {
@@ -243,7 +264,7 @@ async function writeSignalFiles(file, plan, outputDir, recordStarts, options) {
         for (const entry of open)
             entry.writer.destroy();
         const detail = cause instanceof Error ? cause.message : String(cause);
-        throw new ConversionError('WRITE_FAILED', `Writing to "${outputDir}" failed: ${detail}`, 'The files written so far are incomplete and should not be used. Free up space or ' +
+        throw new ConversionError('WRITE_FAILED', `Writing to ${outputDir === null ? 'stdout' : `"${outputDir}"`} failed: ${detail}`, 'The files written so far are incomplete and should not be used. Free up space or ' +
             'choose another destination with --out, then run the conversion again.');
     }
 }

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

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

@@ -1,6 +1,6 @@
 {
   "name": "edf2csv",
-  "version": "0.2.26",
+  "version": "0.2.27",
   "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",