bionode-bwa - npm Package Compare versions

Comparing version 1.0.0 to 1.0.1

package.json

		{
		"name": "bionode-bwa",
		"description": "A Node.js wrapper for the Burrow-Wheeler Aligner (BWA).",
		"version": "1.0.0",
		"version": "1.0.1",
		"homepage": "http://github.com/bionode/bionode-bwa",
		@@ -6,0 +6,0 @@ "repository": {

test/bionode-bwa.js

		@@ -18,14 +18,20 @@ var bwa = require('../')

		var downloads = [
		var asyncFuncs = [
		download(referenceURL, referencePath),
		download(readsURL, readsPath)
		download(readsURL, readsPath),
		alignReadsToRef1,
		alignReadsToRef2
		]
		async.series(downloads, alignReadsToRef)
		async.series(asyncFuncs)

		function alignReadsToRef() {
		function alignReadsToRef1(cb) {
		var msg = "should take paths for reference, reads and aligment. Reference should be indexed first."
		var mem = bwa() // default to mem
		mem([referencePath, readsPath, alignmentPath])
		.on('data', function(data) { checksum(data, '3dae171586e8f5fda2737795ff2e39df711701cb', msg, t) })

		.on('data', function(data) {
		checksum(data, '3dae171586e8f5fda2737795ff2e39df711701cb', msg, t)
		cb()
		})
		}
		function alignReadsToRef2(cb) {
		var msg = "should align using a Stream that takes arrays of paths for reference and reads."
		@@ -36,3 +42,6 @@ var mem = bwa('mem -x pacbio')
		memStream.end()
		memStream.on('data', function(data) { checksum(data, 'a2ac465ac0d9e0879a9f9a43108e36b682f2e018', msg, t) })
		memStream.on('data', function(data) {
		checksum(data, 'a2ac465ac0d9e0879a9f9a43108e36b682f2e018', msg, t)
		cb()
		})
		}
		@@ -39,0 +48,0 @@ })

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