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authorBryan Newbold <bnewbold@archive.org>2018-08-24 18:00:45 -0700
committerBryan Newbold <bnewbold@archive.org>2018-08-24 18:00:45 -0700
commite64ba0f5dc5741c9940a2a8da8316f5e8b2baa24 (patch)
tree8f34e3575286e6e9be90f7ed7f2d728e0bcb64b8
parentab4ccb175621618d735b62b9f1afa764f9ad5109 (diff)
downloadsandcrawler-e64ba0f5dc5741c9940a2a8da8316f5e8b2baa24.tar.gz
sandcrawler-e64ba0f5dc5741c9940a2a8da8316f5e8b2baa24.zip
scalding: UnGrobidedDumpJob
-rw-r--r--scalding/src/main/scala/sandcrawler/UnGrobidedDumpJob.scala67
-rw-r--r--scalding/src/test/scala/sandcrawler/UnGrobidedDumpJobTest.scala72
2 files changed, 139 insertions, 0 deletions
diff --git a/scalding/src/main/scala/sandcrawler/UnGrobidedDumpJob.scala b/scalding/src/main/scala/sandcrawler/UnGrobidedDumpJob.scala
new file mode 100644
index 0000000..0ce9167
--- /dev/null
+++ b/scalding/src/main/scala/sandcrawler/UnGrobidedDumpJob.scala
@@ -0,0 +1,67 @@
+package sandcrawler
+
+import java.util.Properties
+
+import cascading.property.AppProps
+import cascading.tuple.Fields
+import com.twitter.scalding._
+import com.twitter.scalding.typed.TDsl._
+import parallelai.spyglass.base.JobBase
+import parallelai.spyglass.hbase.HBaseConstants.SourceMode
+import parallelai.spyglass.hbase.HBasePipeConversions
+import parallelai.spyglass.hbase.HBaseSource
+
+// Filters for HBase rows which have not had GROBID run on them, but do have
+// full CDX metadata, and dumps to a TSV for later extraction by the
+// "extraction-ungrobided" job.
+//
+// Does the same horrible join thing that UnGrobidedDumpJob does.
+class UnGrobidedDumpJob(args: Args) extends JobBase(args) with HBasePipeConversions {
+
+ val output = args("output")
+
+ val allKeys : TypedPipe[(String,String,String,String)] = UnGrobidedDumpJob.getHBaseKeySource(
+ args("hbase-table"),
+ args("zookeeper-hosts"))
+ .read
+ .fromBytesWritable('key, 'c, 'mime, 'cdx)
+ .toTypedPipe[(String,String,String,String)]('key, 'c, 'mime, 'cdx)
+
+ val existingKeys : TypedPipe[(String,Boolean)] = UnGrobidedDumpJob.getHBaseColSource(
+ args("hbase-table"),
+ args("zookeeper-hosts"))
+ .read
+ .fromBytesWritable('key)
+ .toTypedPipe[String]('key)
+ .map{ key => (key, true) }
+
+ val missingKeys : TypedPipe[(String,String,String,String)] = allKeys
+ .groupBy(_._1)
+ .leftJoin(existingKeys.groupBy(_._1))
+ .toTypedPipe
+ .collect { case (key, ((_, c, mime, cdx), None)) => (key, c, mime, cdx) }
+
+ missingKeys
+ .write(TypedTsv[(String,String,String,String)](output))
+
+}
+
+object UnGrobidedDumpJob {
+
+ // eg, "wbgrp-journal-extract-0-qa",7 "mtrcs-zk1.us.archive.org:2181"
+ def getHBaseColSource(hbaseTable: String, zookeeperHosts: String) : HBaseSource = {
+ HBaseBuilder.build(
+ hbaseTable,
+ zookeeperHosts,
+ List("grobid0:status_code"),
+ SourceMode.SCAN_ALL)
+ }
+
+ def getHBaseKeySource(hbaseTable: String, zookeeperHosts: String) : HBaseSource = {
+ HBaseBuilder.build(
+ hbaseTable,
+ zookeeperHosts,
+ List("f:c", "file:mime", "file:cdx"),
+ SourceMode.SCAN_ALL)
+ }
+}
diff --git a/scalding/src/test/scala/sandcrawler/UnGrobidedDumpJobTest.scala b/scalding/src/test/scala/sandcrawler/UnGrobidedDumpJobTest.scala
new file mode 100644
index 0000000..a847ebb
--- /dev/null
+++ b/scalding/src/test/scala/sandcrawler/UnGrobidedDumpJobTest.scala
@@ -0,0 +1,72 @@
+package sandcrawler
+
+import cascading.tuple.Fields
+import cascading.tuple.Tuple
+import com.twitter.scalding.JobTest
+import com.twitter.scalding.Tsv
+import com.twitter.scalding.TupleConversions
+import com.twitter.scalding.TypedTsv
+import org.apache.hadoop.hbase.io.ImmutableBytesWritable
+import org.apache.hadoop.hbase.util.Bytes
+import org.junit.runner.RunWith
+import org.scalatest.FunSpec
+import org.scalatest.junit.JUnitRunner
+import org.slf4j.LoggerFactory
+import parallelai.spyglass.hbase.HBaseConstants.SourceMode
+import parallelai.spyglass.hbase.HBaseSource
+import scala._
+
+@RunWith(classOf[JUnitRunner])
+class UnGrobidedDumpJobTest extends FunSpec with TupleConversions {
+
+ val output = "/tmp/testOutput"
+ val (testTable, testHost) = ("test-table", "dummy-host:2181")
+
+ val log = LoggerFactory.getLogger(this.getClass.getName)
+
+ val statusCode: Long = 200
+ val statusBytes = Bytes.toBytes(statusCode)
+
+ val sampleDataGrobid : List[List[Array[Byte]]] = List(
+ ("sha1:SDKUVHC3YNNEGH5WAG5ZAAXWAEBNX4WT", statusBytes),
+ ("sha1:35985C3YNNEGH5WAG5ZAAXWAEBNXJW56", statusBytes),
+ ("sha1:885C3YNNEGH5WAG5ZAAXWA8BNXJWT6CZ", statusBytes),
+ ("sha1:00904C3YNNEGH5WAG5ZA9XWAEBNXJWT6", statusBytes),
+ ("sha1:249C3YNNEGH5WAG5ZAAXWAEBNXJWT6CZ", statusBytes),
+ ("sha1:095893C3YNNEGH5WAG5ZAAXWAEBNXJWT", statusBytes))
+ .map(pair => List(Bytes.toBytes(pair._1), pair._2))
+
+ val sampleDataFile : List[List[Array[Byte]]] = List(
+ ("sha1:K2DKSSVTXWPRMFDTWSTCQW3RVWRIOV3Q", """{c-json-data}""", "application/pdf", """{cdx-json-data}"""),
+ ("sha1:C3YNNEGH5WAG5ZAAXWAEBNXJWT6CZ3WU", """{c-json-data}""", "application/pdf", """{cdx-json-data}"""),
+ ("sha1:SDKUVHC3YNNEGH5WAG5ZAAXWAEBNX4WT", """{c-json-data}""", "application/pdf", """{cdx-json-data}"""),
+ ("sha1:35985C3YNNEGH5WAG5ZAAXWAEBNXJW56", """{c-json-data}""", "application/pdf", """{cdx-json-data}"""),
+ ("sha1:885C3YNNEGH5WAG5ZAAXWA8BNXJWT6CZ", """{c-json-data}""", "application/pdf", """{cdx-json-data}"""),
+ ("sha1:00904C3YNNEGH5WAG5ZA9XWAEBNXJWT6", """{c-json-data}""", "application/pdf", """{cdx-json-data}"""),
+ ("sha1:249C3YNNEGH5WAG5ZAAXWAEBNXJWT6CZ", """{c-json-data}""", "application/pdf", """{cdx-json-data}"""),
+ ("sha1:095893C3YNNEGH5WAG5ZAAXWAEBNXJWT", """{c-json-data}""", "application/pdf", """{cdx-json-data}"""))
+ .map(pair => List(Bytes.toBytes(pair._1),
+ Bytes.toBytes(pair._2),
+ Bytes.toBytes(pair._3),
+ Bytes.toBytes(pair._4)))
+
+ JobTest("sandcrawler.UnGrobidedDumpJob")
+ .arg("test", "")
+ .arg("app.conf.path", "app.conf")
+ .arg("output", output)
+ .arg("hbase-table", testTable)
+ .arg("zookeeper-hosts", testHost)
+ .arg("debug", "true")
+ .source[Tuple](UnGrobidedDumpJob.getHBaseColSource(testTable, testHost),
+ sampleDataGrobid.map(l => new Tuple(l.map(s => {new ImmutableBytesWritable(s)}):_*)))
+ .source[Tuple](UnGrobidedDumpJob.getHBaseKeySource(testTable, testHost),
+ sampleDataFile.map(l => new Tuple(l.map(s => {new ImmutableBytesWritable(s)}):_*)))
+ .sink[Tuple](TypedTsv[(String,String,String,String)](output)) {
+ outputBuffer =>
+ it("should return correct-length list.") {
+ assert(outputBuffer.size === 2)
+ }
+ }
+ .run
+ .finish
+}