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authorbnewbold <bnewbold@archive.org>2018-06-04 22:05:54 +0000
committerbnewbold <bnewbold@archive.org>2018-06-04 22:05:54 +0000
commitb21cc924224202aba412370acafaaa4846bb4a8d (patch)
tree3d0fcc2f2bee55eb038686c566bdab1763e65c74 /scalding
parent70069a78c8798352b5bef815a3fd4aa9e9b52394 (diff)
parent9a18da82738c16d3066e02e886ee84e04156889f (diff)
downloadsandcrawler-b21cc924224202aba412370acafaaa4846bb4a8d.tar.gz
sandcrawler-b21cc924224202aba412370acafaaa4846bb4a8d.zip
Merge branch 'refactoring' into 'master'
Refactoring to add, use, and test class HBaseBuilder to eliminate duplicated code and facilitate HBaseSource creation See merge request webgroup/sandcrawler!1
Diffstat (limited to 'scalding')
-rw-r--r--scalding/src/main/scala/sandcrawler/HBaseBuilder.scala46
-rw-r--r--scalding/src/main/scala/sandcrawler/HBaseRowCountJob.scala18
-rw-r--r--scalding/src/test/scala/sandcrawler/HBaseBuilderTest.scala43
-rw-r--r--scalding/src/test/scala/sandcrawler/HBaseRowCountTest.scala14
4 files changed, 101 insertions, 20 deletions
diff --git a/scalding/src/main/scala/sandcrawler/HBaseBuilder.scala b/scalding/src/main/scala/sandcrawler/HBaseBuilder.scala
new file mode 100644
index 0000000..87cc0cb
--- /dev/null
+++ b/scalding/src/main/scala/sandcrawler/HBaseBuilder.scala
@@ -0,0 +1,46 @@
+package sandcrawler
+
+import cascading.tuple.Fields
+import parallelai.spyglass.hbase.HBaseConstants.SourceMode
+import parallelai.spyglass.hbase.HBaseSource
+import scala._
+
+object HBaseBuilder {
+ // map from column families to column names
+ val schema = Map("f" -> List("c"),
+ "file" -> List("size", "mime", "cdx"),
+ "grobid0" -> List("status_code", "quality", "status", "tei_xml", "tei_json", "metadata"),
+ "match0" -> List("status", "doi", "info"))
+ val inverseSchema = {for ((k,vs) <- schema; v <-vs) yield (k + ":" + v)}.toList
+
+ // The argument should be a comma-separated list of family:column, such as "f:c, file:size".
+ @throws(classOf[IllegalArgumentException])
+ def parseColSpec(colSpecs: List[String]) : (List[String], List[Fields]) = {
+ // Verify that all column specifiers are legal.
+ for (colSpec <- colSpecs) {
+ if (!(inverseSchema contains colSpec)) {
+ throw new IllegalArgumentException("No such column: " + colSpec)
+ }
+ val pair = colSpec split(":")
+ if (colSpec.split(":").length != 2) {
+ throw new IllegalArgumentException("Bad column specifier " + colSpec +
+ " (specifiers should be family:name)")
+ }
+ }
+
+ // Produce and return a tuple containing:
+ // 1. A list of column families.
+ // 2. A corresponding list of Fields, each containing column names.
+ val groupMap: Map[String, List[String]] = colSpecs.groupBy(c => (c split ":")(0))
+ val families = groupMap.keys.toList
+ val groupedColNames : List[List[String]] = families map {fam => {
+ val cols = {groupMap(fam).map(v => v.split(":")(1))}
+ cols}}
+ (families, groupedColNames.map({fields => new Fields(fields : _*)}))
+ }
+
+ def build(table: String, server: String, colSpec: List[String], sourceMode: SourceMode, keyList: List[String] = List("key")) = {
+ val (families, fields) = parseColSpec(colSpec)
+ new HBaseSource(table, server, new Fields("key"), families, fields, sourceMode = sourceMode, keyList = keyList)
+ }
+}
diff --git a/scalding/src/main/scala/sandcrawler/HBaseRowCountJob.scala b/scalding/src/main/scala/sandcrawler/HBaseRowCountJob.scala
index d47fe60..9d074ab 100644
--- a/scalding/src/main/scala/sandcrawler/HBaseRowCountJob.scala
+++ b/scalding/src/main/scala/sandcrawler/HBaseRowCountJob.scala
@@ -16,17 +16,17 @@ class HBaseRowCountJob(args: Args) extends JobBase(args) with HBasePipeConversio
val output = args("output")
- val hbs = new HBaseSource(
- //"table_name",
- //"quorum_name:2181",
- "wbgrp-journal-extract-0-qa", // HBase Table Name
- "mtrcs-zk1.us.archive.org:2181", // HBase Zookeeper server (to get runtime config info; can be array?)
- new Fields("key"),
- List("file"),
- List(new Fields("size", "mimetype")),
- sourceMode = SourceMode.SCAN_ALL)
+ HBaseRowCountJob.getHBaseSource
.read
.debug
.groupAll { _.size('count) }
.write(Tsv(output))
}
+
+object HBaseRowCountJob {
+ def getHBaseSource = HBaseBuilder.build(
+ "wbgrp-journal-extract-0-qa", // HBase Table Name
+ "mtrcs-zk1.us.archive.org:2181", // HBase Zookeeper server (to get runtime config info; can be array?)
+ List("file:size", "file:mime"),
+ SourceMode.SCAN_ALL)
+}
diff --git a/scalding/src/test/scala/sandcrawler/HBaseBuilderTest.scala b/scalding/src/test/scala/sandcrawler/HBaseBuilderTest.scala
new file mode 100644
index 0000000..b45751d
--- /dev/null
+++ b/scalding/src/test/scala/sandcrawler/HBaseBuilderTest.scala
@@ -0,0 +1,43 @@
+package example
+
+import cascading.tuple.Fields
+import org.scalatest._
+import sandcrawler.HBaseBuilder
+
+class HBaseBuilderTest extends FlatSpec with Matchers {
+ "parseColSpec()" should "work on legal nontrivial input" in {
+ val (fams, fields) = HBaseBuilder.parseColSpec(List("file:size", "file:cdx", "match0:status"))
+ fams should have length 2
+ fields should have length 2
+ val fileIndex = fams.indexOf("file")
+ fileIndex should not be -1
+ fields(fileIndex) should be (new Fields("size", "cdx"))
+ val match0Index = fams.indexOf("match0")
+ match0Index should not be -1
+ fields(match0Index) should be (new Fields("status"))
+ }
+
+ it should "work on empty input" in {
+ val (fams, fields) = HBaseBuilder.parseColSpec(List())
+ fams should have length 0
+ fields should have length 0
+ }
+
+ it should "throw IllegalArgumentException on malformed input" in {
+ a [IllegalArgumentException] should be thrownBy {
+ HBaseBuilder.parseColSpec(List("file_size"))
+ }
+ }
+
+ it should "throw IllegalArgumentException on nonexistent family" in {
+ a [IllegalArgumentException] should be thrownBy {
+ HBaseBuilder.parseColSpec(List("foo:bar"))
+ }
+ }
+
+ it should "throw IllegalArgumentException on nonexistent column" in {
+ a [IllegalArgumentException] should be thrownBy {
+ HBaseBuilder.parseColSpec(List("file:bar"))
+ }
+ }
+}
diff --git a/scalding/src/test/scala/sandcrawler/HBaseRowCountTest.scala b/scalding/src/test/scala/sandcrawler/HBaseRowCountTest.scala
index 94b3740..abb017c 100644
--- a/scalding/src/test/scala/sandcrawler/HBaseRowCountTest.scala
+++ b/scalding/src/test/scala/sandcrawler/HBaseRowCountTest.scala
@@ -12,6 +12,7 @@ import scala._
import com.twitter.scalding.Tsv
import parallelai.spyglass.hbase.HBaseSource
import parallelai.spyglass.hbase.HBaseConstants.SourceMode
+import sandcrawler.HBaseRowCountJob
/**
* Example of how to define tests for HBaseSource
@@ -39,18 +40,9 @@ class HBaseRowCountTest extends FunSpec with TupleConversions {
.arg("app.conf.path", "app.conf")
.arg("output", output)
.arg("debug", "true")
- .source[Tuple](
- new HBaseSource(
- //"table_name",
- //"quorum_name:2181",
- "wbgrp-journal-extract-0-qa",
- "mtrcs-zk1.us.archive.org:2181",
- new Fields("key"),
- List("file"),
- List(new Fields("size", "mimetype")),
- sourceMode = SourceMode.SCAN_ALL),
+ .source[Tuple](HBaseRowCountJob.getHBaseSource,
sampleData.map(l => new Tuple(l.map(s => {new ImmutableBytesWritable(Bytes.toBytes(s))}):_*)))
- .sink[Tuple](Tsv(output)) {
+ .sink[Tuple](Tsv(output)) {
outputBuffer =>
it("should return the test data provided.") {