1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
|
package sandcrawler
import java.util.Properties
import scala.util.parsing.json.JSON
import cascading.tuple.Fields
import com.twitter.scalding._
import com.twitter.scalding.typed.TDsl._
import org.apache.hadoop.hbase.io.ImmutableBytesWritable
import org.apache.hadoop.hbase.util.Bytes
import parallelai.spyglass.base.JobBase
import parallelai.spyglass.hbase.HBaseConstants.SourceMode
import parallelai.spyglass.hbase.HBasePipeConversions
import parallelai.spyglass.hbase.HBaseSource
class HBaseCrossrefScoreJob(args: Args) extends JobBase(args) with HBasePipeConversions {
// key is SHA1
val grobidSource = HBaseCrossrefScore.getHBaseSource(
args("hbase-table"),
args("zookeeper-hosts"))
val grobidPipe = grobidSource
.read
.map('tei_json -> 'slug) {
json : ImmutableBytesWritable => {
HBaseCrossrefScore.grobidToSlug(json.toString) match {
case Some(slug) => slug
case None => "nothing"
}
}
}
.debug
.map('key -> 'sha1) { sha1 : String => sha1 }
val crossrefSource = TextLine(args("crossref-input"))
val crossrefPipe = crossrefSource
.read
.map('line -> 'slug) {
json : String => HBaseCrossrefScore.crossrefToSlug(json)}
.debug
val innerJoinPipe = grobidPipe.joinWithSmaller('slug -> 'slug, crossrefPipe)
innerJoinPipe
.mapTo(('tei_json, 'line, 'sha1) -> ('sha1, 'doi, 'score)) {
x : (String, String, String) => HBaseCrossrefScore.performJoin(x._1, x._2, x._3)}
.write(TypedTsv[(String, String, String)](args("output")))
}
object HBaseCrossrefScore {
def getHBaseSource(hbaseTable: String, zookeeperHosts: String) : HBaseSource = HBaseBuilder.build(
hbaseTable, // HBase Table Name
zookeeperHosts, // HBase Zookeeper server (to get runtime config info; can be array?)
List("grobid0:tei_json"),
SourceMode.SCAN_ALL)
def performJoin(grobidJson : String, crossRefJson : String, sha1 : String) : (String, String, String) = {
(sha1, "1.2.3.4", "100")
}
def jsonToMap(json : String) : Map[String, Any] = {
// https://stackoverflow.com/a/32717262/631051
val jsonObject = JSON.parseFull(json)
if (jsonObject == None) {
// Empty map for malformed JSON
Map[String, Any]("foo" -> json)
} else {
jsonObject.get.asInstanceOf[Map[String, Any]]
}
}
def grobidToSlug(json : String) : Option[String] = {
throw new Exception(json)
val map = jsonToMap(json)
if (map contains "title") {
titleToSlug(map("title").asInstanceOf[String])
} else {
Some("grobidToSlug None: " + map("foo"))
}
}
def crossrefToSlug(json : String) : Option[String] = {
val map = jsonToMap(json)
if (map contains "title") {
// TODO: Don't ignore titles after the first.
titleToSlug(map("title").asInstanceOf[List[String]](0))
} else {
Some("crossRefToSlug None")
}
}
def titleToSlug(title : String) : Option[String] = {
Some(title)
/*
val slug = title.split(":")(0).toLowerCase()
println("title: " + title + ", slug: " + slug)
if (slug.isEmpty) {
None
} else {
Some(slug)
}
*/
}
}
|
