Spark SQL: parse timestamp without seconds - json

Question

Some data I don't own comes with a field that's supposed to be a timestamp, but sometimes doesn't seem to comply with the ISO 8601 standard.
In my code, I defined a schema and then when Spark SQL parses my json data, I get the following error:
java.lang.IllegalArgumentException: 2016-10-07T11:15Z
The source data has the following:
"transaction_date_time": "2016-10-07T11:15Z"
And my schema is defined as such:
val schema = (new StructType)
.add("transaction_date_time", TimestampType)
I believe it's due to the fact that it's missing the seconds. How could I go to correctly parse the timestamp?
edit:
For example, reading the data using
spark.read.schema(schema).json(rdd).show()
Will trigger the following error
16/10/24 13:06:27 ERROR Executor: Exception in task 6.0 in stage 5.0 (TID 23)
java.lang.IllegalArgumentException: 2016-10-07T11:15Z
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl$Parser.skip(Unknown Source)
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl$Parser.parse(Unknown Source)
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl.<init>(Unknown Source)
at org.apache.xerces.jaxp.datatype.DatatypeFactoryImpl.newXMLGregorianCalendar(Unknown Source)
at javax.xml.bind.DatatypeConverterImpl._parseDateTime(DatatypeConverterImpl.java:422)
at javax.xml.bind.DatatypeConverterImpl.parseDateTime(DatatypeConverterImpl.java:417)
at javax.xml.bind.DatatypeConverter.parseDateTime(DatatypeConverter.java:327)
at org.apache.spark.sql.catalyst.util.DateTimeUtils$.stringToTime(DateTimeUtils.scala:140)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertField(JacksonParser.scala:114)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertObject(JacksonParser.scala:215)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertField(JacksonParser.scala:182)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertRootField(JacksonParser.scala:73)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1$$anonfun$apply$2.apply(JacksonParser.scala:288)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1$$anonfun$apply$2.apply(JacksonParser.scala:285)
at org.apache.spark.util.Utils$.tryWithResource(Utils.scala:2366)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1.apply(JacksonParser.scala:285)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1.apply(JacksonParser.scala:280)
at scala.collection.Iterator$$anon$12.nextCur(Iterator.scala:434)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:440)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$4.apply(SparkPlan.scala:246)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$4.apply(SparkPlan.scala:240)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:784)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:784)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:319)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:283)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
at org.apache.spark.scheduler.Task.run(Task.scala:85)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:274)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
at java.lang.Thread.run(Thread.java:745)
16/10/24 13:06:27 WARN TaskSetManager: Lost task 6.0 in stage 5.0 (TID 23, localhost): java.lang.IllegalArgumentException: 2016-10-07T11:15Z
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl$Parser.skip(Unknown Source)
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl$Parser.parse(Unknown Source)
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl.<init>(Unknown Source)
at org.apache.xerces.jaxp.datatype.DatatypeFactoryImpl.newXMLGregorianCalendar(Unknown Source)
at javax.xml.bind.DatatypeConverterImpl._parseDateTime(DatatypeConverterImpl.java:422)
at javax.xml.bind.DatatypeConverterImpl.parseDateTime(DatatypeConverterImpl.java:417)
at javax.xml.bind.DatatypeConverter.parseDateTime(DatatypeConverter.java:327)
at org.apache.spark.sql.catalyst.util.DateTimeUtils$.stringToTime(DateTimeUtils.scala:140)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertField(JacksonParser.scala:114)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertObject(JacksonParser.scala:215)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertField(JacksonParser.scala:182)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertRootField(JacksonParser.scala:73)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1$$anonfun$apply$2.apply(JacksonParser.scala:288)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1$$anonfun$apply$2.apply(JacksonParser.scala:285)
at org.apache.spark.util.Utils$.tryWithResource(Utils.scala:2366)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1.apply(JacksonParser.scala:285)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1.apply(JacksonParser.scala:280)
at scala.collection.Iterator$$anon$12.nextCur(Iterator.scala:434)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:440)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$4.apply(SparkPlan.scala:246)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$4.apply(SparkPlan.scala:240)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:784)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:784)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:319)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:283)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
at org.apache.spark.scheduler.Task.run(Task.scala:85)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:274)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
at java.lang.Thread.run(Thread.java:745)
16/10/24 13:06:27 ERROR TaskSetManager: Task 6 in stage 5.0 failed 1 times; aborting job
org.apache.spark.SparkException: Job aborted due to stage failure: Task 6 in stage 5.0 failed 1 times, most recent failure: Lost task 6.0 in stage 5.0 (TID 23, localhost): java.lang.IllegalArgumentException: 2016-10-07T11:15Z
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl$Parser.skip(Unknown Source)
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl$Parser.parse(Unknown Source)
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl.<init>(Unknown Source)
at org.apache.xerces.jaxp.datatype.DatatypeFactoryImpl.newXMLGregorianCalendar(Unknown Source)
at javax.xml.bind.DatatypeConverterImpl._parseDateTime(DatatypeConverterImpl.java:422)
at javax.xml.bind.DatatypeConverterImpl.parseDateTime(DatatypeConverterImpl.java:417)
at javax.xml.bind.DatatypeConverter.parseDateTime(DatatypeConverter.java:327)
at org.apache.spark.sql.catalyst.util.DateTimeUtils$.stringToTime(DateTimeUtils.scala:140)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertField(JacksonParser.scala:114)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertObject(JacksonParser.scala:215)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertField(JacksonParser.scala:182)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertRootField(JacksonParser.scala:73)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1$$anonfun$apply$2.apply(JacksonParser.scala:288)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1$$anonfun$apply$2.apply(JacksonParser.scala:285)
at org.apache.spark.util.Utils$.tryWithResource(Utils.scala:2366)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1.apply(JacksonParser.scala:285)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1.apply(JacksonParser.scala:280)
at scala.collection.Iterator$$anon$12.nextCur(Iterator.scala:434)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:440)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$4.apply(SparkPlan.scala:246)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$4.apply(SparkPlan.scala:240)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:784)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:784)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:319)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:283)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
at org.apache.spark.scheduler.Task.run(Task.scala:85)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:274)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
at java.lang.Thread.run(Thread.java:745)
Driver stacktrace:
at org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:1450)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1438)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1437)
at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1437)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:811)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:811)
at scala.Option.foreach(Option.scala:257)
at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:811)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:1659)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1618)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1607)
at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:48)
at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:632)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1871)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1884)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1897)
at org.apache.spark.sql.execution.SparkPlan.executeTake(SparkPlan.scala:347)
at org.apache.spark.sql.execution.CollectLimitExec.executeCollect(limit.scala:39)
at org.apache.spark.sql.Dataset$$anonfun$org$apache$spark$sql$Dataset$$execute$1$1.apply(Dataset.scala:2183)
at org.apache.spark.sql.execution.SQLExecution$.withNewExecutionId(SQLExecution.scala:57)
at org.apache.spark.sql.Dataset.withNewExecutionId(Dataset.scala:2532)
at org.apache.spark.sql.Dataset.org$apache$spark$sql$Dataset$$execute$1(Dataset.scala:2182)
at org.apache.spark.sql.Dataset.org$apache$spark$sql$Dataset$$collect(Dataset.scala:2189)
at org.apache.spark.sql.Dataset$$anonfun$head$1.apply(Dataset.scala:1925)
at org.apache.spark.sql.Dataset$$anonfun$head$1.apply(Dataset.scala:1924)
at org.apache.spark.sql.Dataset.withTypedCallback(Dataset.scala:2562)
at org.apache.spark.sql.Dataset.head(Dataset.scala:1924)
at org.apache.spark.sql.Dataset.take(Dataset.scala:2139)
at org.apache.spark.sql.Dataset.showString(Dataset.scala:239)
at org.apache.spark.sql.Dataset.show(Dataset.scala:526)
at org.apache.spark.sql.Dataset.show(Dataset.scala:486)
at org.apache.spark.sql.Dataset.show(Dataset.scala:495)
... 54 elided
Caused by: java.lang.IllegalArgumentException: 2016-10-07T11:15Z
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl$Parser.skip(Unknown Source)
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl$Parser.parse(Unknown Source)
at org.apache.xerces.jaxp.datatype.XMLGregorianCalendarImpl.<init>(Unknown Source)
at org.apache.xerces.jaxp.datatype.DatatypeFactoryImpl.newXMLGregorianCalendar(Unknown Source)
at javax.xml.bind.DatatypeConverterImpl._parseDateTime(DatatypeConverterImpl.java:422)
at javax.xml.bind.DatatypeConverterImpl.parseDateTime(DatatypeConverterImpl.java:417)
at javax.xml.bind.DatatypeConverter.parseDateTime(DatatypeConverter.java:327)
at org.apache.spark.sql.catalyst.util.DateTimeUtils$.stringToTime(DateTimeUtils.scala:140)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertField(JacksonParser.scala:114)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertObject(JacksonParser.scala:215)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertField(JacksonParser.scala:182)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$.convertRootField(JacksonParser.scala:73)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1$$anonfun$apply$2.apply(JacksonParser.scala:288)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1$$anonfun$apply$2.apply(JacksonParser.scala:285)
at org.apache.spark.util.Utils$.tryWithResource(Utils.scala:2366)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1.apply(JacksonParser.scala:285)
at org.apache.spark.sql.execution.datasources.json.JacksonParser$$anonfun$parseJson$1.apply(JacksonParser.scala:280)
at scala.collection.Iterator$$anon$12.nextCur(Iterator.scala:434)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:440)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$4.apply(SparkPlan.scala:246)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$4.apply(SparkPlan.scala:240)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:784)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:784)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:319)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:283)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
at org.apache.spark.scheduler.Task.run(Task.scala:85)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:274)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
at java.lang.Thread.run(Thread.java:745)

Answer 1

You can change
val schema = (new StructType)
.add("transaction_date_time", TimestampType)
TO
val schema = (new StructType)
.add("transaction_date_time", StringType)
and then use df.withColumn("columnTimeWithOutSec", unix_timestamp($"time", format))
where format = "format time with out seconds ex HH:mm "
just like this...
Also, have a look at DateTimeUtils.scala to be inline with Spark style conversions of Date and TimeStamp.

Answer 2

It looks like apache.spark.Timestamp is just a wrapper for java.sql.Timestamp. At least that's what this leads me to believe.
Accordingly, we can parse a date using SimpleDateFormat and extract the milliseconds, passing that to the Timestamp constructor.
You could do something like in this example to preprocess the data:
import java.sql.Timestamp;
import java.text.*;
import java.util.Date;
public class Test {
public static void main(String[] args) {
String timestamp = "2016-10-07T11:15Z";
DateFormat df = new SimpleDateFormat("yyyy-MM-dd'T'HH:mmXXX");
Date parsedDate = null;
try{
parsedDate = df.parse(timestamp);
}catch(Exception e){
//do nothing
}
Timestamp ts = new Timestamp(parsedDate.getTime());
System.out.println(parsedDate);
System.out.println(ts);
}
}
Which outputs
Fri Oct 07 04:15:00 PDT 2016
2016-10-07 04:15:00.0
I searched a bit for 'optional parts in a date format' and found this SO saying you should just make two SimpleDateFormats.