forked from D-Net/dnet-hadoop
removed unused components
This commit is contained in:
parent
4797cc460b
commit
0029b3de33
|
|
@ -82,7 +82,7 @@ public class ScrapingJob {
|
|||
String nquads;
|
||||
try {
|
||||
String site = u.text();
|
||||
logger.info(site + " > parsing");
|
||||
logger.debug(site + " > parsing");
|
||||
nquads = scraper.scrapeUrl(site, scrapingType);
|
||||
final Text value = new Text(nquads);
|
||||
writer.append(key, value);
|
||||
|
|
|
|||
|
|
@ -1,114 +0,0 @@
|
|||
|
||||
package eu.dnetlib.dhp.bmuse.bioschema;
|
||||
|
||||
import static eu.dnetlib.dhp.bmuse.utils.SparkSessionSupport.runWithSparkSession;
|
||||
|
||||
import java.util.Objects;
|
||||
import java.util.Optional;
|
||||
import java.util.function.Function;
|
||||
import java.util.stream.Stream;
|
||||
|
||||
import org.apache.commons.io.IOUtils;
|
||||
import org.apache.hadoop.fs.Path;
|
||||
import org.apache.hadoop.io.SequenceFile;
|
||||
import org.apache.hadoop.io.Text;
|
||||
import org.apache.hadoop.io.compress.GzipCodec;
|
||||
import org.apache.spark.SparkConf;
|
||||
import org.apache.spark.api.java.JavaSparkContext;
|
||||
import org.apache.spark.sql.SparkSession;
|
||||
import org.apache.spark.util.LongAccumulator;
|
||||
import org.jsoup.nodes.Element;
|
||||
import org.jsoup.select.Elements;
|
||||
import org.slf4j.Logger;
|
||||
import org.slf4j.LoggerFactory;
|
||||
|
||||
import eu.dnetlib.dhp.bmuse.utils.ArgumentApplicationParser;
|
||||
import eu.dnetlib.dhp.bmuse.utils.BMUSEScraper;
|
||||
import eu.dnetlib.dhp.bmuse.utils.FunctionalInterfaceSupport;
|
||||
import eu.dnetlib.dhp.bmuse.utils.UrlParser;
|
||||
|
||||
public class SparkScraper {
|
||||
|
||||
static Logger logger = LoggerFactory.getLogger(SparkScraper.class);
|
||||
|
||||
public static void main(String[] args) throws Exception {
|
||||
|
||||
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||
IOUtils
|
||||
.toString(
|
||||
SparkScraper.class
|
||||
.getResourceAsStream(
|
||||
"/eu/dnetlib/dhp/bmuse/bioschema/generate_dataset.json")));
|
||||
parser.parseArgument(args);
|
||||
Boolean isSparkSessionManaged = Optional
|
||||
.ofNullable(parser.get("isSparkSessionManaged"))
|
||||
.map(Boolean::valueOf)
|
||||
.orElse(Boolean.TRUE);
|
||||
|
||||
final String nameNode = parser.get("nameNode");
|
||||
final String workingPath = parser.get("workingPath");
|
||||
final String rdfOutput = parser.get("rdfOutput");
|
||||
final String sitemapUrl = parser.get("sitemapUrl");
|
||||
final String sitemapURLKey = parser.get("sitemapURLKey");
|
||||
final String dynamic = parser.get("dynamic");
|
||||
final String maxScrapedPages = parser.get("maxScrapedPages");
|
||||
Boolean dynamicValue = true;
|
||||
if (Objects.nonNull(dynamic)) {
|
||||
dynamicValue = Boolean.parseBoolean(dynamic);
|
||||
}
|
||||
final boolean scrapingType = dynamicValue.booleanValue();
|
||||
|
||||
SparkConf conf = new SparkConf();
|
||||
runWithSparkSession(
|
||||
conf,
|
||||
isSparkSessionManaged,
|
||||
spark -> {
|
||||
final LongAccumulator scraped = spark.sparkContext().longAccumulator("scraped");
|
||||
final LongAccumulator errors = spark.sparkContext().longAccumulator("errors");
|
||||
|
||||
JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
||||
|
||||
System.setProperty("webdriver.chrome.whitelistedIps", "");
|
||||
|
||||
BMUSEScraper scraper = new BMUSEScraper();
|
||||
String url = sitemapUrl.toLowerCase();
|
||||
Elements urls = UrlParser.getSitemapList(url, sitemapURLKey);
|
||||
long total = urls.size();
|
||||
|
||||
Path output = new Path(
|
||||
nameNode
|
||||
.concat(workingPath)
|
||||
.concat(rdfOutput));
|
||||
try (SequenceFile.Writer writer = SequenceFile
|
||||
.createWriter(
|
||||
sc.hadoopConfiguration(),
|
||||
SequenceFile.Writer.file(output),
|
||||
SequenceFile.Writer.keyClass(Text.class),
|
||||
SequenceFile.Writer.valueClass(Text.class),
|
||||
SequenceFile.Writer.compression(SequenceFile.CompressionType.BLOCK, new GzipCodec()))) {
|
||||
Stream<Element> urlStream = null;
|
||||
if (Objects.nonNull(maxScrapedPages)) {
|
||||
urlStream = urls.stream().limit(Long.parseLong(maxScrapedPages));
|
||||
} else {
|
||||
urlStream = urls.stream();
|
||||
}
|
||||
urlStream.forEach(u -> {
|
||||
try {
|
||||
final Text key = new Text(u.text());
|
||||
final Text value = new Text(scraper.scrapeUrl(u.text(), scrapingType));
|
||||
writer.append(key, value);
|
||||
scraped.add(1l);
|
||||
} catch (Exception e) {
|
||||
logger.error(u.text(), e);
|
||||
errors.add(1l);
|
||||
}
|
||||
});
|
||||
}
|
||||
|
||||
logger
|
||||
.info(
|
||||
"Total pages to scrape: " + total + " Scraped: " + scraped.value() +
|
||||
" Errors: " + errors.value());
|
||||
});
|
||||
}
|
||||
}
|
||||
|
|
@ -1,65 +0,0 @@
|
|||
|
||||
package eu.dnetlib.dhp.bmuse.utils;
|
||||
|
||||
import java.io.Serializable;
|
||||
import java.util.function.Consumer;
|
||||
import java.util.function.Supplier;
|
||||
|
||||
/** Provides serializable and throwing extensions to standard functional interfaces. */
|
||||
public class FunctionalInterfaceSupport {
|
||||
|
||||
private FunctionalInterfaceSupport() {
|
||||
}
|
||||
|
||||
/**
|
||||
* Serializable consumer of any kind of objects. To be used withing spark processing pipelines when supplying
|
||||
* functions externally.
|
||||
*
|
||||
* @param <T>
|
||||
*/
|
||||
@FunctionalInterface
|
||||
public interface SerializableConsumer<T> extends Consumer<T>, Serializable {
|
||||
}
|
||||
|
||||
/**
|
||||
* Serializable supplier of any kind of objects. To be used withing spark processing pipelines when supplying
|
||||
* functions externally.
|
||||
*
|
||||
* @param <T>
|
||||
*/
|
||||
@FunctionalInterface
|
||||
public interface SerializableSupplier<T> extends Supplier<T>, Serializable {
|
||||
}
|
||||
|
||||
/**
|
||||
* Extension of consumer accepting functions throwing an exception.
|
||||
*
|
||||
* @param <T>
|
||||
* @param <E>
|
||||
*/
|
||||
@FunctionalInterface
|
||||
public interface ThrowingConsumer<T, E extends Exception> {
|
||||
void accept(T t) throws E;
|
||||
}
|
||||
|
||||
/**
|
||||
* Extension of supplier accepting functions throwing an exception.
|
||||
*
|
||||
* @param <T>
|
||||
* @param <E>
|
||||
*/
|
||||
@FunctionalInterface
|
||||
public interface ThrowingSupplier<T, E extends Exception> {
|
||||
T get() throws E;
|
||||
}
|
||||
|
||||
/**
|
||||
* Extension of runnable accepting functions throwing an exception.
|
||||
*
|
||||
* @param <E>
|
||||
*/
|
||||
@FunctionalInterface
|
||||
public interface ThrowingRunnable<E extends Exception> {
|
||||
void run() throws E;
|
||||
}
|
||||
}
|
||||
|
|
@ -1,75 +0,0 @@
|
|||
|
||||
package eu.dnetlib.dhp.bmuse.utils;
|
||||
|
||||
import java.util.Objects;
|
||||
import java.util.function.Function;
|
||||
|
||||
import org.apache.spark.SparkConf;
|
||||
import org.apache.spark.sql.SparkSession;
|
||||
|
||||
/** SparkSession utility methods. */
|
||||
public class SparkSessionSupport {
|
||||
|
||||
private SparkSessionSupport() {
|
||||
}
|
||||
|
||||
/**
|
||||
* Runs a given function using SparkSession created using default builder and supplied SparkConf. Stops SparkSession
|
||||
* when SparkSession is managed. Allows to reuse SparkSession created externally.
|
||||
*
|
||||
* @param conf SparkConf instance
|
||||
* @param isSparkSessionManaged When true will stop SparkSession
|
||||
* @param fn Consumer to be applied to constructed SparkSession
|
||||
*/
|
||||
public static void runWithSparkSession(
|
||||
SparkConf conf, Boolean isSparkSessionManaged,
|
||||
FunctionalInterfaceSupport.ThrowingConsumer<SparkSession, Exception> fn) {
|
||||
runWithSparkSession(
|
||||
c -> SparkSession.builder().config(c).getOrCreate(), conf, isSparkSessionManaged, fn);
|
||||
}
|
||||
|
||||
/**
|
||||
* Runs a given function using SparkSession created with hive support and using default builder and supplied
|
||||
* SparkConf. Stops SparkSession when SparkSession is managed. Allows to reuse SparkSession created externally.
|
||||
*
|
||||
* @param conf SparkConf instance
|
||||
* @param isSparkSessionManaged When true will stop SparkSession
|
||||
* @param fn Consumer to be applied to constructed SparkSession
|
||||
*/
|
||||
public static void runWithSparkHiveSession(
|
||||
SparkConf conf, Boolean isSparkSessionManaged,
|
||||
FunctionalInterfaceSupport.ThrowingConsumer<SparkSession, Exception> fn) {
|
||||
runWithSparkSession(
|
||||
c -> SparkSession.builder().config(c).enableHiveSupport().getOrCreate(),
|
||||
conf,
|
||||
isSparkSessionManaged,
|
||||
fn);
|
||||
}
|
||||
|
||||
/**
|
||||
* Runs a given function using SparkSession created using supplied builder and supplied SparkConf. Stops
|
||||
* SparkSession when SparkSession is managed. Allows to reuse SparkSession created externally.
|
||||
*
|
||||
* @param sparkSessionBuilder Builder of SparkSession
|
||||
* @param conf SparkConf instance
|
||||
* @param isSparkSessionManaged When true will stop SparkSession
|
||||
* @param fn Consumer to be applied to constructed SparkSession
|
||||
*/
|
||||
public static void runWithSparkSession(
|
||||
Function<SparkConf, SparkSession> sparkSessionBuilder,
|
||||
SparkConf conf,
|
||||
Boolean isSparkSessionManaged,
|
||||
FunctionalInterfaceSupport.ThrowingConsumer<SparkSession, Exception> fn) {
|
||||
SparkSession spark = null;
|
||||
try {
|
||||
spark = sparkSessionBuilder.apply(conf);
|
||||
fn.accept(spark);
|
||||
} catch (Exception e) {
|
||||
throw new RuntimeException(e);
|
||||
} finally {
|
||||
if (Objects.nonNull(spark) && isSparkSessionManaged) {
|
||||
spark.stop();
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
Loading…
Reference in New Issue