Changed read of xml as text file and solved some issues with timeouts (058b1163) · Commits · SAREF / saref-pipeline

src/main/java/fr/emse/gitlab/saref/checkers/Clause_9_4_5_Checker.java

+104 −50

Original line number	Diff line number	Diff line
		@@ -26,14 +26,15 @@
		package fr.emse.gitlab.saref.checkers;

		import java.io.ByteArrayOutputStream;
		import java.io.File;
		import java.io.FileWriter;
		import java.io.IOException;
		import java.net.SocketTimeoutException;
		import java.util.ArrayList;
		import java.util.List;
		import java.util.Set;
		import java.util.concurrent.TimeUnit;
		import java.util.concurrent.TimeoutException;
		import java.util.stream.Collectors;

		import fr.emse.gitlab.saref.managers.ThemisManager;
		import org.apache.jena.rdf.model.Model;
		import org.semanticweb.owl.explanation.api.Explanation;
		import org.semanticweb.owl.explanation.api.ExplanationGenerator;
		@@ -48,13 +49,16 @@ import org.semanticweb.owlapi.profiles.violations.UseOfUnknownDatatype;

		import fr.emse.gitlab.saref.SAREFPipelineException;
		import fr.emse.gitlab.saref.managers.OntologyManager;
		import fr.emse.gitlab.saref.managers.OopsManager;
		import fr.emse.gitlab.saref.managers.RepositoryManager;
		import okhttp3.MediaType;
		import okhttp3.OkHttpClient;
		import okhttp3.Request;
		import okhttp3.RequestBody;
		import okhttp3.Response;
		import org.semanticweb.owlapi.reasoner.TimeOutException;
		import org.w3c.dom.Document;
		import org.w3c.dom.Element;
		import org.w3c.dom.NodeList;

		/**
		* Checks TS 103 673 Clause 9.4.5: OWL Profile, Consistency, and Satisfiability
		@@ -139,6 +143,7 @@ public class Clause_9_4_5_Checker extends AbstractClauseChecker {
		+ "<OutputFormat>RDF/XML</OutputFormat>" + "</OOPSRequest>";



		Object[] arrayData = new Object[0];

		try {
		@@ -152,45 +157,94 @@ public class Clause_9_4_5_Checker extends AbstractClauseChecker {
		Request request = new Request.Builder().url("http://oops.linkeddata.es/rest").method("POST", body)
		.addHeader("Content-Type", "application/xml").build();

		Response response = httpClient.newCall(request).execute();
		if (response.code() != 200) {
		throw new SAREFPipelineException("response", "Unexpected response code " + response.code());
		}
		Response response;

		String result = response.body().string();
		try{
		response = httpClient.newCall(request).execute();
		}
		catch (SocketTimeoutException e){

		String[] results = result.split("\\n");
		httpClient = new OkHttpClient().newBuilder().readTimeout(10, TimeUnit.SECONDS).build();

		List<String> pureData = new ArrayList<String>();
		for (int i = 0; i < results.length; i++) {
		pureData.add(results[i]);
		try{
		response = httpClient.newCall(request).execute();
		}
		catch (SocketTimeoutException f){
		httpClient = new OkHttpClient().newBuilder().readTimeout(20, TimeUnit.SECONDS).build();
		response = httpClient.newCall(request).execute();
		}
		}

		arrayData = pureData.toArray(); // response into array

		} catch (IOException \| SAREFPipelineException e) {
		logWarning(getMessage(MESSAGE.oopsError), e);
		if (response.code() != 200) {
		throw new SAREFPipelineException("response", "Unexpected response code " + response.code());
		}

		int count = OopsManager.counter(arrayData);
		String result = response.body().string();

		ArrayList<ArrayList<String>> result = OopsManager.getData(arrayData);
		Document doc = ThemisManager.convertStringToXMLDocument(result);

		NodeList nodeList = doc.getElementsByTagName("rdf:Description");

		ArrayList<String> oopsErrors = new ArrayList<String>();
		for (int temp = 0; temp < nodeList.getLength(); temp++){
		org.w3c.dom.Node node = nodeList.item(temp);
		if (node.getNodeType() == org.w3c.dom.Node.ELEMENT_NODE) {
		Element element = (Element) node;
		if (((Element) node).getElementsByTagName("oops:hasCode").item(0) != null) {
		if (((Element) node).getElementsByTagName("oops:hasName").item(0) != null) {
		String code = element.getElementsByTagName("oops:hasCode").item(0).getTextContent();
		String name = element.getElementsByTagName("oops:hasName").item(0).getTextContent();
		String description = element.getElementsByTagName("oops:hasDescription").item(0).getTextContent();
		String affected = "";
		NodeList affectedElements = element.getElementsByTagName("oops:hasAffectedElement");
		if (affectedElements != null) {
		for (int k = 0; k < affectedElements.getLength(); k++) {
		if (k == 0) {
		affected += "\"" + affectedElements.item(k).getTextContent() + "\"";
		} else {
		affected += " ; \"" + affectedElements.item(k).getTextContent() + "\"";
		}
		}
		}

		int s = 0;

		String oopsError = String.format("Code: %s, Name: %s, Description: %s, Affected Elements: %s", code, name, description, affected);
		oopsErrors.add(oopsError);
		}
		else{
		String code = element.getElementsByTagName("oops:hasCode").item(0).getTextContent();
		String description = element.getElementsByTagName("oops:hasDescription").item(0).getTextContent();
		String affected = "";
		NodeList affectedElements = element.getElementsByTagName("oops:hasAffectedElement");
		if (affectedElements != null) {
		for (int k = 0; k < affectedElements.getLength(); k++) {
		if (k == 0) {
		affected += "\"" + affectedElements.item(k).getTextContent() + "\"";
		} else {
		affected += " ; \"" + affectedElements.item(k).getTextContent() + "\"";
		}
		}
		}

		ArrayList<String> results = new ArrayList<String>();

		while (s < count) {
		String data = result.get(0).get(s).concat("-") + result.get(1).get(s).concat(".") + result.get(2).get(s) + "Affected Elements: " + result.get(3).get(s);
		results.add(data);
		s++;
		String oopsError = String.format("Code: %s, Description: %s, Affected Elements: %s", code, description, affected);
		oopsErrors.add(oopsError);
		}
		}

		String printData = results.stream().map(e -> e.toString())
		}
		}
		if (!oopsErrors.isEmpty()) {
		String data = oopsErrors.stream().map(e -> e.toString())
		.collect(Collectors.joining("\n- ", "\n\n- ", "\n\n"));
		if (count != 0) {
		logWarning(getMessage(MESSAGE.oops, printData));
		logWarning(getMessage(MESSAGE.oops, data));

		}


		} catch (IOException \| SAREFPipelineException e) {
		logWarning(getMessage(MESSAGE.oopsError), e);
		}
		}

src/main/java/fr/emse/gitlab/saref/managers/OopsManager.java

deleted100644 → 0

+0 −103

Original line number	Diff line number	Diff line
		/*
		* Copyright 2020 ETSI
		*
		* Redistribution and use in source and binary forms, with or without
		* modification, are permitted provided that the following conditions are met:
		* 1. Redistributions of source code must retain the above copyright notice,
		* this list of conditions and the following disclaimer.
		* 2. Redistributions in binary form must reproduce the above copyright notice,
		* this list of conditions and the following disclaimer in the documentation
		* and/or other materials provided with the distribution.
		* 3. Neither the name of the copyright holder nor the names of its contributors
		* may be used to endorse or promote products derived from this software without
		* specific prior written permission.
		*
		* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
		* ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
		* WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED.
		* IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT,
		* INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING,
		* BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
		* DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
		* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE
		* OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED
		* OF THE POSSIBILITY OF SUCH DAMAGE.
		*/
		package fr.emse.gitlab.saref.managers;

		import java.util.ArrayList;

		public class OopsManager {

		public static ArrayList<ArrayList<String>> getData(Object[] data) {
		ArrayList<String> getID = new ArrayList<String>();
		ArrayList<String> getName = new ArrayList<String>();
		ArrayList<String> getInfo = new ArrayList<String>();
		ArrayList<String> affectedElements = new ArrayList<String>();

		ArrayList<ArrayList<String>> elements = new ArrayList<ArrayList<String>>();
		elements.add(getID);
		elements.add(getName);
		elements.add(getInfo);
		elements.add(affectedElements);

		String affected = "";

		for (int i = 0; i < data.length; i++) {
		String data2 = data[i].toString().replaceAll(" ", "");


		if (data2.startsWith("<oops:hasCode")) {
		String[] data3 = data2.split("(<\|>)");
		getID.add(data3[2]);
		elements.set(0, getID);
		} else if (data2.startsWith("<oops:hasName")) {
		String[] data3 = data2.split("(<\|>)");
		getName.add(data3[2]);
		elements.set(1, getName);
		} else if (data2.startsWith("<oops:hasDescription")) {
		String[] data3 = data2.split("(<\|>)");
		getInfo.add(data3[2]);
		elements.set(2, getInfo);
		}
		if (i>0 && i < data.length-1) {
		String prove = data[i - 1].toString().replaceAll(" ", "");
		String prove2 = data[i + 1].toString().replaceAll(" ", "");

		if (data2.startsWith("<oops:hasAffectedElement")) {
		if (!prove.startsWith("<oops:hasAffectedElement")) {
		String[] data3 = data2.split("(<\|>)");
		affected += data3[2];
		}
		else if (!prove2.startsWith("<oops:hasAffectedElement")){
		String[] data3 = data2.split("(<\|>)");
		affected += ", " + data3[2];
		affectedElements.add(affected);
		elements.set(3, affectedElements);
		affected = "";
		}
		else{
		String[] data3 = data2.split("(<\|>)");
		affected += ", " + data3[2];
		}
		}

		}

		}

		return elements;
		}

		public static int counter(Object[] data) {
		int counter = 0;
		for (int i = 0; i < data.length; i++) {
		String data2 = data[i].toString().replaceAll(" ", "");
		if (data2.startsWith("<oops:hasCode")) {
		counter++;
		}
		}
		return counter;
		}

		}

src/main/java/fr/emse/gitlab/saref/checkers/Clause_9_5_Checker.java

+20 −20

File changed.

Contains only whitespace changes.