From 738179ee6e01ced1db7fc03ac7b4df2750353cec Mon Sep 17 00:00:00 2001
From: Piotr Gawron <piotr.gawron@uni.lu>
Date: Wed, 17 Jan 2018 15:48:44 +0100
Subject: [PATCH] pubmed parser uses new ssl api
---
.../mapviewer/annotation/services/PubmedParser.java | 10 ++++++----
1 file changed, 6 insertions(+), 4 deletions(-)
diff --git a/annotation/src/main/java/lcsb/mapviewer/annotation/services/PubmedParser.java b/annotation/src/main/java/lcsb/mapviewer/annotation/services/PubmedParser.java
index f917270d8a..0fbcd7a00e 100644
--- a/annotation/src/main/java/lcsb/mapviewer/annotation/services/PubmedParser.java
+++ b/annotation/src/main/java/lcsb/mapviewer/annotation/services/PubmedParser.java
@@ -29,7 +29,7 @@ import lcsb.mapviewer.model.map.MiriamType;
/**
* This class is a backend to publically available pubmed API in
- * <a href="http://europepmc.org/RestfulWebService">Europe PubMed Central </a>.
+ * <a href="https://europepmc.org/RestfulWebService">Europe PubMed Central </a>.
*
* @author Piotr Gawron
*
@@ -57,6 +57,8 @@ public class PubmedParser extends CachableInterface implements IExternalService
*/
static final String SUPPORTED_VERSION = "5.2.2";
+ static final String API_URL = "https://www.ebi.ac.uk/europepmc/webservices/rest/";
+
/**
* Connector used for accessing data from miriam registry.
*/
@@ -131,7 +133,7 @@ public class PubmedParser extends CachableInterface implements IExternalService
result = new Article();
try {
- String url = "http://www.ebi.ac.uk/europepmc/webservices/rest/search/resulttype=core&query="
+ String url = API_URL+"search/resulttype=core&query="
+ java.net.URLEncoder.encode("src:med ext_id:" + id, "UTF-8");
String content = getWebPageContent(url);
@@ -261,7 +263,7 @@ public class PubmedParser extends CachableInterface implements IExternalService
@Override
public ExternalServiceStatus getServiceStatus() {
- ExternalServiceStatus status = new ExternalServiceStatus("Europe PubMed Central", "http://europepmc.org/RestfulWebService");
+ ExternalServiceStatus status = new ExternalServiceStatus("Europe PubMed Central", "https://europepmc.org/RestfulWebService");
GeneralCacheInterface cacheCopy = getCache();
this.setCache(null);
@@ -292,7 +294,7 @@ public class PubmedParser extends CachableInterface implements IExternalService
*/
public String getApiVersion() throws PubmedSearchException {
try {
- String url = "http://www.ebi.ac.uk/europepmc/webservices/rest/search/resulttype=core&query=src%3Amed+ext_id%3A23644949";
+ String url = API_URL+"search/resulttype=core&query=src%3Amed+ext_id%3A23644949";
String content = getWebPageContent(url);
--
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