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DesktopUrlProviderFactoryTest | 36 | 26 | 3 |
1 | /* | |
2 | * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) | |
3 | * Copyright (C) $$Year-Rel$$ The Jalview Authors | |
4 | * | |
5 | * This file is part of Jalview. | |
6 | * | |
7 | * Jalview is free software: you can redistribute it and/or | |
8 | * modify it under the terms of the GNU General Public License | |
9 | * as published by the Free Software Foundation, either version 3 | |
10 | * of the License, or (at your option) any later version. | |
11 | * | |
12 | * Jalview is distributed in the hope that it will be useful, but | |
13 | * WITHOUT ANY WARRANTY; without even the implied warranty | |
14 | * of MERCHANTABILITY or FITNESS FOR A PARTICULAR | |
15 | * PURPOSE. See the GNU General Public License for more details. | |
16 | * | |
17 | * You should have received a copy of the GNU General Public License | |
18 | * along with Jalview. If not, see <http://www.gnu.org/licenses/>. | |
19 | * The Jalview Authors are detailed in the 'AUTHORS' file. | |
20 | */ | |
21 | package jalview.urls; | |
22 | ||
23 | import jalview.urls.api.UrlProviderI; | |
24 | import jalview.urls.desktop.DesktopUrlProviderFactory; | |
25 | ||
26 | import java.io.BufferedWriter; | |
27 | import java.io.File; | |
28 | import java.io.FileWriter; | |
29 | import java.io.IOException; | |
30 | import java.util.List; | |
31 | ||
32 | import org.testng.Assert; | |
33 | import org.testng.annotations.BeforeMethod; | |
34 | import org.testng.annotations.Test; | |
35 | ||
36 | public class DesktopUrlProviderFactoryTest | |
37 | { | |
38 | private static final String testIdOrgString = "{\"Local\": [{\"id\":\"MIR:00000002\",\"name\":\"ChEBI\",\"pattern\":\"^CHEBI:\\d+$\"," | |
39 | + "\"definition\":\"Chemical Entities of Biological Interest (ChEBI)\",\"prefix\":\"chebi\"," | |
40 | + "\"url\":\"http://identifiers.org/chebi\"},{\"id\":\"MIR:00000005\",\"name\":\"UniProt Knowledgebase\"," | |
41 | + "\"pattern\":\"^([A-N,R-Z][0-9]([A-Z][A-Z, 0-9][A-Z, 0-9][0-9]){1,2})|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9])(\\.\\d+)?$\"," | |
42 | + "\"definition\":\"The UniProt Knowledgebase (UniProtKB)\",\"prefix\":\"uniprot\",\"url\":\"http://identifiers.org/uniprot\"}," | |
43 | + "{\"id\":\"MIR:00000011\",\"name\":\"InterPro\",\"pattern\":\"^IPR\\d{6}$\",\"definition\":\"InterPro\",\"prefix\":\"interpro\"," | |
44 | + "\"url\":\"http://identifiers.org/interpro\"}," | |
45 | + "{\"id\":\"MIR:00000372\",\"name\":\"ENA\",\"pattern\":\"^[A-Z]+[0-9]+(\\.\\d+)?$\",\"definition\":\"The European Nucleotide Archive (ENA),\"" | |
46 | + "\"prefix\":\"ena.embl\",\"url\":\"http://identifiers.org/ena.embl\"}]}"; | |
47 | ||
48 | 1 | @BeforeMethod(alwaysRun = true) |
49 | public void setup() | |
50 | { | |
51 | // make a dummy identifiers.org download file | |
52 | 1 | File temp = null; |
53 | ||
54 | 1 | try |
55 | { | |
56 | 1 | temp = File.createTempFile("tempfile", ".tmp"); |
57 | 1 | temp.deleteOnExit(); |
58 | 1 | BufferedWriter bw = new BufferedWriter(new FileWriter(temp)); |
59 | 1 | bw.write(testIdOrgString); |
60 | 1 | bw.close(); |
61 | } catch (IOException e) | |
62 | { | |
63 | 0 | System.out.println( |
64 | "Error initialising DesktopUrlProviderFactoryTest test: " | |
65 | + e.getMessage()); | |
66 | } | |
67 | ||
68 | 1 | IdOrgSettings.setDownloadLocation(temp.getPath()); |
69 | } | |
70 | ||
71 | 1 | @Test(groups = { "Functional" }) |
72 | public void testCreateUrlProvider() | |
73 | { | |
74 | 1 | String defaultUrlString = "Test1"; |
75 | 1 | String defaultUrl = "http://blah.blah/$SEQUENCE_ID$"; |
76 | 1 | String cachedUrlList = "MIR:00000005|MIR:00000011|Test1|http://blah.blah/$SEQUENCE_ID$|" |
77 | + "Test2|http://test2/$DB_ACCESSION$|Test3|http://test3/$SEQUENCE_ID$"; | |
78 | 1 | String userUrlList = "MIR:00000372|Test4|httpL//another.url/$SEQUENCE_ID$"; |
79 | ||
80 | 1 | DesktopUrlProviderFactory factory = new DesktopUrlProviderFactory( |
81 | defaultUrlString, cachedUrlList, userUrlList); | |
82 | 1 | UrlProviderI prov = factory.createUrlProvider(); |
83 | ||
84 | // default url correctly set | |
85 | 1 | Assert.assertEquals(prov.getPrimaryUrlId(), "Test1"); |
86 | 1 | Assert.assertEquals(prov.getPrimaryUrl("FER_CAPAN"), |
87 | defaultUrl.replace("$SEQUENCE_ID$", "FER_CAPAN")); | |
88 | ||
89 | 1 | List<String> menulinks = prov.getLinksForMenu(); |
90 | 1 | List<UrlLinkDisplay> allLinks = prov.getLinksForTable(); |
91 | ||
92 | // 8 links in provider - 4 from id file, 4 custom links | |
93 | 1 | Assert.assertEquals(allLinks.size(), 8); |
94 | ||
95 | // 5 links in menu (cachedUrlList) | |
96 | 1 | Assert.assertEquals(menulinks.size(), 5); |
97 | ||
98 | 1 | Assert.assertTrue( |
99 | menulinks.contains("Test1|http://blah.blah/$SEQUENCE_ID$")); | |
100 | 1 | Assert.assertTrue( |
101 | menulinks.contains("Test2|http://test2/$DB_ACCESSION$")); | |
102 | 1 | Assert.assertTrue( |
103 | menulinks.contains("Test3|http://test3/$SEQUENCE_ID$")); | |
104 | 1 | Assert.assertTrue(menulinks.contains( |
105 | "UniProt Knowledgebase|http://identifiers.org/uniprot/$DB_ACCESSION$|uniprot")); | |
106 | 1 | Assert.assertTrue(menulinks.contains( |
107 | "InterPro|http://identifiers.org/interpro/$DB_ACCESSION$|interpro")); | |
108 | } | |
109 | } |