-
Notifications
You must be signed in to change notification settings - Fork 32
/
pom.xml
182 lines (173 loc) · 5.22 KB
/
pom.xml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
<?xml version="1.0" encoding="UTF-8"?>
<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
<modelVersion>4.0.0</modelVersion>
<groupId>edu.sdsc</groupId>
<artifactId>mmtf-spark</artifactId>
<version>0.3.0-SNAPSHOT</version>
<properties>
<jdk.version>1.8</jdk.version>
<maven.enforcer.jdk-version>1.8</maven.enforcer.jdk-version>
<maven.compiler.source>1.8</maven.compiler.source>
<maven.compiler.target>1.8</maven.compiler.target>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
<project.build.targetEncoding>UTF-8</project.build.targetEncoding>
<junit.version>4.12</junit.version>
<mmtf.version>1.0.7</mmtf.version>
<biojava.version>5.0.2</biojava.version>
<spark.version>2.4.0</spark.version>
</properties>
<reporting>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-javadoc-plugin</artifactId>
<version>2.10.4</version>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>findbugs-maven-plugin</artifactId>
<version>3.0.5</version>
</plugin>
</plugins>
</reporting>
<repositories>
<repository>
<id>sonatype-snapshots</id>
<url>https://oss.sonatype.org/content/repositories/snapshots/</url>
<releases>
<enabled>true</enabled>
</releases>
<snapshots>
<enabled>true</enabled>
</snapshots>
</repository>
</repositories>
<dependencies>
<dependency>
<groupId>junit</groupId>
<artifactId>junit</artifactId>
<version>${junit.version}</version>
</dependency>
<dependency>
<groupId>org.rcsb</groupId>
<artifactId>mmtf-codec</artifactId>
<version>${mmtf.version}</version>
</dependency>
<dependency>
<groupId>org.rcsb</groupId>
<artifactId>mmtf-api</artifactId>
<version>${mmtf.version}</version>
</dependency>
<dependency>
<groupId>org.biojava</groupId>
<artifactId>biojava-structure</artifactId>
<version>${biojava.version}</version>
</dependency>
<dependency>
<groupId>org.apache.spark</groupId>
<artifactId>spark-core_2.11</artifactId>
<version>${spark.version}</version>
<exclusions>
<exclusion>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-log4j12</artifactId>
</exclusion>
</exclusions>
<scope>provided</scope>
</dependency>
<dependency>
<groupId>org.apache.spark</groupId>
<artifactId>spark-sql_2.11</artifactId>
<version>${spark.version}</version>
<scope>provided</scope>
</dependency>
<dependency>
<groupId>org.apache.spark</groupId>
<artifactId>spark-mllib_2.11</artifactId>
<version>${spark.version}</version>
<scope>provided</scope>
</dependency>
<!-- <dependency>
<groupId>com.github.fommil.netlib</groupId>
<artifactId>all</artifactId>
<version>1.1.2</version>
<type>pom</type>
</dependency> -->
<dependency>
<groupId>com.squareup.okhttp3</groupId>
<artifactId>okhttp</artifactId>
<version>3.9.1</version>
</dependency>
<dependency>
<groupId>com.databricks</groupId>
<artifactId>spark-xml_2.11</artifactId>
<version>0.4.1</version>
</dependency>
</dependencies>
<build>
<plugins>
<plugin>
<artifactId>maven-surefire-plugin</artifactId>
<version>2.19.1</version>
<configuration>
<argLine>-Xmx4g</argLine>
<reuseForks>false</reuseForks>
<forkCount>2</forkCount>
<excludes>
<!-- we exclude by default long running tests,
they will only be executed if explicitly called -->
<exclude>**/ContainsDSaccharideChainTest.java</exclude>
<exclude>**/OrFilterTest.java</exclude>
<exclude>**/AdvancedQueryTest.java</exclude>
<exclude>**/BlastClustersTest.java</exclude>
<exclude>**/ChemicalStructureQueryTest.java</exclude>
<exclude>**/CustomReportQueryTest.java</exclude>
<exclude>**/WildTypeTest.java</exclude>
<exclude>**/CustomReportServiceTest.java</exclude>
<exclude>**/PdbjMineDatasetTest.java</exclude>
</excludes>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-javadoc-plugin</artifactId>
<version>3.0.0</version>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-eclipse-plugin</artifactId>
<version>2.10</version>
<configuration>
<downloadSources>true</downloadSources>
<downloadJavadocs>true</downloadJavadocs>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-shade-plugin</artifactId>
<version>3.1.0</version>
<executions>
<execution>
<phase>package</phase>
<goals>
<goal>shade</goal>
</goals>
</execution>
</executions>
<configuration>
<artifactSet>
<excludes>
<exclude>junit:junit</exclude>
<exclude>log4j:log4j:jar:</exclude>
<exclude>org.slf4j:</exclude>
<exclude>org.apache.logging.log4j:</exclude>
<exclude>commons-lang:</exclude>
<exclude>org.msgpack:</exclude>
</excludes>
</artifactSet>
</configuration>
</plugin>
</plugins>
</build>
</project>