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Merge pull request #525 from broadinstitute/ks_external_test_fix 

Fixed build bug in ./ant-bridge.sh unittest -Dsingle=...
This commit is contained in:
kshakir 2014-02-15 16:17:26 +08:00
parent 688792c5b0 a505db79f5
commit cb2d937a34
3 changed files with 8 additions and 7 deletions
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11
public/external-example/pom.xml
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@ -185,12 +185,14 @@
<configuration> <configuration>
<!-- See explicit executions below --> <!-- See explicit executions below -->
<skip>true</skip> <skip>true</skip>
<failIfNoTests>false</failIfNoTests>
<!-- Pass various system properties -->
<systemPropertyVariables> <systemPropertyVariables>
<!-- TODO: Fix BaseTest to not error out if this property is missing. --> <java.io.tmpdir>${java.io.tmpdir}</java.io.tmpdir>
<pipeline.run>false</pipeline.run>
</systemPropertyVariables> </systemPropertyVariables>
</configuration> </configuration>
<executions> <executions>
<!-- Disable maven default execution -->
<execution> <execution>
<id>default-test</id> <id>default-test</id>
<phase>none</phase> <phase>none</phase>
@ -218,9 +220,10 @@
<configuration> <configuration>
<!-- See explicit executions below --> <!-- See explicit executions below -->
<skip>true</skip> <skip>true</skip>
<failIfNoTests>false</failIfNoTests>
<!-- Pass various system properties -->
<systemPropertyVariables> <systemPropertyVariables>
<!-- TODO: Fix BaseTest to not error out if this property is missing. --> <java.io.tmpdir>${java.io.tmpdir}</java.io.tmpdir>
<pipeline.run>false</pipeline.run>
</systemPropertyVariables> </systemPropertyVariables>
</configuration> </configuration>
<executions> <executions>

2
public/gatk-framework/src/test/java/org/broadinstitute/sting/BaseTest.java
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@ -135,7 +135,7 @@ public abstract class BaseTest {
public final static String NA12878_PCRFREE = privateTestDir + "PCRFree.2x250.Illumina.20_10_11.bam"; public final static String NA12878_PCRFREE = privateTestDir + "PCRFree.2x250.Illumina.20_10_11.bam";
public final static String NA12878_WEx = privateTestDir + "CEUTrio.HiSeq.WEx.b37_decoy.NA12878.20_10_11mb.bam"; public final static String NA12878_WEx = privateTestDir + "CEUTrio.HiSeq.WEx.b37_decoy.NA12878.20_10_11mb.bam";
public static final boolean pipelineTestRunModeIsSet = System.getProperty("pipeline.run").equals("run"); public static final boolean pipelineTestRunModeIsSet = System.getProperty("pipeline.run", "").equals("run");
/** before the class starts up */ /** before the class starts up */
static { static {

2
public/sting-root/pom.xml
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@ -359,8 +359,6 @@
<systemPropertyVariables> <systemPropertyVariables>
<clover.pertest.coverage>diff</clover.pertest.coverage> <clover.pertest.coverage>diff</clover.pertest.coverage>
<java.awt.headless>true</java.awt.headless> <java.awt.headless>true</java.awt.headless>
<!-- TODO: Fix BaseTest to not error out if this property is missing. -->
<pipeline.run>${sting.pipelinetests.run}</pipeline.run>
<java.io.tmpdir>${java.io.tmpdir}</java.io.tmpdir> <java.io.tmpdir>${java.io.tmpdir}</java.io.tmpdir>
</systemPropertyVariables> </systemPropertyVariables>
</configuration> </configuration>