Commit 3dbf492f authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Changes actions for BedToIntervals tests

parent 7892b57c
......@@ -10,7 +10,7 @@
<goal>org.codehaus.mojo:exec-maven-plugin:1.2.1:exec</goal>
</goals>
<properties>
<exec.args>-classpath %classpath nl.lumc.sasc.biopet.core.apps.BiopetFlagstat /data/DIV5/SASC/pjvan_thof/rig_validation/output/gcat_set_025/biopet/025/run_1/025-1.dedup.bam</exec.args>
<exec.args>-classpath %classpath nl.lumc.sasc.biopet.core.apps.BedToInterval /data/DIV5/SASC/project-062-snake/analysis/deps/custom_region.bed /data/DIV5/SASC/project-062-snake/analysis/runs/biopet/110/run_1/110-1.dedup.bam /home/pjvan_thof/pipelines/test/test.interval</exec.args>
<exec.executable>java</exec.executable>
<exec.workingdir>/home/pjvan_thof/pipelines/test</exec.workingdir>
</properties>
......@@ -25,7 +25,7 @@
<goal>org.codehaus.mojo:exec-maven-plugin:1.2.1:exec</goal>
</goals>
<properties>
<exec.args>-Xdebug -Xrunjdwp:transport=dt_socket,server=n,address=${jpda.address} -classpath %classpath nl.lumc.sasc.biopet.core.apps.BiopetFlagstat /data/DIV5/SASC/pjvan_thof/rig_validation/output/gcat_set_025/biopet/025/run_1/025-1.dedup.bam</exec.args>
<exec.args>-Xdebug -Xrunjdwp:transport=dt_socket,server=n,address=${jpda.address} -classpath %classpath nl.lumc.sasc.biopet.core.apps.BedToInterval /data/DIV5/SASC/project-062-snake/analysis/deps/custom_region.bed /data/DIV5/SASC/project-062-snake/analysis/runs/biopet/110/run_1/110-1.dedup.bam /home/pjvan_thof/pipelines/test/test.interval</exec.args>
<exec.executable>java</exec.executable>
<jpda.listen>true</jpda.listen>
<exec.workingdir>/home/pjvan_thof/pipelines/test</exec.workingdir>
......@@ -41,7 +41,7 @@
<goal>org.codehaus.mojo:exec-maven-plugin:1.2.1:exec</goal>
</goals>
<properties>
<exec.args>-classpath %classpath nl.lumc.sasc.biopet.core.apps.BiopetFlagstat /data/DIV5/SASC/pjvan_thof/rig_validation/output/gcat_set_025/biopet/025/run_1/025-1.dedup.bam</exec.args>
<exec.args>-classpath %classpath nl.lumc.sasc.biopet.core.apps.BedToInterval /data/DIV5/SASC/project-062-snake/analysis/deps/custom_region.bed /data/DIV5/SASC/project-062-snake/analysis/runs/biopet/110/run_1/110-1.dedup.bam /home/pjvan_thof/pipelines/test/test.interval</exec.args>
<exec.executable>java</exec.executable>
<exec.workingdir>/home/pjvan_thof/pipelines/test</exec.workingdir>
</properties>
......
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