Declare api and implementation dependencies to align with code usages #57
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labkey-tchad
requested changes
Sep 17, 2020
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FastqcRunner can't find the commons-math3 jar.
java.lang.RuntimeException: Not found: /mnt/teamcity/agent/work/7ab98a03a8eb2a15/build/deploy/modules/sequenceanalysis/lib/commons-math3-3.6.1.jar
at org.labkey.sequenceanalysis.run.util.FastqcRunner.getBaseParams(FastqcRunner.java:365)
at org.labkey.sequenceanalysis.run.util.FastqcRunner.getParams(FastqcRunner.java:395)
at org.labkey.sequenceanalysis.run.util.FastqcRunner.runForFile(FastqcRunner.java:130)
at org.labkey.sequenceanalysis.run.util.FastqcRunner.execute(FastqcRunner.java:104)
at org.labkey.sequenceanalysis.SequenceAnalysisController$FastqcReportAction.getView(SequenceAnalysisController.java:315)
at org.labkey.sequenceanalysis.SequenceAnalysisController$FastqcReportAction.getView(SequenceAnalysisController.java:218)
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Updated to get at that jar from the core module (ugh). |
labkey-tchad
approved these changes
Sep 21, 2020
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Rationale
It is generally best practice to explicitly declare dependencies that are used in your code rather than relying on them to come through transitively. Though in reality the risk of these transitive dependencies disappearing is low and would be easily noticed, the declaration of proper dependencies will assure that our published
pomfiles are accurate and others will not have to separately declare some dependencies that we rely on when using our jar files.Related Pull Requests
Changes
jars.txt