[Debian-med-packaging] Bug#1108577: libgoby-java: FTBFS with default Java 25

[Vladimir Petko]

Source: libgoby-java
Version: 3.3.1+dfsg2-11
Severity: normal
Tags: ftbfs
Usertags: default-java25

Dear Maintainers,

The package libgoby-java ftbfs with default Java 25.
The relevant part of the build log:
---------------
[ERROR] Tests run: 512, Failures: 8, Errors: 0, Skipped: 46, Time elapsed: 60.705 s <<< FAILURE! - in TestSuite
[ERROR] testDiscoverSomaticVariation2 on testDiscoverSomaticVariation2(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)  Time elapsed: 0.52 s  <<< FAILURE!
java.lang.IllegalArgumentException: Could not create type
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testDiscoverSomaticVariation2(TestSomaticVariationOutputFormat.java:121)
Caused by: java.lang.IllegalArgumentException: org.easymock.mocks.VCFWriter$$$EasyMock$2 must be defined in the same package as org.easymock.internal.ClassProxyFactory
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testDiscoverSomaticVariation2(TestSomaticVariationOutputFormat.java:121)

[ERROR] testDiscoverSomaticVariation3 on testDiscoverSomaticVariation3(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)  Time elapsed: 0.122 s  <<< FAILURE!
java.lang.IllegalArgumentException: Could not create type
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testDiscoverSomaticVariation3(TestSomaticVariationOutputFormat.java:218)
Caused by: java.lang.IllegalArgumentException: org.easymock.mocks.VCFWriter$$$EasyMock$4 must be defined in the same package as org.easymock.internal.ClassProxyFactory
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testDiscoverSomaticVariation3(TestSomaticVariationOutputFormat.java:218)

[ERROR] testEstimateSomaticPValue1 on testEstimateSomaticPValue1(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)  Time elapsed: 0.11 s  <<< FAILURE!
java.lang.IllegalArgumentException: Could not create type
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.assertPWithCounts(TestSomaticVariationOutputFormat.java:84)
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testEstimateSomaticPValue1(TestSomaticVariationOutputFormat.java:35)
Caused by: java.lang.IllegalArgumentException: org.easymock.mocks.VCFWriter$$$EasyMock$6 must be defined in the same package as org.easymock.internal.ClassProxyFactory
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.assertPWithCounts(TestSomaticVariationOutputFormat.java:84)
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testEstimateSomaticPValue1(TestSomaticVariationOutputFormat.java:35)

[ERROR] testEstimateSomaticPValue2 on testEstimateSomaticPValue2(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)  Time elapsed: 0.077 s  <<< FAILURE!
java.lang.IllegalArgumentException: Could not create type
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.assertPWithCounts(TestSomaticVariationOutputFormat.java:84)
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testEstimateSomaticPValue2(TestSomaticVariationOutputFormat.java:48)
Caused by: java.lang.IllegalArgumentException: org.easymock.mocks.VCFWriter$$$EasyMock$8 must be defined in the same package as org.easymock.internal.ClassProxyFactory
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.assertPWithCounts(TestSomaticVariationOutputFormat.java:84)
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testEstimateSomaticPValue2(TestSomaticVariationOutputFormat.java:48)

[ERROR] testEstimateSomaticPValue3 on testEstimateSomaticPValue3(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)  Time elapsed: 0.067 s  <<< FAILURE!
java.lang.IllegalArgumentException: Could not create type
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.assertPWithCounts(TestSomaticVariationOutputFormat.java:84)
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testEstimateSomaticPValue3(TestSomaticVariationOutputFormat.java:61)
Caused by: java.lang.IllegalArgumentException: org.easymock.mocks.VCFWriter$$$EasyMock$10 must be defined in the same package as org.easymock.internal.ClassProxyFactory
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.assertPWithCounts(TestSomaticVariationOutputFormat.java:84)
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testEstimateSomaticPValue3(TestSomaticVariationOutputFormat.java:61)

[ERROR] testEstimateSomaticPValue4 on testEstimateSomaticPValue4(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)(org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat)  Time elapsed: 0.07 s  <<< FAILURE!
java.lang.IllegalArgumentException: Could not create type
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.assertPWithCounts(TestSomaticVariationOutputFormat.java:84)
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testEstimateSomaticPValue4(TestSomaticVariationOutputFormat.java:79)
Caused by: java.lang.IllegalArgumentException: org.easymock.mocks.VCFWriter$$$EasyMock$12 must be defined in the same package as org.easymock.internal.ClassProxyFactory
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.assertPWithCounts(TestSomaticVariationOutputFormat.java:84)
	at org.campagnelab.goby.modes.formats.TestSomaticVariationOutputFormat.testEstimateSomaticPValue4(TestSomaticVariationOutputFormat.java:79)

[ERROR] testAlignIndels on testAlignIndels(org.campagnelab.goby.modes.formats.TestCompareGroupsVCFOutputFormat)(org.campagnelab.goby.modes.formats.TestCompareGroupsVCFOutputFormat)  Time elapsed: 0.048 s  <<< FAILURE!
java.lang.IllegalArgumentException: Could not create type
	at org.campagnelab.goby.modes.formats.TestCompareGroupsVCFOutputFormat.setUp(TestCompareGroupsVCFOutputFormat.java:80)
Caused by: java.lang.IllegalArgumentException: org.easymock.mocks.DiscoverVariantIterateSortedAlignments$$$EasyMock$14 must be defined in the same package as org.easymock.internal.ClassProxyFactory
	at org.campagnelab.goby.modes.formats.TestCompareGroupsVCFOutputFormat.setUp(TestCompareGroupsVCFOutputFormat.java:80)

[ERROR] testIndelDifferences on testIndelDifferences(org.campagnelab.goby.modes.formats.TestCompareGroupsVCFOutputFormat)(org.campagnelab.goby.modes.formats.TestCompareGroupsVCFOutputFormat)  Time elapsed: 0.041 s  <<< FAILURE!
java.lang.IllegalArgumentException: Could not create type
	at org.campagnelab.goby.modes.formats.TestCompareGroupsVCFOutputFormat.setUp(TestCompareGroupsVCFOutputFormat.java:80)
Caused by: java.lang.IllegalArgumentException: org.easymock.mocks.DiscoverVariantIterateSortedAlignments$$$EasyMock$16 must be defined in the same package as org.easymock.internal.ClassProxyFactory
	at org.campagnelab.goby.modes.formats.TestCompareGroupsVCFOutputFormat.setUp(TestCompareGroupsVCFOutputFormat.java:80)

[INFO]
[INFO] Results:
[INFO]
[ERROR] Failures:
[ERROR]   TestCompareGroupsVCFOutputFormat.setUp:80 » IllegalArgument Could not create t...
[ERROR]   TestCompareGroupsVCFOutputFormat.setUp:80 » IllegalArgument Could not create t...
[ERROR]   TestSomaticVariationOutputFormat.testDiscoverSomaticVariation2:121 » IllegalArgument
[ERROR]   TestSomaticVariationOutputFormat.testDiscoverSomaticVariation3:218 » IllegalArgument
[ERROR]   TestSomaticVariationOutputFormat.testEstimateSomaticPValue1:35->assertPWithCounts:84 » IllegalArgument
[ERROR]   TestSomaticVariationOutputFormat.testEstimateSomaticPValue2:48->assertPWithCounts:84 » IllegalArgument
[ERROR]   TestSomaticVariationOutputFormat.testEstimateSomaticPValue3:61->assertPWithCounts:84 » IllegalArgument
[ERROR]   TestSomaticVariationOutputFormat.testEstimateSomaticPValue4:79->assertPWithCounts:84 » IllegalArgument
[INFO]
[ERROR] Tests run: 512, Failures: 8, Errors: 0, Skipped: 46
[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary for Goby Framework 3.3.1:
[INFO]
[INFO] Goby Framework ..................................... SUCCESS [  0.056 s]
[INFO] Goby I/O ........................................... SUCCESS [  7.537 s]
[INFO] Goby Full Distribution ............................. FAILURE [01:36 min]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE

--------------------------------------------------------------------------------
---------------


-- System Information:
Debian Release: trixie/sid
  APT prefers plucky-updates
  APT policy: (500, 'plucky-updates'), (500, 'plucky-security'), (500, 'plucky')
Architecture: amd64 (x86_64)
Foreign Architectures: i386

Kernel: Linux 6.14.0-22-generic (SMP w/32 CPU threads; PREEMPT)
Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_OOT_MODULE
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8), LANGUAGE=en
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled