Are all the tests in goby-distribution fit for testing with version 3.3.1?

[pgrt]

Hello,

I am working on packaging goby3 for Debian. I work on version 3.3.1, and when I built it, I saw that only 5 tests were running (and passing):

• org.campagnelab.goby.baseinfo.StatAccumulatorBaseQualityTest.testObserve
• org.campagnelab.goby.algorithmic.compression.TestFastArithmeticCoderOrder1.testOrder0
• org.campagnelab.goby.algorithmic.compression.TestFastArithmeticCoderOrder1.testOrder1
• org.campagnelab.goby.algorithmic.compression.TestFastArithmeticCoderOrder1.testPlus
• org.campagnelab.goby.algorithmic.algorithm.RandomAccessAnnotationsTest.testOverlap
  If I make the remaining test classes extend junit.framework.TestCase so that they are run, I get 256 failing tests.

For this reason, I would like to know if the tests that do not run are too old for goby 3.3.1 or if I should activate them... and so if they reveal issues in goby 3.3.1.

For instance

• TestIteratedSortedAlignment2.testFirstReadIndexForwardStrand fails because no factory can create the needed file ;
• TestLastToCompact.testLastToCompact1 and testLastToCompact2 fail because of ArrayIndexOutOfBounds...

Could you please tell me which tests should reasonably be run (apart the 5 ones I wrote above)? Possibly none?

Thanks for your help and best regards,

--
Pierre