[IGBF-3422] Investigate Test Failure that is occurring in QuickloadUtilsTest class. - JIRA UNCC

Kaushik Gopu created issue - 28/Aug/23 2:33 PM

Kaushik Gopu made changes - 28/Aug/23 2:34 PM

Field	Original Value	New Value
Description	* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest class. * The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails */C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color}/Users/lorainelab/Desktop/2805/relative%20space/E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz	* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest class. * The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails */C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color}{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

Kaushik Gopu made changes - 28/Aug/23 2:34 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails
*/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color}{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails
*/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color}{color:red}{color:#14892c}/Users/lorainelab/Desktop/2805/relative%20space/{color}{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

Kaushik Gopu made changes - 28/Aug/23 2:35 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails
*/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color}{color:red}{color:#14892c}/Users/lorainelab/Desktop/2805/relative%20space/{color}{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails
*/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

Kaushik Gopu made changes - 28/Aug/23 2:35 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails
*/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails
/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

Kaushik Gopu made changes - 28/Aug/23 2:35 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails
/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{code:java}
/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz
{code}

Kaushik Gopu made changes - 28/Aug/23 2:36 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{code:java}
/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz
{code}

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

||Heading 1||Heading 2||
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz
|Col A2|

Kaushik Gopu made changes - 28/Aug/23 2:36 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

||Heading 1||Heading 2||
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz
|Col A2|

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{panel:title=My title}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

{panel}

Kaushik Gopu made changes - 28/Aug/23 2:36 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{panel:title=My title}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

{panel}

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{panel:title=Duplicate Path}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

{panel}

Kaushik Gopu made changes - 28/Aug/23 2:37 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{panel:title=Duplicate Path}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

{panel}

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{panel:title=Actual Path}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

{panel}

Kaushik Gopu made changes - 28/Aug/23 2:38 PM

Assignee

Ann Loraine [ aloraine ]

Kaushik Gopu [ kgopu ]

Kaushik Gopu made changes - 28/Aug/23 2:39 PM

Epic Link

~~IGBF-3411~~ [ 22434 ]

Kaushik Gopu made changes - 28/Aug/23 2:39 PM

Sprint

Summer 8 2023 Aug 21 [ 177 ]

Kaushik Gopu made changes - 28/Aug/23 3:36 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{panel:title=Actual Path}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.gz

{panel}

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{code:java}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.g
{code}
z

Kaushik Gopu made changes - 28/Aug/23 3:36 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{code:java}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.g
{code}
z

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{noformat}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.g

{noformat}

Kaushik Gopu made changes - 28/Aug/23 3:37 PM

Description

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{noformat}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.g

{noformat}

* when running IGB without skipping tests, one of the test case is failing in QuickloadUtilsTest
class.
* The absolute file path is appeared twice (see below) in the path, and therefore it is not matching with the expected value. Hence, the test case fails

{panel:title=Path}
|/C:{color:red}/Users/lorainelab/Desktop/2805/re{color:red}lative%20space/{color}A_thaliana_Apr_2008{color:red}/Users/lorainelab/Desktop/2805/relative%20space/{color}E_unicornis_Jul_2043/down%20stream/E_unicornis_Jul_2043_down.bed.g
{panel}

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Kaushik Gopu added a comment - 28/Aug/23 5:23 PM - edited

After reviewing the code of QuickloadUtilsTest, I found the below issue:

getURI() method takes three parameters filename, genome version, URI, and constructs absolute path by concatenating these parameters.
In the test function, Instead of passing the filename, the entire path is being passed. For this reason, a part of the path is appearing twice in resultant path which leads to failure of the test case.

Show

Kaushik Gopu added a comment - 28/Aug/23 5:23 PM - edited After reviewing the code of QuickloadUtilsTest, I found the below issue: getURI() method takes three parameters filename, genome version, URI, and constructs absolute path by concatenating these parameters. In the test function, Instead of passing the filename, the entire path is being passed. For this reason, a part of the path is appearing twice in resultant path which leads to failure of the test case.

Kaushik Gopu made changes - 29/Aug/23 10:01 AM

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To-Do [ 10305 ]

In Progress [ 3 ]

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Kaushik Gopu added a comment - 29/Aug/23 3:41 PM

fixed the issue, and now IGB should able to run without failing any test cases.
tested in windows, and no test case failures are encountered while compiling.
moving to first level review for testing.
branch to be pulled for testing.

Show

Kaushik Gopu added a comment - 29/Aug/23 3:41 PM fixed the issue, and now IGB should able to run without failing any test cases. tested in windows, and no test case failures are encountered while compiling. moving to first level review for testing. branch to be pulled for testing.

Kaushik Gopu made changes - 29/Aug/23 3:41 PM

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In Progress [ 3 ]

Needs 1st Level Review [ 10005 ]

Nowlan Freese made changes - 30/Aug/23 4:56 PM

Status

Needs 1st Level Review [ 10005 ]

First Level Review in Progress [ 10301 ]

Nowlan Freese made changes - 30/Aug/23 4:56 PM

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Kaushik Gopu [ kgopu ]

Nowlan Freese [ nfreese ]

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Nowlan Freese added a comment - 31/Aug/23 10:41 AM

Tested on Mac using Netbeans debugger. All tests passed correctly.

Ready for pull request to main-JDK8

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Nowlan Freese added a comment - 31/Aug/23 10:41 AM Tested on Mac using Netbeans debugger. All tests passed correctly. Ready for pull request to main-JDK8

Nowlan Freese made changes - 31/Aug/23 10:41 AM

Assignee

Nowlan Freese [ nfreese ]

Kaushik Gopu [ kgopu ]

Nowlan Freese made changes - 31/Aug/23 10:41 AM

Status

First Level Review in Progress [ 10301 ]

Ready for Pull Request [ 10304 ]

Nowlan Freese made changes - 31/Aug/23 10:42 AM

Epic Link

~~IGBF-3411~~ [ 22434 ]

IGBF-1531 [ 17617 ]

Nowlan Freese made changes - 31/Aug/23 10:42 AM

Link

This issue relates to ~~IGBF-3379~~ [ ~~IGBF-3379~~ ]

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Kaushik Gopu added a comment - 31/Aug/23 12:22 PM

pull request submitted to main-JDK8.

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Kaushik Gopu added a comment - 31/Aug/23 12:22 PM pull request submitted to main-JDK8.

Kaushik Gopu made changes - 31/Aug/23 12:22 PM

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Ready for Pull Request [ 10304 ]

Pull Request Submitted [ 10101 ]

Nowlan Freese made changes - 31/Aug/23 12:24 PM

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Kaushik Gopu [ kgopu ]

Ann Loraine [ aloraine ]

Ann Loraine made changes - 01/Sep/23 10:44 AM

Status

Pull Request Submitted [ 10101 ]

Reviewing Pull Request [ 10303 ]

Ann Loraine made changes - 01/Sep/23 10:44 AM

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Reviewing Pull Request [ 10303 ]

Merged Needs Testing [ 10002 ]

Ann Loraine made changes - 01/Sep/23 10:45 AM

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Ann Loraine [ aloraine ]

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Ann Loraine added a comment - 01/Sep/23 10:45 AM - edited

To test:

Obtain the code and make sure it can build on a Windows machine.

attn: Karthik Raveendran - please test by running the test cases and checking for errors.

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Ann Loraine added a comment - 01/Sep/23 10:45 AM - edited To test: Obtain the code and make sure it can build on a Windows machine. attn: Karthik Raveendran - please test by running the test cases and checking for errors.

Karthik Raveendran made changes - 01/Sep/23 10:51 AM

Assignee

Karthik Raveendran [ karthik ]

Karthik Raveendran made changes - 01/Sep/23 1:43 PM

Status

Merged Needs Testing [ 10002 ]

Post-merge Testing In Progress [ 10003 ]

Karthik Raveendran made changes - 01/Sep/23 1:43 PM

Assignee

Karthik Raveendran [ karthik ]

Kaushik Gopu [ kgopu ]

Karthik Raveendran made changes - 01/Sep/23 1:44 PM

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Kaushik Gopu [ kgopu ]

Karthik Raveendran [ karthik ]

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Karthik Raveendran added a comment - 01/Sep/23 1:52 PM

QuickloadUtilsTest runs without errors.

Note: Another test class in the same module, QuickloadDataProviderTest, is failing 3/5 tests: testassemblyinfo, validateQuickload, validateSupportedGenomeVersions.

java.lang.NullPointerException
	at org.lorainelab.igb.quickload.util.QuickloadUtils.getContextRootKey(QuickloadUtils.java:199)
	at org.lorainelab.igb.quickload.QuickloadDataProvider.getAssemblyInfo(QuickloadDataProvider.java:217)
	at org.lorainelab.igb.quickload.utils.QuickloadDataProviderTest.testAssemblyInfo(QuickloadDataProviderTest.java:64)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.junit.runners.model.FrameworkMethod$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.InvokeMethod.evaluate(InvokeMethod.java:17)
	at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306)
	at org.junit.runners.BlockJUnit4ClassRunner$1.evaluate(BlockJUnit4ClassRunner.java:100)
	at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:366)
	at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:103)
	at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:63)
	at org.junit.runners.ParentRunner$4.run(ParentRunner.java:331)
	at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:79)
	at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:329)
	at org.junit.runners.ParentRunner.access$100(ParentRunner.java:66)
	at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:293)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:26)
	at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306)
	at org.junit.runners.ParentRunner.run(ParentRunner.java:413)
	at org.junit.runner.JUnitCore.run(JUnitCore.java:137)
	at com.intellij.junit4.JUnit4IdeaTestRunner.startRunnerWithArgs(JUnit4IdeaTestRunner.java:69)
	at com.intellij.rt.junit.IdeaTestRunner$Repeater$1.execute(IdeaTestRunner.java:38)
	at com.intellij.rt.execution.junit.TestsRepeater.repeat(TestsRepeater.java:11)
	at com.intellij.rt.junit.IdeaTestRunner$Repeater.startRunnerWithArgs(IdeaTestRunner.java:35)
	at com.intellij.rt.junit.JUnitStarter.prepareStreamsAndStart(JUnitStarter.java:235)
	at com.intellij.rt.junit.JUnitStarter.main(JUnitStarter.java:54)


java.lang.NullPointerException
	at org.lorainelab.igb.quickload.utils.QuickloadDataProviderTest.validateQuickload(QuickloadDataProviderTest.java:82)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.junit.runners.model.FrameworkMethod$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.InvokeMethod.evaluate(InvokeMethod.java:17)
	at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306)
	at org.junit.runners.BlockJUnit4ClassRunner$1.evaluate(BlockJUnit4ClassRunner.java:100)
	at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:366)
	at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:103)
	at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:63)
	at org.junit.runners.ParentRunner$4.run(ParentRunner.java:331)
	at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:79)
	at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:329)
	at org.junit.runners.ParentRunner.access$100(ParentRunner.java:66)
	at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:293)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:26)
	at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306)
	at org.junit.runners.ParentRunner.run(ParentRunner.java:413)
	at org.junit.runner.JUnitCore.run(JUnitCore.java:137)
	at com.intellij.junit4.JUnit4IdeaTestRunner.startRunnerWithArgs(JUnit4IdeaTestRunner.java:69)
	at com.intellij.rt.junit.IdeaTestRunner$Repeater$1.execute(IdeaTestRunner.java:38)
	at com.intellij.rt.execution.junit.TestsRepeater.repeat(TestsRepeater.java:11)
	at com.intellij.rt.junit.IdeaTestRunner$Repeater.startRunnerWithArgs(IdeaTestRunner.java:35)
	at com.intellij.rt.junit.JUnitStarter.prepareStreamsAndStart(JUnitStarter.java:235)
	at com.intellij.rt.junit.JUnitStarter.main(JUnitStarter.java:54)


java.lang.AssertionError
	at org.junit.Assert.fail(Assert.java:87)
	at org.junit.Assert.assertTrue(Assert.java:42)
	at org.junit.Assert.assertTrue(Assert.java:53)
	at org.lorainelab.igb.quickload.utils.QuickloadDataProviderTest.validateSupportedGenomeVersionNames(QuickloadDataProviderTest.java:58)

Closing the issue.

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Karthik Raveendran added a comment - 01/Sep/23 1:52 PM QuickloadUtilsTest runs without errors. Note : Another test class in the same module, QuickloadDataProviderTest, is failing 3/5 tests: testassemblyinfo, validateQuickload, validateSupportedGenomeVersions. java.lang.NullPointerException at org.lorainelab.igb.quickload.util.QuickloadUtils.getContextRootKey(QuickloadUtils.java:199) at org.lorainelab.igb.quickload.QuickloadDataProvider.getAssemblyInfo(QuickloadDataProvider.java:217) at org.lorainelab.igb.quickload.utils.QuickloadDataProviderTest.testAssemblyInfo(QuickloadDataProviderTest.java:64) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.junit.runners.model.FrameworkMethod$1.runReflectiveCall(FrameworkMethod.java:59) at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12) at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56) at org.junit.internal.runners.statements.InvokeMethod.evaluate(InvokeMethod.java:17) at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) at org.junit.runners.BlockJUnit4ClassRunner$1.evaluate(BlockJUnit4ClassRunner.java:100) at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:366) at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:103) at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:63) at org.junit.runners.ParentRunner$4.run(ParentRunner.java:331) at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:79) at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:329) at org.junit.runners.ParentRunner.access$100(ParentRunner.java:66) at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:293) at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:26) at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) at org.junit.runners.ParentRunner.run(ParentRunner.java:413) at org.junit.runner.JUnitCore.run(JUnitCore.java:137) at com.intellij.junit4.JUnit4IdeaTestRunner.startRunnerWithArgs(JUnit4IdeaTestRunner.java:69) at com.intellij.rt.junit.IdeaTestRunner$Repeater$1.execute(IdeaTestRunner.java:38) at com.intellij.rt.execution.junit.TestsRepeater.repeat(TestsRepeater.java:11) at com.intellij.rt.junit.IdeaTestRunner$Repeater.startRunnerWithArgs(IdeaTestRunner.java:35) at com.intellij.rt.junit.JUnitStarter.prepareStreamsAndStart(JUnitStarter.java:235) at com.intellij.rt.junit.JUnitStarter.main(JUnitStarter.java:54) java.lang.NullPointerException at org.lorainelab.igb.quickload.utils.QuickloadDataProviderTest.validateQuickload(QuickloadDataProviderTest.java:82) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.junit.runners.model.FrameworkMethod$1.runReflectiveCall(FrameworkMethod.java:59) at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12) at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56) at org.junit.internal.runners.statements.InvokeMethod.evaluate(InvokeMethod.java:17) at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) at org.junit.runners.BlockJUnit4ClassRunner$1.evaluate(BlockJUnit4ClassRunner.java:100) at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:366) at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:103) at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:63) at org.junit.runners.ParentRunner$4.run(ParentRunner.java:331) at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:79) at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:329) at org.junit.runners.ParentRunner.access$100(ParentRunner.java:66) at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:293) at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:26) at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) at org.junit.runners.ParentRunner.run(ParentRunner.java:413) at org.junit.runner.JUnitCore.run(JUnitCore.java:137) at com.intellij.junit4.JUnit4IdeaTestRunner.startRunnerWithArgs(JUnit4IdeaTestRunner.java:69) at com.intellij.rt.junit.IdeaTestRunner$Repeater$1.execute(IdeaTestRunner.java:38) at com.intellij.rt.execution.junit.TestsRepeater.repeat(TestsRepeater.java:11) at com.intellij.rt.junit.IdeaTestRunner$Repeater.startRunnerWithArgs(IdeaTestRunner.java:35) at com.intellij.rt.junit.JUnitStarter.prepareStreamsAndStart(JUnitStarter.java:235) at com.intellij.rt.junit.JUnitStarter.main(JUnitStarter.java:54) java.lang.AssertionError at org.junit.Assert.fail(Assert.java:87) at org.junit.Assert.assertTrue(Assert.java:42) at org.junit.Assert.assertTrue(Assert.java:53) at org.lorainelab.igb.quickload.utils.QuickloadDataProviderTest.validateSupportedGenomeVersionNames(QuickloadDataProviderTest.java:58) Closing the issue.

Karthik Raveendran made changes - 01/Sep/23 1:53 PM

Assignee

Karthik Raveendran [ karthik ]

Kaushik Gopu [ kgopu ]

Karthik Raveendran made changes - 01/Sep/23 1:53 PM

Resolution		Done [ 10000 ]
Status	Post-merge Testing In Progress [ 10003 ]	Closed [ 6 ]

Paige Kulzer made changes - 05/Feb/24 12:47 PM

Fix Version/s

10.0.0 Major Release [ 10900 ]

Nowlan Freese made changes - 07/Feb/24 1:51 PM

Issue Type

Task [ 3 ]

Bug [ 1 ]

Investigate Test Failure that is occurring in QuickloadUtilsTest class.

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