Bug 1402549 - libsbml: FTBFS in Fedora Rawhide
Summary: libsbml: FTBFS in Fedora Rawhide
Keywords:
Status: CLOSED RAWHIDE
Alias: None
Product: Fedora
Classification: Fedora
Component: libsbml
Version: rawhide
Hardware: Unspecified
OS: Unspecified
unspecified
unspecified
Target Milestone: ---
Assignee: Zbigniew Jędrzejewski-Szmek
QA Contact: Fedora Extras Quality Assurance
URL: http://apps.fedoraproject.org/koschei...
Whiteboard:
Depends On:
Blocks:
TreeView+ depends on / blocked
 
Reported: 2016-12-07 19:28 UTC by Orion Poplawski
Modified: 2016-12-09 02:55 UTC (History)
2 users (show)

Fixed In Version: libsbml-5.14.0-1.fc26
Doc Type: If docs needed, set a value
Doc Text:
Clone Of:
Environment:
Last Closed: 2016-12-09 02:55:20 UTC
Type: Bug
Embargoed:


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Description Orion Poplawski 2016-12-07 19:28:22 UTC
Description of problem:
Package libsbml fails to build from source in Fedora Rawhide.

Version-Release number of selected component (if applicable):
5.13.0-5.fc26

Steps to Reproduce:
koji build --scratch f26 libsbml-5.13.0-5.fc26.src.rpm

Additional info:
This package is tracked by Koschei. See:
http://apps.fedoraproject.org/koschei/package/libsbml

https://kojipkgs.fedoraproject.org//work/tasks/159/16780159/build.log

23: Test command: /usr/bin/mono "/builddir/build/BUILD/libSBML-5.13.0-Source/build/src/bindings/csharp/TestRunner.exe" "-d" "/builddir/build/BUILD/libSBML-5.13.0-Source/src/sbml/test/test-data" "-l" "/builddir/build/BUILD/libSBML-5.13.0-Source/build/src/bindings/csharp/libsbmlcsP.dll" "-w" "/builddir/build/BUILD/libSBML-5.13.0-Source/src/bindings/csharp" "-p" "/builddir/build/BUILD/libSBML-5.13.0-Source/build/src/bindings/csharp"
23: Environment variables: 
23:  LD_LIBRARY_PATH=/builddir/build/BUILD/libSBML-5.13.0-Source/build/src/bindings/csharp:/builddir/build/BUILD/libSBML-5.13.0-Source/build/src/bindings/csharp:
23: Test timeout computed to be: 3000
23: LibSBML C# Testrunner
23: =====================
23: Running the tests with: 
23: 	Data Directory:   /builddir/build/BUILD/libSBML-5.13.0-Source/src/sbml/test/test-data
23: 
23: .............................................................................................................................................E..................E.E...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................<!-- Created by foo version bar on 2016-12-07 03:55 with libSBML version 5.13.0. -->
23: .....................................
23: 
23: Total Number of Tests 1854, failures 3
23: 
23: 
23: Error in 'test_ASTNode_create': 
23: ====================
23: Exception of type 'LibSBMLCSTest.math.TestASTNode+AssertionError' was thrown.
23:   at LibSBMLCSTest.math.TestASTNode.assertTrue (System.Boolean condition) [0x0000c] in <a807feec6b9e440b8942aeaf7daad177>:0 
23:   at LibSBMLCSTest.math.TestASTNode.test_ASTNode_create () [0x00028] in <a807feec6b9e440b8942aeaf7daad177>:0 
23:   at (wrapper managed-to-native) System.Reflection.MonoMethod:InternalInvoke (System.Reflection.MonoMethod,object,object[],System.Exception&)
23:   at System.Reflection.MonoMethod.Invoke (System.Object obj, System.Reflection.BindingFlags invokeAttr, System.Reflection.Binder binder, System.Object[] parameters, System.Globalization.CultureInfo culture) [0x00038] in <1fd744d936be4a229b315d57c3b96c68>:0 
23: 
23: 
23: Error in 'test_ASTNode_setCharacter': 
23: ====================
23: Exception of type 'LibSBMLCSTest.math.TestASTNode+AssertionError' was thrown.
23:   at LibSBMLCSTest.math.TestASTNode.assertTrue (System.Boolean condition) [0x0000c] in <a807feec6b9e440b8942aeaf7daad177>:0 
23:   at LibSBMLCSTest.math.TestASTNode.test_ASTNode_setCharacter () [0x002f1] in <a807feec6b9e440b8942aeaf7daad177>:0 
23:   at (wrapper managed-to-native) System.Reflection.MonoMethod:InternalInvoke (System.Reflection.MonoMethod,object,object[],System.Exception&)
23:   at System.Reflection.MonoMethod.Invoke (System.Object obj, System.Reflection.BindingFlags invokeAttr, System.Reflection.Binder binder, System.Object[] parameters, System.Globalization.CultureInfo culture) [0x00038] in <1fd744d936be4a229b315d57c3b96c68>:0 
23: 
23: 
23: Error in 'test_ASTNode_setName': 
23: ====================
23: Exception of type 'LibSBMLCSTest.math.TestASTNode+AssertionError' was thrown.
23:   at LibSBMLCSTest.math.TestASTNode.assertTrue (System.Boolean condition) [0x0000c] in <a807feec6b9e440b8942aeaf7daad177>:0 
23:   at LibSBMLCSTest.math.TestASTNode.test_ASTNode_setName () [0x00106] in <a807feec6b9e440b8942aeaf7daad177>:0 
23:   at (wrapper managed-to-native) System.Reflection.MonoMethod:InternalInvoke (System.Reflection.MonoMethod,object,object[],System.Exception&)
23:   at System.Reflection.MonoMethod.Invoke (System.Object obj, System.Reflection.BindingFlags invokeAttr, System.Reflection.Binder binder, System.Object[] parameters, System.Globalization.CultureInfo culture) [0x00038] in <1fd744d936be4a229b315d57c3b96c68>:0 
23: 
23: 
23/28 Test #23: test_csharp_bindings_full .........***Failed  Required regular expression not found.Regex=[failures 0
]  1.72 sec

The following tests FAILED:
	 23 - test_csharp_bindings_full (Failed)

Comment 1 Antonio T. (sagitter) 2016-12-07 19:30:23 UTC
Reported to upstream: https://sourceforge.net/p/sbml/libsbml/429/

Comment 2 Zbigniew Jędrzejewski-Szmek 2016-12-08 15:26:17 UTC
I now tested with 5.14.0. The result is identical:
http://koji.fedoraproject.org/koji/taskinfo?taskID=16798806

In koji, the tests always fail on i686. So this might be arch-specific.
I'm now building on amd64, and if this succeeds, I'll push the update to git master. If only this one test is failing and only on i686, I think it makes sense to disable it until we figure out a proper fix.

Comment 3 Zbigniew Jędrzejewski-Szmek 2016-12-09 02:55:20 UTC
It builds with that test disabled on i686. It would be nice to fix it properly of course.


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