[Debian-med-packaging] Bug#848768: biojava4-live: FTBFS: [javac] /<<BUILDDIR>>/biojava4-live-4.2.4+dfsg/biojava-structure/src/main/java/org/biojava/nbio/structure/symmetry/core/QuatSymmetryDetector.java:27: error: package org.jgrapht does not exist

[Ximin Luo]

Hey all,

Indeed, jmol in unstable is still version 12. If biojava4-live 4.2.4 is supposed to work with 14, that would be the problem.

I will upload jmol 14 to unstable in the next 2-3 hours, you can try it again with that. Perhaps it would already solve this FTBFS.

X

olivier sallou:
> Le mar. 20 déc. 2016 à 08:55, olivier sallou <olivier.sallou at gmail.com> a
> écrit :
> 
>> Le mar. 20 déc. 2016 à 08:38, Andreas Tille <tille at debian.org> a écrit :
>>
>> Hi Olivier and Ximin,
>>
>> I stripped the quote of the build log below but to me it seems to be
>> related to the jmol upgrade.
>>
>>
> jmol is still in 12.2.32, looks like to be an other pb, I am investigating
> 
> 
>>
>> I saw the bug this morning, I gonna have a look
>>
>>
>> Any help to get this fixed would be really welcome.
>>
>> Kind regards
>>
>>       Andreas.
>>
>> On Mon, Dec 19, 2016 at 10:08:48PM +0100, Lucas Nussbaum wrote:
>>> Source: biojava4-live
>>> Version: 4.2.4+dfsg-1
>>> Severity: serious
>>> Tags: stretch sid
>>> User: debian-qa at lists.debian.org
>>> Usertags: qa-ftbfs-20161219 qa-ftbfs
>>> Justification: FTBFS on amd64
>>>
>>> Hi,
>>>
>>> During a rebuild of all packages in sid, your package failed to build on
>>> amd64.
>>> ...
>>>>     [javac]                 UndirectedGraph<Integer, DefaultEdge>
>> graph = new SimpleGraph<Integer, DefaultEdge>(
>>>>     [javac]
>>                             ^
>>>>     [javac]   symbol:   class DefaultEdge
>>>>     [javac]   location: class SymmetryTools
>>>>     [javac]
>> /<<BUILDDIR>>/biojava4-live-4.2.4+dfsg/biojava-structure/src/main/java/org/biojava/nbio/structure/symmetry/utils/SymmetryTools.java:481:
>> error: cannot find symbol
>>>>     [javac]                                 DefaultEdge.class);
>>>>     [javac]                                 ^
>>>>     [javac]   symbol:   class DefaultEdge
>>>>     [javac]   location: class SymmetryTools
>>>>     [javac] Note: Some input files use or override a deprecated API.
>>>>     [javac] Note: Recompile with -Xlint:deprecation for details.
>>>>     [javac] Note:
>> /<<BUILDDIR>>/biojava4-live-4.2.4+dfsg/biojava-structure/src/main/java/org/biojava/nbio/structure/io/mmcif/MetalBondConsumer.java
>> uses unchecked or unsafe operations.
>>>>     [javac] Note: Recompile with -Xlint:unchecked for details.
>>>>     [javac] 67 errors
>>>>
>>>> BUILD FAILED
>>
>> --
>> http://fam-tille.de
>>
>>
> 


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