Hi Andreas,
On Sun, Jul 26, 2020 at 10:34:07AM +0200, Andreas Tille wrote:
> Hi Andrius,
>
> On Fri, Jul 24, 2020 at 08:11:29AM +0300, merkys@debian.org wrote:
> > On 2020-07-23 17:55, Andreas Tille wrote:
> > > Would you mind to update cdk package (which was the original issue
> > > I stumbled upon freehep)?
> >
> > I have updated cdk yesterday. The cdk-depict module is built now.
>
> Thanks a lot. Unfortunately I have remaining issues with r-cran-rcdk.
> If I try to build it I get:
>
>
> Executing test function test.mcs2 ... Error in .jcall("org.guha.rcdk.util.Misc", "Lorg/openscience/cdk/interfaces/IAtomContainer;", :.
> java.lang.NoClassDefFoundError: org/openscience/cdk/smsd/Isomorphism
> Timing stopped at: 0.022 0 0.007
> done successfully.
>
>
> It actually seems that org/openscience/cdk/smsd/Isomorphism is not
> part of the currently packaged CDK. Any idea how to solve this?
I am just starting to take a look a this, but I think we need to spend
some more time with CDK. That class is found in the "legacy" directory
of the sources:
➜ cdk-2.3.134.g1bb9a64587 find . -name Isomorphism.java
./legacy/src/main/java/org/openscience/cdk/smsd/Isomorphism.java
But the legacy pom is ignored:
https://salsa.debian.org/java-team/cdk/-/blob/master/debian/libcdk-java.poms#L91
I'll look into the discrepancy with libjgrapht0.6-java, which doesn't
include maven metadata.
Cheers,
tony
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