[R-pkg-team] Bug#982111: [bunk at debian.org: Bug#982111: r-cran-rcdk: autopkgtest failure]

[Pierre Gruet]

Hi Andreas,

Le 07/02/2021 à 12:42, Andreas Tille a écrit :
> Control: tags -1 help
> 
> Hi Pierre,
> 
> do you have some idea how to fix this?

Good news:

Yes, I forgot to add libcdkr-java as a runtime dependency last time I 
looked at this package: adding
	libcdkr-java
to the Depends field of the binary package in d/control solves the issue!

Bad news:

30 tests are passing but 1 is failing:

---------------------------------------------------------------------
Executing test function test.desc.cats  ... [1] "protein" 
"hybrid"         "constitutional" "topological"
[5] "electronic"     "geometrical"
Timing stopped at: 0.088 0.004 0.037
Error in checkEquals(5, length(cats)) : Mean relative difference: 0.2
---------------------------------------------------------------------

It does not seem to be that important, maybe you can omit it. Then the 
autopkgtest should run fine.

> 
> Kind regards

All the best,
Pierre

> 
> ----- Forwarded message from Adrian Bunk <bunk at debian.org> -----
> 
> Date: Sat, 06 Feb 2021 17:55:20 +0200
> From: Adrian Bunk <bunk at debian.org>
> To: Debian Bug Tracking System <submit at bugs.debian.org>
> Subject: Bug#982111: r-cran-rcdk: autopkgtest failure
> X-Debian-PR-Message: report 982111
> X-Debian-PR-Package: src:r-cran-rcdk
> X-Debian-PR-Keywords:
> X-Debian-PR-Source: r-cran-rcdk
> 
> Source: r-cran-rcdk
> Version: 3.5.0+dfsg-2
> Severity: serious
> 
> https://ci.debian.net/data/autopkgtest/testing/amd64/r/r-cran-rcdk/10267024/log.gz
> 
> ...
> autopkgtest [17:35:11]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
> autopkgtest [17:35:11]: test pkg-r-autopkgtest: [-----------------------
> Test: Try to load the R library rcdk
> 
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>> library('rcdk')
> Loading required package: rcdklibs
> Loading required package: rJava
> Error: package or namespace load failed for ‘rcdk’:
>   .onLoad failed in loadNamespace() for 'rcdk', details:
>    call: .jnew("org/openscience/cdk/formula/rules/NitrogenRule")
>    error: java.lang.ClassNotFoundException
> Execution halted
> autopkgtest [17:35:14]: test pkg-r-autopkgtest: -----------------------]
> autopkgtest [17:35:14]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
> pkg-r-autopkgtest    FAIL non-zero exit status 1
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