On 23 December 2021 at 20:03, Paul Gevers wrote:
| Source: r-cran-tmb
| Version: 1.7.22-1
| Severity: serious
| X-Debbugs-CC: debian...@lists.debian.org, rmat...@packages.debian.org
| Tags: sid bookworm
| User: debian...@lists.debian.org
| Usertags: needs-update
| Control: affects -1 src:rmatrix
|
| Dear maintainer(s),
|
| With a recent upload of rmatrix the autopkgtest of r-cran-tmb fails in
| testing when that autopkgtest is run with the binary packages of rmatrix
| from unstable. It passes when run with only packages from testing. In
| tabular form:
|
| pass fail
| rmatrix from testing 1.4-0-1
| r-cran-tmb from testing 1.7.22-1
| all others from testing from testing
|
| I copied some of the output at the bottom of this report. It seems the
| binary embeds the version of rmatrix it's build against without
| declaring proper versioned Dependencies to reflect that.
Yes. Apparently a design decision of the (R package) TMB package imposed
after the slight accidents that append with the (R package) Matrix (aka
rmatrix for us) during its last ABI/API change (at version 1.3.0 and after).
Not a lot we can do, other than to patch it out in TMB.
Nothing I can do (as maintainer of r-cran-matrix built of source package
rmatrix aka CRAN package Matrix.
| Currently this regression is blocking the migration of rmatrix to
| testing [1]. Of course, rmatrix shouldn't just break your autopkgtest
| (or even worse, your package), but it seems to me that the change in
| rmatrix was intended and your package needs to update to the new situation.
None of that, AFAIK, comes from R package Matrix. It is just TMB.
Coupled with what happens around here with our ability to not keep packages
aligned with their CRAN versions.
| If this is a real problem in your package (and not only in your
| autopkgtest), the right binary package(s) from rmatrix should really add
| a versioned Breaks on the unfixed version of (one of your) package(s).
I don't think I agree. Matrix does nothing here. You appear to be shooting a
messenger.
I.e. here it is on the Debian testing box I use for (my upstream) reverse
dependency checking:
Before reinstalling TMB:
R> library(TMB)
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.3.4
Current Matrix version is 1.4.0
Please re-install 'TMB' from source using install.packages('TMB', type = \
'source') or ask CRAN for a binary version of 'TMB' matching CRAN's
'Matrix' package
R>
After reinstalling:
R> library(TMB)
R> packageVersion("TMB")
[1] ‘1.7.22’
R> packageVersion("Matrix")
[1] ‘1.4.0’
R>
Dirk
| Note: the Breaks is nice even if the issue is only in the autopkgtest as
| it helps the migration software to figure out the right versions to
| combine in the tests.
|
| More information about this bug and the reason for filing it can be found on
| https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation
|
| Paul
|
| [1] https://qa.debian.org/excuses.php?package=rmatrix
|
|
https://ci.debian.net/data/autopkgtest/testing/amd64/r/r-cran-tmb/17813190/log.gz
|
|
| R version 4.1.2 (2021-11-01) -- "Bird Hippie"
| Copyright (C) 2021 The R Foundation for Statistical Computing
| Platform: x86_64-pc-linux-gnu (64-bit)
|
| R is free software and comes with ABSOLUTELY NO WARRANTY.
| You are welcome to redistribute it under certain conditions.
| Type 'license()' or 'licence()' for distribution details.
|
| R is a collaborative project with many contributors.
| Type 'contributors()' for more information and
| 'citation()' on how to cite R or R packages in publications.
|
| Type 'demo()' for some demos, 'help()' for on-line help, or
| 'help.start()' for an HTML browser interface to help.
| Type 'q()' to quit R.
|
| > options("warn" = 2); library(TMB)
| Error: package or namespace load failed for ‘TMB’:
| .onLoad failed in loadNamespace() for 'TMB', details:
| call: checkMatrixPackageVersion()
| error: (converted from warning) Package version inconsistency detected.
| TMB was built with Matrix version 1.3.4
| Current Matrix version is 1.4.0
| Please re-install 'TMB' from source using install.packages('TMB', type =
| 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's
| 'Matrix' package
| Execution halted
| autopkgtest [16:11:05]: test r-cran-matrix_compatibility
|
| [DELETED ATTACHMENT OpenPGP_signature, application/pgp-signature]
--
https://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org
