On 5 April 2018 at 05:36, Ben Goodrich wrote:
| Package: r-cran-matrix
| Version: 1.2-13-1
| Severity: normal
|
| Hi Dirk,
|
| When I install r-cran-matrix version 1.2-13-1 from unstable, it puts it under
/usr/lib/R/site-library ,
I am aware. I switched to the newer/better build system dh-r, and it had a
bug that it did not recognise 'Priority: recommended' (as it was case
sensitive by oversight). This has been fixed in a new release 20180404 (see
eg [1]) so I need to rebuild.
[1]
http://metadata.ftp-master.debian.org/changelogs/main/d/dh-r/dh-r_20180403_changelog)
| whereas if I downgrade to version 1.2-12-1 from testing, it puts it under
/usr/lib/R/library with the
| other recommended packages. I am not sure if this was an intentional change,
but it breaks R CMD check
| for packages that have Matrix in the Imports line of their DESCRIPTION file.
Specifically, if you call
| R CMD check on a package that is downstream of Matrix, then when it gets to
examples or tests, it says:
|
| Error: package or namespace load failed for 'rstanarm' in loadNamespace(j <-
i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
| there is no package called 'Matrix'
That is weird and I don't understand. Still in .libPaths().
| I put in a print statement right before that, which outputs
|
| > library(testthat)
| > print(.libPaths())
| [1] "/tmp/RtmpKN7neI/RLIBS_8051142d41b" "/usr/lib/R/library"
| > library(rstanarm)
|
| so it seems that R CMD check does not copy Matrix into /tmp/Rtmp* because it
assumes it is already in
| /usr/lib/R/library, which is not the case anymore.
Good thinking.
| Not a big deal since I have to do R CMD check on r-devel anyway.
But I'll fix. Also affects r-cran-cluster. Uploading ...
Dirk
| Thanks,
| Ben
|
| -- System Information:
| Debian Release: buster/sid
| APT prefers unstable
| APT policy: (500, 'unstable'), (500, 'testing')
| Architecture: amd64 (x86_64)
| Foreign Architectures: i386
|
| Kernel: Linux 3.17-4.towo-siduction-amd64 (SMP w/8 CPU cores; PREEMPT)
| Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8), LANGUAGE=
(charmap=UTF-8)
| Shell: /bin/sh linked to /bin/dash
| Init: systemd (via /run/systemd/system)
|
| Versions of packages r-cran-matrix depends on:
| ii libatlas3-base [liblapack.so.3]3.10.3-5
| ii libblas3 [libblas.so.3]3.7.1-4
| ii libc6 2.27-3
| ii libgcc11:8-20180402-1
| ii libgfortran4 7.3.0-14
| ii liblapack3 [liblapack.so.3]3.7.1-4
| ii libopenblas-base [liblapack.so.3] 0.2.20+ds-4
| ii libquadmath0 8-20180402-1
| ii libstdc++6 8-20180402-1
| ii r-cran-lattice 0.20-35-1+b1
|
| r-cran-matrix recommends no packages.
|
| r-cran-matrix suggests no packages.
|
| -- no debconf information
--
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org
