Your message dated Sat, 9 Sep 2017 10:22:25 -0500 with message-id <22964.1841.475173.600...@bud.eddelbuettel.com> and subject line All affected packages are manually uploaded has caused the Debian Bug report #861333, regarding r-base: R packages uploaded to Debian before 14 April 2017 that use .C or .Fortran fail to find objects to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 861333: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=861333 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: r-base Version: 3.4.0-1 Severity: normal With current R, R packages built for Debian before the upload of R 3.3.3.20170413-1 on 14 April that use .C or .Fortran do no work properly, because the functions calling .C or .Fortran do not find the compiled objects. Example packages are r-cran-spatial and r-cran-kernsmooth. An example session in a fresh Debian sid chroot: > library(spatial) > example(surf.gls) srf.gl> library(MASS) # for eqscplot srf.gl> data(topo, package="MASS") srf.gl> topo.kr <- surf.gls(2, expcov, topo, d=0.7) Error in surf.gls(2, expcov, topo, d = 0.7) : object 'VR_frset' not found The relevant NEWS entry from R is * Packages which register native routines for .C or .Fortran need to be re-installed for this version (unless installed with R-devel SVN revision r72375 or later). Packages compiled locally can simply be rebuilt using update.packages(lib.loc="/usr/local/lib/R/site-library", checkBuilt=TRUE) However the packages provided by Debian packages are installed in a directory only writable by privileged users. Cheers, Johannes -- System Information: Debian Release: 9.0 APT prefers unstable APT policy: (500, 'unstable') Architecture: amd64 (x86_64) Kernel: Linux 4.9.0-0.bpo.2-amd64 (SMP w/8 CPU cores) Locale: LANG=C, LC_CTYPE=C (charmap=ANSI_X3.4-1968) Shell: /bin/sh linked to /usr/bin/dash Init: unable to detect Versions of packages r-base depends on: ii r-base-core 3.4.0-1 ii r-recommended 3.4.0-1 Versions of packages r-base recommends: ii r-base-html 3.4.0-1 ii r-doc-html 3.4.0-1 Versions of packages r-base suggests: pn ess <none> pn r-doc-info | r-doc-pdf <none> -- no debconf information
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--- Begin Message ---Per the email thread in #868558, this bug can also be closed as all packages needing a rebuild under R 3.4.* have now gotten a rebuild, thanks an energetic push by Andreas. Dirk -- http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org
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