Bug#1059875: RM: rJava [i386] -- RoM: FTBFS as i386 builds no longer maintained upstream

2024-01-11 Thread Dirk Eddelbuettel
( Resending to now correctly-typed package r-cran-rcdklibs -- Dirk ) On 11 January 2024 at 07:09, Dirk Eddelbuettel wrote: | | Package: ftp.debian.org | Severity: normal | | The rJava package (source package 'rjava', binary package r-cran-rjava) no | longer builds on i386 as m

Bug#1060441: RM: rJava [i386] -- RoM: FTBFS as i386 builds no longer maintained upstream

2024-01-11 Thread Dirk Eddelbuettel
rjava |1.0-6-1 | source rjava | 1.0-10-1 | source Maintainer: Dirk Eddelbuettel --- Reason --- -- Checking reverse dependencies... # Broken Depends: libgoby-java: goby-java r-cran-rcdk: r-cran-rcdk r-

Bug#1059875: src:rjava: fails to migrate to testing for too long: FTBFS on i386

2024-01-02 Thread Dirk Eddelbuettel
(Adrian: Added you to CCs per suggestion of Paul.) Hi Paul, On 2 January 2024 at 21:00, Paul Gevers wrote: | Hi Dirk, | | On 02-01-2024 20:42, Dirk Eddelbuettel wrote: | > | The Release Team considers packages that are out-of-sync between testing | > | and unstable for more than 30 d

Bug#1059875: src:rjava: fails to migrate to testing for too long: FTBFS on i386

2024-01-02 Thread Dirk Eddelbuettel
On 2 January 2024 at 20:07, Paul Gevers wrote: | Source: rjava | Version: 1.0-6-1 | Severity: serious | Control: close -1 1.0-10-1 | Tags: sid trixie ftbfs | User: release.debian@packages.debian.org | Usertags: out-of-sync | | Dear maintainer(s), | | The Release Team considers packages that

Bug#1054657: Transition seems to be blocked (Was: Bug#1054657: transition: r-bioc-biocgenerics)

2023-12-08 Thread Dirk Eddelbuettel
On 9 December 2023 at 01:06, Charles Plessy wrote: | I do not know for r-bioc-netsam, but for r-bioc-org.hs.eg.db and similar | packages, it is because it is an "annotation package" made of data and | therefore not managed the same way as the other Bioconductor packages. | | This is why it DESCR

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-30 Thread Dirk Eddelbuettel
Hi Graham On 30 November 2023 at 07:54, Graham Inggs wrote: | Hi Dirk | | On Thu, 30 Nov 2023 at 00:51, Dirk Eddelbuettel wrote: | > Ping squared. | > | > If I don't hear from you I may just close this. I believe this (non-, to me) | > issue has been taken care of. If you

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-29 Thread Dirk Eddelbuettel
On 27 November 2023 at 08:27, Dirk Eddelbuettel wrote: | | Graham, | | Quick ping to ask where we are we on this? Matrix is in testing so can this | be closed? Ping squared. If I don't hear from you I may just close this. I believe this (non-, to me) issue has been taken care of. I

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-27 Thread Dirk Eddelbuettel
Graham, Quick ping to ask where we are we on this? Matrix is in testing so can this be closed? Cheers, Dirk -- dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#1055926: rodbc: [L10N,DE] rodbc_1.3-21-1_R-de: german translation

2023-11-26 Thread Dirk Eddelbuettel
On 26 November 2023 at 15:09, Christoph Brinkhaus wrote: | Am Tue, Nov 14, 2023 at 02:46:18PM +0100 schrieb Christoph Brinkhaus: | > Am Tue, Nov 14, 2023 at 07:04:23AM -0600 schrieb Dirk Eddelbuettel: | > > | > > On 14 November 2023 at 12:30, Christoph Brinkhaus wrote: | >

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-20 Thread Dirk Eddelbuettel
Hi Graham, On 20 November 2023 at 12:13, Graham Inggs wrote: | On Sun, 19 Nov 2023 at 14:59, Dirk Eddelbuettel wrote: | > So it contains a patch by Mikael which had been applied _permitting Matrix | > 1.6-2_ to get to CRAN. So for this particular pair it was the other way around. | |

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-19 Thread Dirk Eddelbuettel
On 19 November 2023 at 09:59, Dirk Eddelbuettel wrote: | On 19 November 2023 at 13:49, Graham Inggs wrote: | | We don't believe only touching debian/changelog, or a binNMU, is | | sufficient. We were surprised that your r-cran-lme4 upload did not at | | least include: | | Depends: r-cran-m

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-19 Thread Dirk Eddelbuettel
Hi Graham, On 19 November 2023 at 13:49, Graham Inggs wrote: | On Tue, 14 Nov 2023 at 12:42, Dirk Eddelbuettel wrote: | > Doesn't 'normal' do that? | | No, only serious and above are considered RC [1] and also for migration. | | This week, Paul Gevers and I spent some time

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-18 Thread Dirk Eddelbuettel
I will not engage any more with debian-r. But this is now at the BTS so a clarification may be in order. This started as I had sent an email as a heads-up to fellow maintainers (via that mostly pointless list) informing them that their packages would exhibit a bug following a bug in package Matri

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-17 Thread Dirk Eddelbuettel
On 14 November 2023 at 07:42, Dirk Eddelbuettel wrote: | | On 14 November 2023 at 12:26, Graham Inggs wrote: | | Hi Dirk | | | | On Tue, 14 Nov 2023 at 12:01, Dirk Eddelbuettel wrote: | | > Well that seems to be a) the wrong severity and b) the wrong package. | | | | Both are correct. We

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-14 Thread Dirk Eddelbuettel
On 14 November 2023 at 12:26, Graham Inggs wrote: | Hi Dirk | | On Tue, 14 Nov 2023 at 12:01, Dirk Eddelbuettel wrote: | > Well that seems to be a) the wrong severity and b) the wrong package. | | Both are correct. We do not want rmatrix to migrate and break | packages in testing. Does

Bug#1055926: rodbc: [L10N,DE] rodbc_1.3-21-1_R-de: german translation

2023-11-14 Thread Dirk Eddelbuettel
On 14 November 2023 at 12:30, Christoph Brinkhaus wrote: | Source: rodbc | Version: 1.3-21-1 | Severity: wishlist | | Dear Maintainer, | | please find attached the po file with the german translation. | It is an update to the current po template. | Please consider to apply it to the package. S

Bug#1055922: rmatrix: ABI change in Matrix 1.6-2

2023-11-14 Thread Dirk Eddelbuettel
On 14 November 2023 at 09:15, Graham Inggs wrote: | Source: rmatrix | Version: 1.6-2-1 | Severity: serious | X-Debbugs-Cc: debia...@lists.debian.org | | Hi Dirk | | I'm opening this bug as a place for discussion and to track the | affected packages. It can be closed once rmatrix and its | reve

Bug#1054657: transition: r-bioc-biocgenerics

2023-11-07 Thread Dirk Eddelbuettel
On 7 November 2023 at 14:58, Andreas Tille wrote: | Do you see any way to answer the question that is discussed in this | thread by r2u how to know whether new Bioconductor packages might have | new dependencies not yet packaged for Debian? "Kinda. Sorta. Not fully." I have written related code

Bug#1054657: transition: r-bioc-biocgenerics

2023-11-07 Thread Dirk Eddelbuettel
On 7 November 2023 at 22:01, Charles Plessy wrote: | One possible direction would be to leverage the work done by Dirk and | others in r2u, where the Bioc transition is over, and for each package | in Debian, look if the r2u equivalent has a dependency not in Debian. | | https://fediscience.org/

Bug#1054921: [Quantlib-dev] Build error for quantlib-swig on mips64el

2023-10-30 Thread Dirk Eddelbuettel
On 30 October 2023 at 12:23, Luigi Ballabio wrote: | Hello Dirk, unfortunately I have no idea what can cause this — do you think it | possible that the size of the wrappers crossed some threshold and relocations | started to occur that weren't there before? Adrian (CC'ed) supplied a merge reques

Bug#1054921: Build error for quantlib-swig on mips64el

2023-10-29 Thread Dirk Eddelbuettel
The Debian package fails to build now on mipsel, a log is at [1]. The gist seems to be a relocation error: g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -O0 -g0 -mxgot --param ggc-min-expand=20 -DBOOST_NO_AUTO_PTR build/temp.linux-mips64-cpython-311/QuantLib/quantlib_wrap.o -L/usr/lib/mips6

Bug#1054921: quantlib-swig: FTBFS on mips64el

2023-10-28 Thread Dirk Eddelbuettel
On 28 October 2023 at 22:53, Sebastian Ramacher wrote: | Source: quantlib-swig | Version: 1.32-1 | Severity: serious | Tags: ftbfs | Justification: fails to build from source (but built successfully in the past) | X-Debbugs-Cc: sramac...@debian.org | | https://buildd.debian.org/status/fetch.php

Bug#1054657: transition: r-bioc-biocgenerics

2023-10-27 Thread Dirk Eddelbuettel
On 27 October 2023 at 16:43, Andreas Tille wrote: | Am Fri, Oct 27, 2023 at 09:19:22AM -0500 schrieb Dirk Eddelbuettel: | > | > | BioConductor has just released version 3.17. Since the next r-base | > | > Typo: 3.18 | | Yes. Thanks for pointing this out. | | > | release is

Bug#1054657: transition: r-bioc-biocgenerics

2023-10-27 Thread Dirk Eddelbuettel
On 27 October 2023 at 16:00, Andreas Tille wrote: | Package: release.debian.org | Severity: normal | User: release.debian@packages.debian.org | Usertags: transition | X-Debbugs-Cc: r-bioc-biocgener...@packages.debian.org, debia...@lists.debian.org | Control: affects -1 + src:r-bioc-biocgener

Bug#1037439: Unlikely to be a bug in r-base

2023-10-16 Thread Dirk Eddelbuettel
On 16 October 2023 at 11:41, Andreas Beckmann wrote: | On 05/10/2023 17.05, Dirk Eddelbuettel wrote: | > | > Andreas, | > | > This looks like an error: | > | > > reassign 1037439 src:r-base | > Bug #1037439 {Done: Dirk Eddelbuettel } [r-cran-rstan] r-cran-

Bug#1037439: Unlikely to be a bug in r-base

2023-10-05 Thread Dirk Eddelbuettel
Andreas, This looks like an error: > reassign 1037439 src:r-base Bug #1037439 {Done: Dirk Eddelbuettel } [r-cran-rstan] r-cran-rstan/armhf FTBFS with r-cran-bh 1.74, works with boost 1.81 Bug reassigned from package 'r-cran-rstan' to 'src:r-base'. No lo

Bug#1052655: gsl: CVE-2020-35357

2023-09-26 Thread Dirk Eddelbuettel
Hi Salvatore, Looks like we emailed concurrently :) (or concurrently enough for my batched mail setup). On 26 September 2023 at 14:19, Salvatore Bonaccorso wrote: | Hi Dirk, | | On Tue, Sep 26, 2023 at 06:54:31AM -0500, Dirk Eddelbuettel wrote: | > | > On 25 September 2023 at

Bug#1052655: gsl: CVE-2020-35357

2023-09-26 Thread Dirk Eddelbuettel
Fix made, built, uploaded and committed to the package's salsa repo. Dirk -- dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#1052655: gsl: CVE-2020-35357

2023-09-26 Thread Dirk Eddelbuettel
On 25 September 2023 at 20:58, Salvatore Bonaccorso wrote: | Source: gsl | Version: 2.7.1+dfsg-5 | Severity: important | Tags: security upstream | Forwarded: https://savannah.gnu.org/bugs/?59624 | X-Debbugs-Cc: car...@debian.org, Debian Security Team | Control: found -1

Bug#1052291: ITP: r-cran-writexl -- GNU R package for export Excel xlsx format

2023-09-19 Thread Dirk Eddelbuettel
Package: wnpp Owner: Dirk Eddelbuettel Severity: wishlist * Package name: r-cran-writexl Version : 1.4.2 Upstream Author : Jeroen Ooms * URL or Web page : https://cran.r-project.org/package=writexl * License : BSD-2 Description : GNU R package to write xlsx file

Bug#1050955: rpy2: please make the build reproducible

2023-08-31 Thread Dirk Eddelbuettel
On 31 August 2023 at 11:37, Chris Lamb wrote: | Source: rpy2 | Version: 3.5.13-5 | Severity: normal | Tags: patch | User: reproducible-bui...@lists.alioth.debian.org | Usertags: timestamps | X-Debbugs-Cc: reproducible-b...@lists.alioth.debian.org | | Hi, | | Whilst working on the Reproducible B

Bug#1050432: rpy2: FTBFS on mips64el

2023-08-27 Thread Dirk Eddelbuettel
On 27 August 2023 at 18:44, YunQiang Su wrote: | Maybe there is something wrong with ffi. (In fact the complex support of mips | was added by me. ;) Hah. | I am looking for a way to use debug to debug the extensions. | If you have any documents, can you point it to me. I can help you with R,

Bug#1050432: rpy2: FTBFS on mips64el

2023-08-27 Thread Dirk Eddelbuettel
On 27 August 2023 at 14:09, YunQiang Su wrote: | Dirk Eddelbuettel 于2023年8月27日周日 00:15写道: | > | > | > Hi all, | > | > As the test failures for complex valued variables appeared to be systemic on | > the 'mips64el' platform, I buckled down, taught myself some Python =

Bug#1050432: rpy2: FTBFS on mips64el

2023-08-26 Thread Dirk Eddelbuettel
Hi all, As the test failures for complex valued variables appeared to be systemic on the 'mips64el' platform, I buckled down, taught myself some Python ==:-) and conditioned the number of failing tests away via @pytest.mark.skipif(platform.machine() == 'mips64' and sys.byteorder == 'little',

Bug#1050432: rpy2: FTBFS on mips64el

2023-08-24 Thread Dirk Eddelbuettel
Paul, Thanks for the hint. I was aware and had been meaning to bring this up with Laurent (upstream, now CCed). Laurent: I should have access to a 'porterbox' running mips64el if you have an idea about what may be going on here / have a branch to test. Paul: While I have you here, and as all t

Bug#1049438: r-cran-rgdal: autopkgtest needs update for new version of r-cran-sp

2023-08-18 Thread Dirk Eddelbuettel
On 18 August 2023 at 13:58, Andreas Tille wrote: | Control: tags -1 upstream | Control: forwarded -1 Roger Bivand | | Hi Roger, | | the CI tests in Debian uncovered some conflict between recent rgdal and | version 2.0 of sp. As you either can see in the bug report that was | filed[1] or in a

Bug#1041556: What is the architecture name in R what we call armel/armhf

2023-08-17 Thread Dirk Eddelbuettel
On 17 August 2023 at 07:24, Graham Inggs wrote: | On Thu, 17 Aug 2023 at 05:52, Andreas Tille wrote: | > I tried to skip two tests in r-cran-checkmate with this patch[1] | > which is based on | > | > arch <- R.version$arch | > identical(arch, "i386") || identical(arch, "i686") || identical(a

Bug#1044299: ggobi: Fails to build source after successful build

2023-08-13 Thread Dirk Eddelbuettel
package: info: source distribution unstable | > dpkg-buildpackage: info: source changed by Dirk Eddelbuettel | > dpkg-source --before-build . | > fakeroot debian/rules clean | > dh_testdir | > dh_testroot | > dh_autoreconf_clean | > rm -f build-stamp configure-stamp install-sta

Bug#1028111: r-cran-clock: autopkgtest failure on 32bit

2023-08-12 Thread Dirk Eddelbuettel
The 'bug fix' applied to the _previous_ version of CRAN package clock, namely a somewhat 'wild' sed patching of a single ie # Ignore single test for i386 architecture. This is a workaround for bug #1024828 of r-cran-igraph if [ "$hostarch" = "i386" -o "$hostarch" = "armel" -o "$hostarch" = "ar

Bug#1042889: vm breakage with Emacs 29

2023-08-02 Thread Dirk Eddelbuettel
On 2 August 2023 at 14:41, Ian Jackson wrote: | Dirk Eddelbuettel writes ("Re: vm breakage with Emacs 29"): | > On 2 August 2023 at 13:17, Ian Jackson wrote: | > | Hi. Since you were helpful with #1039105 "Fails to start with Emacs | > | 28" I thought I would dr

Bug#1038405: Bug#1037439: r-cran-rstan/armhf FTBFS with r-cran-bh 1.74

2023-08-01 Thread Dirk Eddelbuettel
On 31 July 2023 at 23:13, Adrian Bunk wrote: | On Mon, Jun 19, 2023 at 04:37:22PM +0300, Adrian Bunk wrote: | > On Tue, Jun 13, 2023 at 03:30:18PM -0500, Dirk Eddelbuettel wrote: | > > | > > On 13 June 2023 at 13:15, Steve Langasek wrote: | > > | Control: reassign -1 r

Bug#1042040: quantlib-swig: FTBFS: QuantLib/quantlib_wrap.cpp:9493:19: error: ‘LexicographicalView’ in namespace ‘QuantLib’ does not name a template type

2023-07-25 Thread Dirk Eddelbuettel
On 25 July 2023 at 23:05, Lucas Nussbaum wrote: | Source: quantlib-swig | Version: 1.30-2 | Severity: serious | Justification: FTBFS | Tags: trixie sid ftbfs | | Hi, | | During a rebuild of all packages in sid, your package failed to build | on amd64. I'll get on this -- it is lagging behind t

Bug#1041835: gretl: installs empty directory /usr/lib/pkgconfig

2023-07-24 Thread Dirk Eddelbuettel
On 24 July 2023 at 06:47, Helmut Grohne wrote: | Source: gretl | Version: 2023b-1 | Severity: important | Tags: patch | | gretl contains an empty directory /usr/lib/pkgconfig. Due to having | implemented the /usr-merge using directory aliasing, this directory is | prone to loss. Are we sure thi

Bug#1041738: src:lme4: fails to migrate to testing for too long: causes timeout in autopkgtests on i386

2023-07-23 Thread Dirk Eddelbuettel
On 23 July 2023 at 11:03, Dirk Eddelbuettel wrote: | Note that the mlmRev authors / maintainers are the same as / a subset of the | lme4 authors. They may have an idea. | | https://cran.r-project.org/package=mlmRev I just ran `R CMD check mlmRev_*tar.gz` on my amd64 (under Ubuntu 23.04), it

Bug#1041738: src:lme4: fails to migrate to testing for too long: causes timeout in autopkgtests on i386

2023-07-23 Thread Dirk Eddelbuettel
On 23 July 2023 at 15:07, Graham Inggs wrote: | Hi | | On Sun, 23 Jul 2023 at 13:11, Nilesh Patra wrote: | > How do you conclude that? | > The versions of affected packages are same in unstable and testing. They | > fail in i386 with a newer version of lme4. | | For what it's worth, r-cran-afe

Bug#1041738: src:lme4: fails to migrate to testing for too long: causes timeout in autopkgtests on i386

2023-07-23 Thread Dirk Eddelbuettel
On 23 July 2023 at 18:42, Nilesh Patra wrote: | On Sun, 23 Jul 2023 07:15:09 -0500 Dirk Eddelbuettel wrote | > Is this is not an example of a release manager override? The affectect | > packages all work together in unstable and could migrate. | | How do you conclude that? | The versi

Bug#1041738: src:lme4: fails to migrate to testing for too long: causes timeout in autopkgtests on i386

2023-07-23 Thread Dirk Eddelbuettel
Paul, Is this is not an example of a release manager override? The affectect packages all work together in unstable and could migrate. Dirk -- dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#1041738: src:lme4: fails to migrate to testing for too long: causes timeout in autopkgtests on i386

2023-07-22 Thread Dirk Eddelbuettel
On 22 July 2023 at 21:45, Paul Gevers wrote: | Source: lme4 | Version: 1.1-31-1 | Severity: serious | Control: close -1 1.1-34-1 | X-Debbugs-CC: debia...@lists.debian.org | Tags: sid trixie | User: release.debian@packages.debian.org | Usertags: out-of-sync | | Dear maintainer(s), | | The Re

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-13 Thread Dirk Eddelbuettel
Graham, On 13 July 2023 at 18:59, Graham Inggs wrote: | I believe the attached patch should do the trick. It's basically | Paul's list from message #210, plus r-cran-interval and | r-cran-maldiquant. I've also used a << relationship against the | versions in unstable, and appended a tilde at t

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-13 Thread Dirk Eddelbuettel
Hi Graham, On 13 July 2023 at 11:14, Graham Inggs wrote: | On Wed, 12 Jul 2023 at 19:07, Dirk Eddelbuettel wrote: | > On 12 July 2023 at 19:47, Paul Gevers wrote: | > | Yes, you only need to carry the Breaks until in the next release. So | > | every Breaks that's present in the

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-12 Thread Dirk Eddelbuettel
Hi Paul, On 12 July 2023 at 19:47, Paul Gevers wrote: | On 12-07-2023 16:02, Dirk Eddelbuettel wrote: | > I can add the Breaks as a 'best of the worse alternative'. And, I presume, I | > can remove the existing four-year breaks? [1] | | Yes, you only need to carry the Breaks u

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-12 Thread Dirk Eddelbuettel
Hi Paul, On 11 July 2023 at 20:36, Paul Gevers wrote: | On 11-07-2023 02:43, Dirk Eddelbuettel wrote: | I'm totally on board for technical excellence, although I think we have | different things in mind when we say that. | | In Debian, with more QA than we ever had before, we're

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-10 Thread Dirk Eddelbuettel
On 10 July 2023 at 19:43, Dirk Eddelbuettel wrote: | Someone simply didn't update our Debian package, so it lacks this change and | fingers point at r-base when the fault, if there is one, is to let our | package slip behind a compilation and code standard established at CRAN for | the R

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-10 Thread Dirk Eddelbuettel
Paul, Here is a case in point from looking at the current excluses list (which is by now indeed a little shorter). One package that jumps out is r-cran-maldiquant. We are at version 1.22, with Debian build 1.22-1. But one second at the CRAN site and the page for the package shows that it is up

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-09 Thread Dirk Eddelbuettel
Hi Paul, On 9 July 2023 at 20:11, Paul Gevers wrote: | On 09-07-2023 18:41, Dirk Eddelbuettel wrote: | > On 9 July 2023 at 17:40, Paul Gevers wrote: | > | Did we already discuss that r-cran-ps also seems to be impacted by the | > | r-base change of the symbols thingy, as can be seen

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-09 Thread Dirk Eddelbuettel
On 9 July 2023 at 11:41, Dirk Eddelbuettel wrote: | For spacetime and stars I suspect (based on past experience) possible | interaction from the underlying graphics libraries. Absent-minded typing error: "geospatial", of course. Not "graphics". Dirk -- dirk.eddelbuettel

Bug#1040001: Role of tibble? (Was: Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing)

2023-07-09 Thread Dirk Eddelbuettel
Paul, On 9 July 2023 at 17:40, Paul Gevers wrote: | Did we already discuss that r-cran-ps also seems to be impacted by the | r-base change of the symbols thingy, as can be seen in r-cran-xopen [1]. Correct me if I am wrong but the "symbols thingy" was not a change in R 4.2.* to R 4.3.*. It was

Bug#1039721: r-base: 4.3 causes many autopkgtests to fail

2023-07-06 Thread Dirk Eddelbuettel
Thanks for closing it. I think in due course as you will see there a) new tag does not help today (we already took care of the six packages needing a rebuild because of the graphics engine constant changing) and b) what is likely being the exact same sets of packages having issue wit

Bug#1040001: Seeking advise how to proceed with the transition / move R stack to testing (Was: Bug#1040001: transition: r-base)

2023-07-06 Thread Dirk Eddelbuettel
On 7 July 2023 at 00:33, Nilesh Patra wrote: | I think we are hitting this issue here: https://github.com/tidyverse/dplyr/issues/6793 | The comment says "Looks like some package in the stack sets R_forceSymbols(dll, TRUE)" and that package is tibble | | | $ grep -rnw R_forceSymbols | | src/ini

Bug#1040001: transition: r-base

2023-07-05 Thread Dirk Eddelbuettel
Paul, Graham, r-base 4.3.1-2 is now on its way. You will have to update / tweak the ben file as there is no 'r-api-4.3' tag as there is no such thing API change upstream in R itself. Filing the bug reports against the handful of packages testing the graphics engine version was the right thing t

Bug#1039721: r-base: 4.3 causes many autopkgtests to fail

2023-07-05 Thread Dirk Eddelbuettel
Control: severity -1 normal I am changing this back because a) there is no general bug in R 4.3.1, and there newer was there were a few packages requiring an update to the new graphics engine version (as the packages choose to call R_GE_checkVersionOrDie, it is coming from the

Bug#1040341: r-base: please drop libpcre3-dev dependencies

2023-07-04 Thread Dirk Eddelbuettel
On 4 July 2023 at 16:00, Graham Inggs wrote: | Source: r-base | Version: 4.3.1-1 | Tags: patch | | Hi Maintainer | | r-base has a build-dependency, and r-base-dev has a dependency, on the | ancient libpcre3-dev package. I believe these are no longer required | since the dependencies on the (co

Bug#1040038: r-base-core: Please provide r-graphics-api-*

2023-07-01 Thread Dirk Eddelbuettel
On 1 July 2023 at 15:26, Graham Inggs wrote: | Your patch has 'rgraphicsapiversion' and 'r-graphics-api-4.3'. | | Upstream [1] refer to it as follows: | | The graphics engine version, R_GE_version, has been bumped to 16 | and so packages that provide graphics devices should be | rei

Bug#1040001: transition: r-base

2023-07-01 Thread Dirk Eddelbuettel
This is not a bug in r-base, and does not warrant a transition. I have written at some length about it, and (if I find some time) will expand on it in blog post. I will also try to coordinate with upstream. In short, R header GraphicsEngine.h [1] defines an integer constant declaring the curren

Bug#1039926: svglite requires rebuild under R 4.3.*

2023-06-29 Thread Dirk Eddelbuettel
On 29 June 2023 at 10:22, Dirk Eddelbuettel wrote: | | Package: r-cran-svglite | Version: 2.1.1-1 | Severity: normal | | R 4.3.0 brought (once again) a new graphics API which requires a rebuild for | functionality that involves creating graphics device. Once rebuilt the | following will again

Bug#1039953: tikzDevice requires rebuild under R 4.3.*

2023-06-29 Thread Dirk Eddelbuettel
Package: r-cran-tikzdevice Version: 0.12.4-1 Severity: normal R 4.3.0 brought (once again) a new graphics API which requires a rebuild for functionality that involves creating graphics device. Once rebuilt the following will again work: > getRversion() [1] ‘4.3.1’ > packageVersion(

Bug#1039721: r-base: 4.3 causes many autopkgtests to fail

2023-06-29 Thread Dirk Eddelbuettel
On 28 June 2023 at 17:39, Jeremy Bícha wrote: | Control: severity -1 serious | | On Wed, Jun 28, 2023 at 5:29 PM Dirk Eddelbuettel wrote: | > Feel free to change the severity back if you truly think it is that serious. | | Done. | | Feel free to close the bug once r-base is ready to migr

Bug#1039925: ragg requires rebuild under R 4.3.*

2023-06-29 Thread Dirk Eddelbuettel
Package: r-cran-ragg Version: 1.2.5-1 Severity: normal R 4.3.0 brought (once again) a new graphics API which requires a rebuild for functionality that involves creating graphics device. Once rebuilt the following will again work: > getRversion() [1] ‘4.3.1’ > packageVersion("ragg")

Bug#1039926: svglite requires rebuild under R 4.3.*

2023-06-29 Thread Dirk Eddelbuettel
Package: r-cran-svglite Version: 2.1.1-1 Severity: normal R 4.3.0 brought (once again) a new graphics API which requires a rebuild for functionality that involves creating graphics device. Once rebuilt the following will again work: > getRversion() [1] ‘4.3.1’ > packageVersion("svg

Bug#1039721: r-base: 4.3 causes many autopkgtests to fail

2023-06-28 Thread Dirk Eddelbuettel
Feel free to change the severity back if you truly think it is that serious. Some of the autopkgtests may be stumbling about the graphics API change and may need a rebuild of packages interfacing it: svglite, ggplot2, ragg, tikzdevice. As some of these are widely used the rest may be repercuss

Bug#1039721: r-base: 4.3 causes many autopkgtests to fail

2023-06-28 Thread Dirk Eddelbuettel
severity 1039721 normal thanks Hi Jeremy, That is a false positive (more below) and a duplicate of #1039510; the discussion of the latter now continues on the debian-r list. On 28 June 2023 at 12:31, Jeremy Bícha wrote: | Source: r-base | Version: 4.3.1-1 | Severity: serious | | I'm copying t

Bug#1039645: Seems we need a transition for r-base instead of lots of single bugs against single packages (Was: Bug#1039645: r-cran-epi: autopkgtest failure with r-base (4.3.1-1))

2023-06-28 Thread Dirk Eddelbuettel
On 28 June 2023 at 14:03, Andreas Tille wrote: | Am Wed, Jun 28, 2023 at 08:11:05AM +0200 schrieb Bas Couwenberg: | > 189s DLL requires the use of native symbols | | I wonder, whether all those bugs against single r-* packages are | sensible. Yes they are. Those are bugs in the packages ho

Bug#1039105: I can confirm this bug, fix works for me

2023-06-27 Thread Dirk Eddelbuettel
Hi Thomas, On 27 June 2023 at 22:05, Thomas Lange wrote: | Hi Dirk, | | I'm a vm user for reading my mail. So there's two of us! :-) | Thanks a lot for this bug report and fix. It also works for me. | Patching /etc/emacs/site-start.d/50vm-init.el still compiles vm-vars | and vm-version, but

Bug#1039510: mvtnorm breaks r-cran-pammtools autopkgtest: missing Breaks and/or versioned (test) Depends?

2023-06-27 Thread Dirk Eddelbuettel
Hi Paul, On 27 June 2023 at 20:08, Paul Gevers wrote: | Hi Dirk, | | On 26-06-2023 22:21, Dirk Eddelbuettel wrote: | > I really appreciate the diligence and detail you put into this. | > | > But I would like to offer a simple shortcut. I am also CCing debian-r again | > as this

Bug#1039510: mvtnorm breaks r-cran-pammtools autopkgtest: missing Breaks and/or versioned (test) Depends?

2023-06-26 Thread Dirk Eddelbuettel
Hi Paul, I really appreciate the diligence and detail you put into this. But I would like to offer a simple shortcut. I am also CCing debian-r again as this has come up time and time again, is guaranteed to come up again for as long as combine autopkgtests with letting packages go stake. Poi

Bug#1039105: Fails to start with Emacs 28

2023-06-25 Thread Dirk Eddelbuettel
Package: vm Version: 8.2.0b-8 Severity: normal Ian, After updating my main machine (and the only one running vm along and exim4, dovecot, spamassassin and whatnot) to Ubuntu 23.04 with its Emacs 28.2 (in an upgrade from 22.10 with Emacs 27.*), I found that vm (which I have been using all thos

Bug#1037439: Opinions about removal of 32bit architecture for r-cran-rstan (Was: Bug#1037439: r-cran-rstan/armhf FTBFS with r-cran-bh 1.74)

2023-06-22 Thread Dirk Eddelbuettel
Nilesh, But nobody suggested to turn 32bit builds for R off so it was not a question that needed adressing. Or did I miss something here? We do have _a_ package failing. My first suggestion always is to talk to upstream (and I did so on June 13 in my first post on this bug report). Has anybody

Bug#1034683: r-base: new upstream release unintentionally uploaded to unstable

2023-06-21 Thread Dirk Eddelbuettel
Hi Philip, On 21 June 2023 at 20:15, Philip Rinn wrote: | Hi, | | could we please close this bug? We released bookworm some days ago and | propagating to testing should be fine now. [It blocks R packages to propagate to | testing currently.] Thanks for the reminder. I think we had informal

Bug#1037439: r-cran-rstan/armhf FTBFS with r-cran-bh 1.74

2023-06-19 Thread Dirk Eddelbuettel
On 19 June 2023 at 16:37, Adrian Bunk wrote: | On Tue, Jun 13, 2023 at 03:30:18PM -0500, Dirk Eddelbuettel wrote: | > | > On 13 June 2023 at 13:15, Steve Langasek wrote: | > | Control: reassign -1 r-cran-rstan r-cran-bh | > | Control: found -1 r-cran-rstan/2.21.8-1 | > | | &g

Bug#1037439: r-cran-rstan/armhf FTBFS with r-cran-bh 1.74

2023-06-13 Thread Dirk Eddelbuettel
On 13 June 2023 at 13:15, Steve Langasek wrote: | Control: reassign -1 r-cran-rstan r-cran-bh | Control: found -1 r-cran-rstan/2.21.8-1 | | Unfortunately, at least in Ubuntu it appears the r-cran-rstan build still | exhausts the 32-bit memory space even with boost 1.81. | | https://launchpad.

Bug#1037113: Should not be in /usr/games

2023-06-13 Thread Dirk Eddelbuettel
On 13 June 2023 at 00:46, Josh Triplett wrote: | On Mon, Jun 12, 2023 at 05:03:01PM -0500, Dirk Eddelbuettel wrote: | > | > reassign 1037113 screen-message | > thanks | > | > Binary package 'sm' is from source package 'screen-message' | > | > Binary p

Bug#1037439: r-cran-rstan/armhf FTBFS with r-cran-bh 1.74, works with boost 1.81

2023-06-12 Thread Dirk Eddelbuettel
On 12 June 2023 at 16:08, Steve Langasek wrote: | On Mon, Jun 12, 2023 at 05:22:39PM -0500, Dirk Eddelbuettel wrote: | > edd@rob:~$ cat deb/bh/debian/control | > Source: r-cran-bh | > Section: gnu-r | > Priority: optional | > Maintainer: Dirk Eddelbuettel | &g

Bug#1037439: r-cran-rstan/armhf FTBFS with r-cran-bh 1.74, works with boost 1.81

2023-06-12 Thread Dirk Eddelbuettel
ould though, maybe worth discussing.) So for the last few years _Debian's_ r-cran-bh was an empty virtual package dependending on what Debian has as libboost* (particularly the headers only): edd@rob:~$ cat deb/bh/debian/control Source: r-cran-bh Section: gnu-r Priority: opt

Bug#1037113: Should not be in /usr/games

2023-06-12 Thread Dirk Eddelbuettel
reassign 1037113 screen-message thanks Binary package 'sm' is from source package 'screen-message' Binary package 'r-cran-sm' is from source package 'sm', which I maintain, and something totally different :-) Not the first crossed bug report so no worries, the reassign should work. Cheers,

Bug#1036071: fixed in gsl 2.7.1+dfsg-4

2023-06-02 Thread Dirk Eddelbuettel
On 2 June 2023 at 20:57, Paul Gevers wrote: | Hi Dirk, | | On 02-06-2023 20:38, Dirk Eddelbuettel wrote: | > | Are you sure? I just diffed the source to see if I should unblock and | > | got this: | > | > I would appear I did NOT add that one line to debian/control !! Doh !! | &g

Bug#1036071: fixed in gsl 2.7.1+dfsg-4

2023-06-02 Thread Dirk Eddelbuettel
: libgsl25' (with thanks to | +Andreas Beckmann for the suggestion) (Closes: #1036071) | + | + * debian/control: Set Standards-Version: to current version | + | + -- Dirk Eddelbuettel Sun, 14 May 2023 21:25:16 -0500 | + | gsl (2.7.1+dfsg-3) unstable; urgency=medium |

Bug#1037001: r-cran-htmltable: Homepage link doesn't work because it is case-sensitive

2023-05-31 Thread Dirk Eddelbuettel
On 31 May 2023 at 15:18, David Fifield wrote: | Package: r-cran-htmltable | Severity: minor | X-Debbugs-Cc: da...@bamsoftware.com | | The package homepage https://cran.r-project.org/package=htmltable | leads to a 404 error page. The link | https://cran.r-project.org/package=htmlTable works (note

Bug#1036868: mlpack 4.1.0 available

2023-05-28 Thread Dirk Eddelbuettel
Severity: normal Package: mlpack mlpack 4.1.0 came out (relatively quietly) a month ago. I think it should be a fairly simple upgrade over 4.0.1. It would be nice if you could update it. I stuck your 4.0.1 it my launchpad PPA for use on Ubuntu 22.04 which worked fine as usual. It needed pytho

Bug#1036608: gretl: broken syminks: /usr/share/gretl/{doc,examples} -> ../doc/gretl-doc/*

2023-05-23 Thread Dirk Eddelbuettel
On 23 May 2023 at 10:32, Andreas Beckmann wrote: | Package: gretl | Version: 2022c-1 | Severity: normal | User: debian...@lists.debian.org | Usertags: piuparts | | Hi, | | during a test with piuparts I noticed your package ships (or creates) | broken symlinks: | | 0m54.7s ERROR: FAIL: Broken s

Bug#1036308: r-base: R CMD check --as-cran fails for packages with math in help files

2023-05-23 Thread Dirk Eddelbuettel
On 19 May 2023 at 07:08, Johannes Ranke wrote: | Package: r-base | Version: 4.3.0-1 | Severity: normal | | Dirk, | | as recently discussed on the r-pkg-devel list[1], checking a package with | using the --as-cran option fails when using R 4.3.0-1 currently sitting | in unstable. | | Please app

Bug#1035428: Test suite issues due to new upstream version of r-core in unstable (Was: r-cran-shiny: broken symlink: ...)

2023-05-16 Thread Dirk Eddelbuettel
On 16 May 2023 at 20:13, Nilesh Patra wrote: | Uh, no. Maybe you misunderstood my suggestion. The t-p-u way was for Indeed! | r-base can continue to stay where it already is at the moment :) Yep. Dirk -- dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#1035428: Test suite issues due to new upstream version of r-core in unstable (Was: r-cran-shiny: broken symlink: ...)

2023-05-16 Thread Dirk Eddelbuettel
On 16 May 2023 at 19:49, Nilesh Patra wrote: | On Tue, May 16, 2023 at 07:25:15PM +0530, Nilesh Patra wrote: | > I personally prefer "1" over 2 as it is less noise (and effort). | | On second thoughts, I think sending it via testing-proposed-updates | would be a better thing to do, as this case

Bug#1035428: Test suite issues due to new upstream version of r-core in unstable (Was: r-cran-shiny: broken symlink: ...)

2023-05-16 Thread Dirk Eddelbuettel
d to some better | regular expression. Nice catch and suggestion! On 16 May 2023 at 19:27, Nilesh Patra wrote: | On Tue, May 16, 2023 at 08:26:21AM -0500, Dirk Eddelbuettel wrote: | > Note that none of this affects the release. My recommendation is temporarily | > suspend the autopkgtest in

Bug#1035428: Test suite issues due to new upstream version of r-core in unstable (Was: r-cran-shiny: broken symlink: ...)

2023-05-16 Thread Dirk Eddelbuettel
On 16 May 2023 at 15:01, Andreas Tille wrote: | Hi, | | when fixing bug #1035428 I realised test suite issues with | | r-cran-thematic [1] |-> Error in `svglite_(filename, bg, width, height, pointsize, standalone, | always_valid)`: Graphics API version mismatch | | r-cran-treesc

Bug#1036071: libgsl27: please add Breaks: libgsl25 for smoother opgrades from bullseye

2023-05-14 Thread Dirk Eddelbuettel
On 15 May 2023 at 03:15, Andreas Beckmann wrote: | On 15/05/2023 02.58, Dirk Eddelbuettel wrote: | > | Yes thank you -- that sounds sensible. And we would then nag the release | > | team to get this out in the release? | | yes | | > Oh, and to be extra plain: upload to unstable as a

Bug#1036071: libgsl27: please add Breaks: libgsl25 for smoother opgrades from bullseye

2023-05-14 Thread Dirk Eddelbuettel
On 14 May 2023 at 19:50, Dirk Eddelbuettel wrote: | | On 15 May 2023 at 02:21, Andreas Beckmann wrote: | | Package: libgsl27 | | Version: 2.7.1+dfsg-3 | | Severity: serious | | Tags: patch | | User: debian...@lists.debian.org | | Usertags: piuparts | | | | Hi, | | | | libgsl25 from bullseye

Bug#1036071: libgsl27: please add Breaks: libgsl25 for smoother opgrades from bullseye

2023-05-14 Thread Dirk Eddelbuettel
On 15 May 2023 at 02:21, Andreas Beckmann wrote: | Package: libgsl27 | Version: 2.7.1+dfsg-3 | Severity: serious | Tags: patch | User: debian...@lists.debian.org | Usertags: piuparts | | Hi, | | libgsl25 from bullseye and libgsl27 from bookworm are not co-installable | due to their strict depen

Bug#1034683: r-base: new upstream release unintentionally uploaded to unstable

2023-04-22 Thread Dirk Eddelbuettel
Hi Simon, Thanks for the long and thoughtful and detailed reply. Just 'sitting back' will do just fine then. R releases annually in April, the 4.2.* series was just fine. We had an usual event in that R Core upstream asked (a first in ~25 years) to patch 4.2.2, hence the somewhat unusual versi

Bug#1034683: r-base: new upstream release unintentionally uploaded to unstable

2023-04-21 Thread Dirk Eddelbuettel
On 21 April 2023 at 10:51, Dirk Eddelbuettel wrote: | | On 21 April 2023 at 16:23, Simon McVittie wrote: | | Source: r-base | | Version: 4.3.0-1 | | Severity: serious | | Justification: maintainer presumably considers this version to be unsuitable for bookworm | | | | > r-base (4.3.

Bug#1034683: r-base: new upstream release unintentionally uploaded to unstable

2023-04-21 Thread Dirk Eddelbuettel
On 21 April 2023 at 16:23, Simon McVittie wrote: | Source: r-base | Version: 4.3.0-1 | Severity: serious | Justification: maintainer presumably considers this version to be unsuitable for bookworm | | > r-base (4.3.0-1) unstable; urgency=medium | > . | > * New upstream release (into 'experime

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