Bug#967603: ltrsift: depends on deprecated GTK 2

2022-12-04 Thread Andreas Tille
Control: tags -1 upstream Control: forwarded -1 https://github.com/satta/ltrsift/issues/4

Bug#967514: gwyddion: depends on deprecated GTK 2

2022-12-04 Thread Andreas Tille
Control: tags -1 wontfix Hi, according to upstream in a previous bug report[1]: There is no way to port to GTK+3 without breaking backward compatibility. We value backward compatibility. I keep upstream in CC to inform them that while the previous situation was not yet a reason to

Bug#967379: gdpc: depends on deprecated GTK 2

2022-12-04 Thread Andreas Tille
Control: tags -1 wontfix Hi, since this software is orphaned - upstream source code can only be found in webarchive - there is no chance to port this code to GTK 3. In case Debian will drop GTK 2 also this package needs to be droped. Kind regards Andreas. -- http://fam-tille.de

Bug#1023731: BioC Packages are now clean (one exception with RC bug filed) (Was: Bug#1023731: Any idea why debci picks old versions)

2022-12-04 Thread Andreas Tille
Am Sun, Dec 04, 2022 at 12:22:53PM +0100 schrieb Sebastian Ramacher: > No, it's not. If you check the logs from r-bioc-htsfilter for example > (https://ci.debian.net/data/autopkgtest/testing/amd64/r/r-bioc-htsfilter/28944996/log.gz), > you see that some packages have actual regressions: The log

Bug#967252: amide: depends on deprecated GTK 2

2022-12-04 Thread Andreas Tille
Control: tags -1 upstream Control: forwarded -1 https://github.com/ferdymercury/amide/issues/27

Bug#956848: t-coffee: should use "example" blastpgp.pl

2022-12-04 Thread Andreas Tille
Control: severity -1 wishlist The discussion about this bug drains way more developer time than the issue is worth actually. Thus degrading it to severity wishlist. Kind regards Andreas. -- http://fam-tille.de

Bug#901677: amide: Window is too wide and not resizable

2022-12-04 Thread Andreas Tille
Control: tags -1 upstream Control: forwarded -1 https://github.com/ferdymercury/amide/issues/26

Bug#900181: camp: FTBFS on 32bit big endian: check metaclass->function("f4").call(object, camp::Args(1, 4, 15)).to() == 20 has failed

2022-12-04 Thread Andreas Tille
Control: severity -1 wishlist Hi, since the only architectures where this problem persists are not released architectures I'm setting the severity to wishlist. Upstream is in CC to bring some awareness on to this issue but it has no relevance for the Debian release. Kind regards Andreas. --

Bug#891197: Please switch to pcre2

2022-12-04 Thread Andreas Tille
Hi Aaron, it would be great if you could use your upstream contact to convince them to switch to pcre2. Kind regards Andreas. -- http://fam-tille.de

Bug#749783: gdcm: Conflicting declarations of jpeg_memory_mgr may lead to invalid function calls

2022-12-04 Thread Andreas Tille
Hi, when checking old bug reports I'd like to verify whether this issue persists. I admit I do not even understand the problem of this report so I'd like to ask the reporter as well as upstream to provide some input what should be done with this report. Kind regards Andreas. --

Bug#732691: Pressing "alignment or Ctrl+G" only results in a dialog with a cancel button

2022-12-04 Thread Andreas Tille
Control: tags -1 upstream Control: forwarded -1 https://github.com/magnusmanske/gentle-m/issues/2

Bug#671828: xmedcon: Cannot open file with YBR photometric interpretation

2022-12-04 Thread Andreas Tille
Hi Mathieu, could you confirm that this bug persists or whether we can close this bug report. Kind regards, Andreas. -- http://fam-tille.de

Bug#728569: Add PixelMed SCP

2022-12-04 Thread Andreas Tille
Hi Mathieu, I admit I have no idea how to solve this issue. Could you provide some more information or close this bug if the problem does not persist any more? Kind regards Andreas. -- http://fam-tille.de

Bug#617342: 32-bit multiframe image conversion ignores frames

2022-12-04 Thread Andreas Tille
Hi Mathieu, could you confirm that this bug persists or whether we can close this bug report. Kind regards, Andreas. -- http://fam-tille.de

Bug#853113: spades: Fails to build with unhelpful error message in a "low" memory machine

2022-12-04 Thread Andreas Tille
Hi Santiago, I admit we did not put any effort on this bug report. Since this bug is now five years old and there are several upstreams versions released I wonder whether this problem persists or whether we can close this bug report. Kind regards Andreas. -- http://fam-tille.de

Bug#1010001: libbiosig3: incorrect sample rate when reading IBW files

2022-12-03 Thread Andreas Tille
Control: tags -1 wontfix As mentioned in my previous response we can not fix issues in stable. Leaving this bug open anyway to document the issue. There was no request for an upload to backports yet. Kind regards, Andreas. -- http://fam-tille.de

Bug#1023731: BioC Packages are now clean (one exception with RC bug filed) (Was: Bug#1023731: Any idea why debci picks old versions)

2022-12-03 Thread Andreas Tille
Am Sat, Dec 03, 2022 at 10:53:58PM +0100 schrieb Sebastian Ramacher: > And there are many more. r-bioc-biocparallel is another one. This smells > like many insufficient dependencies. Sorry, this all seems to be the same britney failure Paul was reporting. The tests are all against the versions in

Bug#1023731: BioC Packages are now clean (one exception with RC bug filed) (Was: Bug#1023731: Any idea why debci picks old versions)

2022-12-03 Thread Andreas Tille
Hi Paul, Am Sat, Dec 03, 2022 at 09:34:09PM +0100 schrieb Paul Gevers: > On 29-11-2022 10:26, Andreas Tille wrote: > > Now there is only one remaining one which is a real > > problem which I have reported upstream (see bug #1025045). If > > r-bioc-structuralvariantannota

Bug#1025305: RM: limereg -- ROM; Unmaintained upstream + RC buggy

2022-12-02 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: 922...@bugs.debian.org Hi, as discussed in bug #922584 its not worth to keep limereg in Debian. Its not maintained upstream and FTBFS against opencv 4. So please remove this package from Debian. Kind regards Andreas.

Bug#1025302: RM: limereg -- ROM; Unmaintained upstream + RC buggy

2022-12-02 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: 922...@bugs.debian.org Hi, as discussed in bug #922584 its not worth to keep limereg in Debian. Its not maintained upstream and FTBFS against opencv 4. So please remove this package from Debian. Kind regards Andreas.

Bug#1025301: RM: limereg -- ROM; Unmaintained upstream + RC buggy

2022-12-02 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: 922...@bugs.debian.org Hi, as discussed in bug #922584 its not worth to keep limereg in Debian. Its not maintained upstream and FTBFS against opencv 4. So please remove this package from Debian. Kind regards Andreas.

Bug#922584: [Help] Re: FTBFS against opencv 4.0.1 (exp)

2022-12-02 Thread Andreas Tille
Am Thu, Dec 01, 2022 at 11:39:47PM +0200 schrieb Adrian Bunk: > [1] contains a patch from a Debian porter, but considering the facts > that limereg already missed the current Debian stable bullseye and the > comment from upstream (who is also the original Debian packager) in [2], > removal from

Bug#1025260: RM: wtdbg2 [arm64 armel armhf i386 mips64el mipsel ppc64el s390x alpha hppa hurd-i386 ia64 kfreebsd-amd64 kfreebsd-i386 m68k powerpc ppc64 riscv64 sh4 sparc64 x32] -- ROM; Several archite

2022-12-01 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: 1025...@bugs.debian.org Hi ftpmasters, according to bug #1025249 this package shows flaky autopkgtests for several architectures on other the tests do not run at all. Thus it seems to be the best solution to restrict the architectures to

Bug#1025249: wtdbg2: flaky autopkgtest: Segmentation fault

2022-12-01 Thread Andreas Tille
Hi Paul, Am Thu, Dec 01, 2022 at 01:54:09PM +0100 schrieb Paul Gevers: > https://ci.debian.net/data/autopkgtest/stable/ppc64el/w/wtdbg2/28644876/log.gz > > [Sat Nov 26 06:40:02 2022] masked 154 repeat-like nodes by local subgraph > analysis > [Sat Nov 26 06:40:02 2022] generating edges >

Bug#1025226: RM: libnthash-dev [armel armhf i386 mipsel s390x] -- ROM; Does not build on 32 bit architectures any more

2022-12-01 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: 1024...@bugs.debian.org Hi, since libnthash-dev is not available any more for 32 bit architectures and s390x the existing binary packages need to be removed to enable testing migration of the dependencies of this package. Kind regards and

Bug#1025225: RM: libnthash-dev [armel armhf i386 mipsel s390x] -- ROM; Does not build on 32 bit architectures any more

2022-12-01 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: 1024...@bugs.debian.org Hi, since libnthash-dev is not available any more for 32 bit architectures and s390x the existing binary packages need to be removed to enable testing migration of the dependencies of this package. Kind regards and

Bug#1023738: orthanc-dicomweb FTBFS with node-axios 1.1

2022-12-01 Thread Andreas Tille
Hi Sébastien, Am Thu, Dec 01, 2022 at 08:30:04AM +0100 schrieb Sébastien Jodogne: > > I admit I would have loved if you would have made some noise about this > > conference on the Debian Med list. I hope you had a successful > > conference. > > The conference was great success, and I advertised

Bug#1023738: orthanc-dicomweb FTBFS with node-axios 1.1

2022-11-30 Thread Andreas Tille
Hi Sébastien, On Thu, 24 Nov 2022 17:37:36 you wrote > Sorry for not answering earlier, but I'm still in the process of > finalizing the GNU Health / Orthanc conference, and I'm extremely busy > with my academic activities. I admit I would have loved if you would have made some noise about

Bug#1024155: Fixed in Git [Re: libngs-c++-dev: missing Breaks+Replaces: libncbi-vdb-dev (<< 3), libngs-sdk-dev (<< 3)]

2022-11-30 Thread Andreas Tille
Control: tags -1 pending Hi Aaron, I have fixed this issue in Git. I'm wondering about the status of the ncbi-vdb transition[1]. Isn't it time to upload the packages to unstable now? Just let me know if you need any help. Kind regards Andreas. PS: Do you have any information whether it

Bug#1025203: r-cran-glmmtmb: FTBFS on mipsel

2022-11-30 Thread Andreas Tille
Hi, Am Wed, Nov 30, 2022 at 10:08:14PM +0100 schrieb Paul Gevers: > Source: r-cran-glmmtmb > Version: 1.1.4+dfsg-3 > Severity: serious > Tags: ftbfs > Justification: ftbfs > > Dear maintainer(s), > > Your package failed to build from source on mipsel, where it built > successfully in the past.

Bug#1025177: ITP: conda-package-streaming -- fetch conda metadata

2022-11-30 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: conda-package-streaming -- fetch conda metadata Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: conda-package-streaming Version : 0.7.0 Upstream Author : Anaconda, Inc. * URL : https://github.com

Bug#1025170: RM: gatb-core [i386 s390x] -- ROM; Not supported for 32 bit any more

2022-11-30 Thread Andreas Tille
Package: ftp.debian.org Severity: normal Hi, the architectures i386 and s390x were excluded in the latest uploads. https://tracker.debian.org/gatb-core lists the missing builds as migration excuse. If this should be a blocker, please remove these packages from the archive. Thanks a lot for

Bug#1025139: RM: libthread-pool [armel armhf i386 mipsel hppa hurd-i386 m68k powerpc sh4 x32] -- ROM; Does not build on 32 bit architectures any more

2022-11-29 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: 1025...@bugs.debian.org Hi, libthread-pool is not supported for 32 bit architectures any more. Please remove the package for the said architectures. Kind regards and thanks a lot for your work as ftpmaster Andreas.

Bug#1024890: ntcard - build-dependencies unsatisfiable on 32-bit.

2022-11-29 Thread Andreas Tille
Hi Peter, Am Sun, Nov 27, 2022 at 02:30:15PM + schrieb Peter Michael Green: > Package: ntcard > Version: 1.2.2+dfsg-4 > Severity: serious > > ntcard build-depends on libnthash-dev which is no longer available on 32-bit > architectures. > > There are in general 3 potential soloutions for

Bug#1024821: q2templates: FTBFS/autopkgtest fail with pandas 1.5

2022-11-29 Thread Andreas Tille
Control: tags -1 upstream Control: forwarded -1 https://github.com/qiime2/q2templates/issues/50 Hi Rebecca, thanks again for working on pandas. Since I consider it not sensible to delay the pandas transition due to this bug I could imagine to exclude (or better fix ourselves if possible) that

Bug#1024820: emperor: FTBFS/autopkgtest fail with pandas 1.5

2022-11-29 Thread Andreas Tille
Control: tags -1 upstream Control: forwarded -1 https://github.com/biocore/emperor/issues/810 Hi Rebecca, thanks a lot for working on the pandas migration. I think, if we do not get a timely response from upstream and do not have any idea to fix this single test failure ourselves, we could

Bug#1025074: ITP: python-throttler -- easy throttling with asyncio support for Python3

2022-11-29 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: python-throttler -- easy throttling with asyncio support for Python3 Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: python-throttler Version : 1.2.2 Upstream Author : Ramzan Bekbulatov * URL

Bug#1025070: ITP: python-srsly -- modern high-performance serialization utilities for Python3

2022-11-29 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: python-srsly -- modern high-performance serialization utilities for Python3 Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: python-srsly Version : 2.4.5.dev1 Upstream Author : ExplosionAI UG * URL

Bug#1023731: BioC Packages are now clean (one exception with RC bug filed) (Was: Bug#1023731: Any idea why debci picks old versions)

2022-11-29 Thread Andreas Tille
Hi again, Am Mon, Nov 28, 2022 at 09:32:13PM +0100 schrieb Andreas Tille: > So you want to say, the fact that the current debci results that are > listed on the r-bioc-biocgenerics page are based on packages that are > replaced in unstable and the current packages that are fixed are not

Bug#1025045: Test failure in StructuralVariantAnnotation

2022-11-28 Thread Andreas Tille
Control: tags -1 upstream Control: forwarded -1 Daniel Cameron Hi Daniel, when upgrading StructuralVariantAnnotation to its latest version (1.13.0) I noticed that some of its tests are failing. I have reported this to the Debian bug tracking system[1]. The errors are starting with [ FAIL 30

Bug#1025045: r-bioc-structuralvariantannotation: Test failures in autopkgtest

2022-11-28 Thread Andreas Tille
Source: r-bioc-structuralvariantannotation Version: 1.13.0+ds-1 Severity: normal X-Debbugs-Cc: 1023...@bugs.debian.org Hi, the package fails its autopkgtest. The errors starts with: [ FAIL 30 | WARN 4 | SKIP 0 | PASS 85 ] ══ Failed tests

Bug#1023731: Any idea why debci picks old versions (Was: Bug#1023731: BioC Transition blocked by new dependencies)

2022-11-28 Thread Andreas Tille
Hi Paul, Am Mon, Nov 28, 2022 at 08:23:12PM +0100 schrieb Paul Gevers: > > I'm constantly checking the tracker page of r-bioc-biocgenerics[1] to > > follow the transition status. I realised that debci picks old, not yet > > fixed package versions like: > > > >

Bug#1024994: dh-r: Please generate Test-Depends from Suggested packages

2022-11-28 Thread Andreas Tille
Package: dh-r Version: 20210816 Severity: wishlist Hi, it would be great if the Depends inside debian/tests/control could be auto-generated / auto-updated from the Suggests field in DESCRIPTION. Kind regards Andreas. -- System Information: Debian Release: bookworm/sid APT prefers testing

Bug#1023731: Any idea why debci picks old versions (Was: Bug#1023731: BioC Transition blocked by new dependencies)

2022-11-28 Thread Andreas Tille
Hi, I'm constantly checking the tracker page of r-bioc-biocgenerics[1] to follow the transition status. I realised that debci picks old, not yet fixed package versions like: r-bioc-biocfilecache/2.4.0+dfsg-1 while 2.4.0+dfsg-2 is in unstable r-bioc-biocsingular/1.12.0+ds-1 while

Bug#1024012: r-cran-xts: autopkgtest regression on i386

2022-11-28 Thread Andreas Tille
Control: tags -1 upstream Control: forwarded -1 https://github.com/joshuaulrich/xts/issues/384

Bug#1024567: r-bioc-biocbaseutils_1.0.0-1_amd64.changes REJECTED

2022-11-28 Thread Andreas Tille
Hi Thorsten > please mention all files licensed under the MIT license and provide > unminified files. I have removed the affected documentation in the new upload. Thanks for the speedy checking to support the BioConductor migration Andreas. -- http://fam-tille.de

Bug#1024565: r-bioc-dss_2.46.0-1_amd64.changes REJECTED

2022-11-27 Thread Andreas Tille
Hi Thorsten, Am Sun, Nov 27, 2022 at 07:00:10PM + schrieb Thorsten Alteholz: > please mention all files licensed under the MIT license and provide > unminified files. > (the reason for the override does not apply to all lintian warnings) I have removed the affected files in a new upload.

Bug#1024563: r-bioc-bsseq_1.34.0-1_amd64.changes REJECTED

2022-11-27 Thread Andreas Tille
Hi Thorsten, Am Sun, Nov 27, 2022 at 07:00:10PM + schrieb Thorsten Alteholz: > please mention all files licensed under the MIT license and provide > unminified files. > (the reason for the override does not apply to all lintian warnings) I've removed the affected files from the upstream

Bug#1024827: RM: gatb-core [i386 armel armhf s390x] -- ROM; Not supported for some architectures

2022-11-25 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: 1023...@bugs.debian.org Hi, it turned out that we have to restrict the number of architectures for this package. Thus please remove the other architectures from the archive. Thanks a lot for your work as ftpmaster Andreas.

Bug#1024826: ITP: python-rich-click -- creating beautiful command line interfaces for Python3

2022-11-25 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: python-rich-click -- creating beautiful command line interfaces for Python3 Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: python-rich-click Version : 1.5.2 Upstream Author : Phil Ewels * URL

Bug#1024795: python3-llvmlite: Depends from non-existing packages libllvm11 and llvm-11

2022-11-24 Thread Andreas Tille
Package: python3-llvmlite Severity: grave Justification: renders package unusable Hi, $ sudo apt install python3-llvmlite Reading package lists... Done Building dependency tree... Done Reading state information... Done Some packages could not be installed. This may mean that you have requested

Bug#1023731: BioC Transition blocked by new dependencies

2022-11-24 Thread Andreas Tille
Am Thu, Nov 24, 2022 at 08:46:31AM +0100 schrieb Sebastian Ramacher: > > >r-bioc-bitseq - should be removed from testing immediately bug just > > > filed) Bug #1024661 > > >r-bioc-multiassayexperiment #1024748 > > >r-bioc-demixt (bug #1024597 was just filed) > > >r-bioc-scater

Bug#1024755: r-bioc-bluster: Autopkgtest fails since r-bioc-scater is not yet updated to latest version matching BioC 3.16

2022-11-24 Thread Andreas Tille
Source: r-bioc-bluster Version: 1.8.0+dfsg-1 Severity: critical Justification: breaks unrelated software X-Debbugs-Cc: 1023...@bugs.debian.org Since autopkgtest of r-bioc-bluster depends from r-bioc-scater which needs a new dependency r-cran-ggrastr (ITP #1024582) it is blocking the BioC 3.16

Bug#1024754: r-bioc-mofa: Should not block BioC 3.16 transition

2022-11-24 Thread Andreas Tille
Source: r-bioc-mofa Version: 1.6.1+dfsg-7 Severity: critical Tags: ftbfs Justification: breaks unrelated software X-Debbugs-Cc: 1023...@bugs.debian.org Since r-bioc-mofa depends r-bioc-multiassayexperiment with RC bug #1024748 and thus it is blocking the BioC 3.16 transition[1] for an

Bug#1024751: r-bioc-scater: Should not block BioC 3.16 transition

2022-11-24 Thread Andreas Tille
Source: r-bioc-scater Version: 1.24.0+ds-1 Severity: critical Tags: ftbfs Justification: breaks unrelated software X-Debbugs-Cc: 1023...@bugs.debian.org Since r-bioc-scater needs a new dependency r-cran-ggrastr (ITP #1024582) it is blocking the BioC 3.16 transition[1] for an undetermined time.

Bug#1024748: r-bioc-multiassayexperiment: Should not block BioC 3.16 transition

2022-11-24 Thread Andreas Tille
Source: r-bioc-multiassayexperiment Version: 1.22.0+dfsg-1 Severity: critical Tags: ftbfs Justification: breaks unrelated software X-Debbugs-Cc: 1023...@bugs.debian.org Since r-bioc-multiassayexperiment needs a new dependency r-bioc-biocbaseutils (ITP #1024567) it is blocking the BioC 3.16

Bug#1009118: Bug#1009118: python3-biopython: incompatible with muscle >= 5

2022-11-24 Thread Andreas Tille
Hi Charles, thank you for the hint. Am Thu, Nov 24, 2022 at 10:28:43AM +0900 schrieb Charles Plessy: > I have read the Muscle5 paper and it is a totally different program than > Muscle3. > > https://pubmed.ncbi.nlm.nih.gov/36379955/ > > Reintroducing muscle3 as a separate package might be

Bug#1024746: ITP: muscle3 -- multiple alignment program of protein sequences

2022-11-24 Thread Andreas Tille
Package: wnpp Severity: wishlist X-Debbugs-Cc: debian-med Subject: ITP: muscle3 -- multiple alignment program of protein sequences Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: muscle3 Version : 3.8.1551 Upstream Author : Copyright: © Robert C. Edgar &quo

Bug#1023731: BioC Transition blocked by new dependencies

2022-11-23 Thread Andreas Tille
Am Tue, Nov 22, 2022 at 08:54:13PM +0100 schrieb Andreas Tille: > If I understood that BioConductor packages should not block other > transitions. I've just pinged ftpmaster on IRC to check packages > r-bioc-bsseq, r-bioc-dss, r-bioc-biocbaseutils and r-cran-ggrastr. > The follow

Bug#1022307: Bug#1022570: status on t_coffee causing biopython ftbfs

2022-11-23 Thread Andreas Tille
Hi Étienne, Am Tue, Nov 22, 2022 at 11:54:48PM +0100 schrieb Étienne Mollier: > Hi, mostly retitling the open entry against biopython for the > sake of clarity, and also pinging both bugs to reset auto- > removal counters. Thanks for doing so (I was about to do so as well). > We don't have much

Bug#1023731: BioC Transition blocked by new dependencies

2022-11-22 Thread Andreas Tille
Control: block -1 by 1024582 Am Mon, Nov 21, 2022 at 07:16:14PM +0100 schrieb Sebastian Ramacher: > > However, to make us understand your suggestion better: Is there any > > drawback on your side if the transition of a closed set of packages if > > the transition is delayed by new processing? >

Bug#1024661: r-bioc-bitseq: orphaned upstream and blocking BioC 3.16 transition

2022-11-22 Thread Andreas Tille
Source: r-bioc-bitseq Version: 1.40.0+dfsg-1 Severity: critical Tags: ftbfs Justification: breaks unrelated software X-Debbugs-Cc: 1023...@bugs.debian.org, debia...@lists.debian.org As per upstream https://lists.debian.org/debian-r/2022/11/msg00058.html r-bioc-bitseq is not supported any

Bug#1024580: r-bioc-affxparser: FTBFS on hppa - cannot handle R_PARISC_PCREL17F

2022-11-21 Thread Andreas Tille
Hi John, Am Mon, Nov 21, 2022 at 06:27:59PM + schrieb John David Anglin: > Source: r-bioc-affxparser > Version: 1.70.0-1 > Severity: normal > Tags: ftbfs patch > ... > Index: r-bioc-affxparser-1.68.1/src/Makevars > === > ---

Bug#1024582: ITP: r-cran-ggrastr -- Bioconductor rasterize layers for 'ggplot2'

2022-11-21 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: r-cran-ggrastr -- Bioconductor rasterize layers for 'ggplot2' Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: r-cran-ggrastr Version : 1.0.1 Upstream Author : Viktor Petukhov, * URL : https://cran.r

Bug#1023889: libimage-exiftool-perl: exiftool ignores GPSLongitudeRef option

2022-11-21 Thread Andreas Tille
Hi Gregor, Am Mon, Nov 21, 2022 at 06:26:39PM +0100 schrieb gregor herrmann: > On Wed, 16 Nov 2022 11:14:11 -0500, Phil Harvey wrote: > > > Yes, I considered your suggestions. Adding a warning wasn't feasible. I > > actually did update the documentation (the only place this is really > >

Bug#1023731: BioC Transition blocked by new dependencies

2022-11-21 Thread Andreas Tille
Hi Adrian and others, Am Mon, Nov 21, 2022 at 06:33:52PM +0200 schrieb Adrian Bunk: > > This is really hard to do, thought. The new packages are needing those > > packages from the transition. I actually injected two packages from > > higher levels manually to be able to build one of the new

Bug#1023731: BioC Transition blocked by new dependencies

2022-11-21 Thread Andreas Tille
Am Mon, Nov 21, 2022 at 04:49:43PM +0100 schrieb Sebastiaan Couwenberg: > > This is really hard to do, thought. The new packages are needing those > > packages from the transition. I actually injected two packages from > > higher levels manually to be able to build one of the new packages. So >

Bug#1023731: BioC Transition blocked by new dependencies

2022-11-21 Thread Andreas Tille
Hi Sebastian, Am Mon, Nov 21, 2022 at 03:05:26PM +0100 schrieb Sebastian Ramacher: > On 2022-11-21 15:02:16 +0100, Andreas Tille wrote: > > Control: block -1 by 1024563 > > Control: block -1 by 1024565 > > Control: block -1 by 1024567 > > > > Some of t

Bug#1023731: BioC Transition blocked by new dependencies

2022-11-21 Thread Andreas Tille
Control: block -1 by 1024563 Control: block -1 by 1024565 Control: block -1 by 1024567 Some of the BioConductor packages need new dependencies. I have pushed these to new queue and set the ITP bugs as blocker. Kind regards Andreas. -- http://fam-tille.de

Bug#1024567: ITP: r-bioc-biocbaseutils -- General utility functions for developing Bioconductor packages

2022-11-21 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: r-bioc-biocbaseutils -- General utility functions for developing Bioconductor packages Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: r-bioc-biocbaseutils Version : 1.0.0 Upstream Author : Marcel Ramos, * URL

Bug#1024565: ITP: r-bioc-dss -- Bioconductor dispersion shrinkage for sequencing data

2022-11-21 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: r-bioc-dss -- Bioconductor dispersion shrinkage for sequencing data Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: r-bioc-dss Version : 2.46.0 Upstream Author : Hao Wu, Hao Feng * URL : https

Bug#1024563: ITP: r-bioc-bsseq -- Bioconductor analyze, manage and store bisulfite sequencing data

2022-11-21 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: r-bioc-bsseq -- Bioconductor analyze, manage and store bisulfite sequencing data Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: r-bioc-bsseq Version : 1.34.0 Upstream Author : Kasper Daniel Hansen, * URL

Bug#1022942: xterm: cannot load font "-*-terminus-*-*-*-32-*-*-*-*-*-*-*"

2022-11-16 Thread Andreas Tille
Am Wed, Nov 16, 2022 at 08:23:58PM -0500 schrieb Thomas Dickey: > never mind - I see the problem now (was thinking that it occurred when > the font _was_ installed). Will upload #376 in the early morning. Cool. Thanks a lot Andreas. -- http://fam-tille.de

Bug#996921: Please help fixing build time test (Was: Bug#996921: RFA: unifrac)

2022-11-16 Thread Andreas Tille
Am Wed, Nov 16, 2022 at 08:25:29PM +0100 schrieb Étienne Mollier: > ModuleNotFoundError: No module named 'bp._bp' > > looks to be caused by python3-iow not being built for python3.11 > yet: > > $ python3.10 -c 'import bp' ; echo $? > 0 > > $ python3.11 -c 'import bp' ;

Bug#1023807: seqan-needle: /usr/bin/needle is already shipped by emboss

2022-11-16 Thread Andreas Tille
Am Wed, Nov 16, 2022 at 04:39:46PM +0100 schrieb Michael Crusoe: > They are different programs, with different interfaces, alas. Thanks for the clarification. > So a workaround will be needed: probably we should rename the binary > `seqan-needle` and provide a directory with a regular `needle`

Bug#1023889: libimage-exiftool-perl: exiftool ignores GPSLongitudeRef option

2022-11-16 Thread Andreas Tille
Am Wed, Nov 16, 2022 at 10:06:53AM -0500 schrieb Phil Harvey: > I have spent way too much time working/thinking about this over the last 2 > days. I think the solution is to (unfortunately) disable the new feature of > 12.44 unless the Composite group is specified explicitly, eg: > > exiftool

Bug#1023807: seqan-needle: /usr/bin/needle is already shipped by emboss

2022-11-16 Thread Andreas Tille
Hi Michael, Am Thu, Nov 10, 2022 at 01:34:32PM +0100 schrieb Andreas Beckmann: > Package: seqan-needle > Version: 1.0.1.0.0.git.3011926+ds-1 > Severity: serious > > There is already a (unrelated?) /usr/bin/needle binary in the Debian > archive, provided by the emboss package. Do you think this

Bug#996921: Please help fixing build time test (Was: Bug#996921: RFA: unifrac)

2022-11-16 Thread Andreas Tille
Hi, Am Thu, Oct 21, 2021 at 01:25:52AM +0530 schrieb Nilesh Patra: > I currently have no interest in maintaining unifrac, which > is a bit cumbersome to maintain (the new update being an example) > and it doesn't motivate me enough to keep maintaining it. > > Should you feel motivated, feel free

Bug#1024170: mcl breaks roary autopkgtest: different output

2022-11-16 Thread Andreas Tille
I just noticed you've found the same fix in Git ... Am Wed, Nov 16, 2022 at 02:00:49PM +0100 schrieb Andreas Tille: > Control: tags -1 pending > > Am Wed, Nov 16, 2022 at 05:35:12PM +0530 schrieb Nilesh Patra: > > > $ debdiff mcl_14-137+ds-9.dsc mcl_22-282+ds-1.dsc 2

Bug#1024170: mcl breaks roary autopkgtest: different output

2022-11-16 Thread Andreas Tille
Control: tags -1 pending Am Wed, Nov 16, 2022 at 05:35:12PM +0530 schrieb Nilesh Patra: > > $ debdiff mcl_14-137+ds-9.dsc mcl_22-282+ds-1.dsc 2>/dev/null | wc -l > > 51040 > > > > That's quite a lot of lines. Something definitely changed. > > And I found out what that is. > > $ git checkout

Bug#1024251: ITP: r-cran-clock -- GNU R date-time types and tools

2022-11-16 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: r-cran-clock -- GNU R date-time types and tools Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: r-cran-clock Version : 0.6.1 Upstream Author : Davis Vaughan, RStudio * URL : https://cran.r

Bug#1024170: mcl breaks roary autopkgtest: different output

2022-11-16 Thread Andreas Tille
Hi, Am Tue, Nov 15, 2022 at 09:16:53PM +0100 schrieb Paul Gevers: > 2022/11/15 09:16:56 Cannot find the mcxdeblast executable, please ensure its > in your PATH This is strange. I've changed some unrelated things inside the autopkgtest in git. This resolves the issue above and the expected

Bug#1022942: xterm: cannot load font "-*-terminus-*-*-*-32-*-*-*-*-*-*-*"

2022-11-16 Thread Andreas Tille
Control: severity -1 minor Hi Thomas, at first thanks a lot for your patience. Am Tue, Nov 15, 2022 at 08:10:18PM -0500 schrieb Thomas Dickey: > On Tue, Nov 15, 2022 at 09:15:43AM +0100, Andreas Tille wrote: > > Hi again, > > > > I need to admit that the issue "vanish

Bug#1024172: ITP: r-cran-spatstat.model -- GNU R parametric statistical modelling for the 'spatstat' family

2022-11-15 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: r-cran-spatstat.model -- GNU R parametric statistical modelling for the 'spatstat' family Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: r-cran-spatstat.model Version : 3.0 Upstream Author : Adrian Baddeley

Bug#1024165: ITP: r-cran-spatstat.explore -- GNU R exploratory data analysis for the 'spatstat' family

2022-11-15 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: r-cran-spatstat.explore -- GNU R exploratory data analysis for the 'spatstat' family Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: r-cran-spatstat.explore Version : 3.0 Upstream Author : Adrian Baddeley

Bug#1022942: xterm: cannot load font "-*-terminus-*-*-*-32-*-*-*-*-*-*-*"

2022-11-15 Thread Andreas Tille
Hi again, I need to admit that the issue "vanished" on my workhorse laptop which is nice on one hand but having an explanation would be even nicer. ;-) I've now tried the other laptop with the same problem: $ dpkg --get-selections | grep terminus fonts-terminus

Bug#1023889: libimage-exiftool-perl: exiftool ignores GPSLongitudeRef option

2022-11-14 Thread Andreas Tille
Hi Phil, Am Sun, Nov 13, 2022 at 07:30:42AM -0500 schrieb Phil Harvey: > It is not as simple as you are imagining. Add the -v2 option to see what you > are actually writing. There are various types of GPS tags and your command > isn't specific about which one(s) to write. Well, admittedly

Bug#1022942: xterm: cannot load font "-*-terminus-*-*-*-32-*-*-*-*-*-*-*"

2022-11-14 Thread Andreas Tille
Am Mon, Nov 14, 2022 at 04:27:30AM -0500 schrieb Thomas Dickey: > > Since xterm is crashing before this does not report anything > > interesting. > > hmm - it's not showing much. > > What does xfd do with that pattern? (using single quotes): > > xfd -fn '-*-terminus-*-*-*-32-*-*-*-*-*-*-*' >

Bug#1022942: xterm: cannot load font "-*-terminus-*-*-*-32-*-*-*-*-*-*-*"

2022-11-14 Thread Andreas Tille
Am Sun, Nov 13, 2022 at 08:33:09PM -0500 schrieb Thomas Dickey: > > LANGUAGE= > > LC_CTYPE="de_DE.UTF-8" > > LC_NUMERIC="de_DE.UTF-8" > > LC_TIME="de_DE.UTF-8" > > LC_COLLATE="de_DE.UTF-8" > > LC_MONETARY="de_DE.UTF-8" > > LC_MESSAGES="de_DE.UTF-8" > > LC_PAPER="de_DE.UTF-8" > >

Bug#1023889: libimage-exiftool-perl: exiftool ignores GPSLongitudeRef option

2022-11-12 Thread Andreas Tille
Am Sat, Nov 12, 2022 at 08:38:44PM -0500 schrieb Phil Harvey: > > On Nov 12, 2022, at 2:55 PM, Andreas Tille wrote: > > in general I think the need to force a certain sequence is a misfeature > > that will trick several old users of exiftools. > > The order of assignmen

Bug#1023889: libimage-exiftool-perl: exiftool ignores GPSLongitudeRef option

2022-11-12 Thread Andreas Tille
Hi Phil, thanks a lot for the quick and helpful response. Am Sat, Nov 12, 2022 at 09:12:02AM -0500 schrieb Phil Harvey: > > July 21, 2022 - Version 12.44 > - Made Composite GPSLatitude and GPSLongitude writable for setting GPS > coordinates and reference directions with one assignment

Bug#1022942: xterm: cannot load font "-*-terminus-*-*-*-32-*-*-*-*-*-*-*"

2022-11-12 Thread Andreas Tille
Am Sun, Nov 06, 2022 at 07:55:33PM -0500 schrieb Thomas Dickey: > On Tue, Nov 01, 2022 at 09:23:55AM +0100, Andreas Tille wrote: > > Am Sun, Oct 30, 2022 at 04:53:24PM -0400 schrieb Thomas Dickey: > > > > > $ grep font /etc/X11/Xresources/xterm | grep -v ^! > > >

Bug#1023889: libimage-exiftool-perl: exiftool ignores GPSLongitudeRef option

2022-11-11 Thread Andreas Tille
Package: libimage-exiftool-perl Version: 12.49+dfsg-1 Severity: important Hi, since some time I'm tagging my scans from analog images with geoinformation by using scripts calling exiftool. Here is an example line for one of my images: exiftool -overwrite_original -quiet -GPSLatitudeRef='N'

Bug#1023399: Bug#1023401: src:python-biopython: unsatisfied build dependency in testing: python3-rdflib

2022-11-04 Thread Andreas Tille
Hi, bringing this issue up to the release team. Am Thu, Nov 03, 2022 at 09:04:50PM +0100 schrieb Paul Gevers: > > On 03-11-2022 18:03, Andreas Tille wrote: > > its all about the fact that rdflib is broken and removed from testing. > > We are nagging upstream constantly[1] with

Bug#1023400: Bug#1023401: src:python-biopython: unsatisfied build dependency in testing: python3-rdflib

2022-11-03 Thread Andreas Tille
Control: block -1 by 1012482 Control: tags -1 upstream Control: forwarded -1 https://github.com/RDFLib/rdflib/issues/1844 Hi Paul, its all about the fact that rdflib is broken and removed from testing. We are nagging upstream constantly[1] with no success so far. This issue creates noise about

Bug#1023402: ITP: python-prefixed -- alternative implementation of the Python3 built-in float

2022-11-03 Thread Andreas Tille
Package: wnpp Severity: wishlist Subject: ITP: python-prefixed -- alternative implementation of the Python3 built-in float Package: wnpp Owner: Andreas Tille Severity: wishlist * Package name: python-prefixed Version : 0.4.1 Upstream Author : Avram Lubkin * URL

Bug#1023389: RM: simpleitk -- ROM; Has RC bugs but no active maintainer

2022-11-03 Thread Andreas Tille
Am Thu, Nov 03, 2022 at 11:40:37AM +0100 schrieb Ghislain Vaillant: > I second Andreas' assessment. This package should be removed given my lack > of time to maintain it anymore. Thanks a lot for confirming Andreas. -- http://fam-tille.de

Bug#1023390: RM: nifti2dicom -- ROM; Depends from prerequistes that will be removed soon, not maintained upstream any more

2022-11-03 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: debian-...@lists.debian.org, "Daniele E. Domenichelli" Hi, this package depends from insighttoolkit4 as well as vtk7 which will be removed both. The issue has been reported upstream[1] but there is no response yet. Since the only

Bug#1023389: RM: simpleitk -- ROM; Has RC bugs but no active maintainer

2022-11-03 Thread Andreas Tille
Package: ftp.debian.org Severity: normal X-Debbugs-Cc: debian-...@lists.debian.org, Ghislain Antony Vaillant Hi, it seems we have to face reality: Due to RC bugs this package has not migrated to testing for 1373 days and the only current uploader of the package inside the Debian Med team does

Bug#1023385: O: libquazip -- C++ wrapper for ZIP/UNZIP (documentation)

2022-11-03 Thread Andreas Tille
Package: wnpp Severity: normal X-Debbugs-Cc: Ben Westover , Nilesh Patra , Stefan Ahlers Control: affects -1 src:libquazip I intend to orphan the libquazip package. The package description is: QuaZIP is a simple C++ wrapper over Gilles Vollant's ZIP/UNZIP package that can be used to access

<    4   5   6   7   8   9   10   11   12   13   >