Bug#1061344: User input needed: Stop supporting 32 bit architectures with emboss (Was: emboss-lib: identified for time_t transition but no ABI in shlibs)

Hi Andreas, I agree that we can remove EMBOSS in all 32-bit platforms. I think that a large fraction of the scientific field has no appetite to do any extra volunteer work to such as accepting our patches to support scientific computations on 32-bit systems in 15 years... Have a nice day,

Bug#1041556: [R-pkg-team] Bug#1041556: What is the architecture name in R what we call armel/armhf

Le Thu, Aug 17, 2023 at 07:52:35AM +0200, Andreas Tille a écrit : > > arch <- R.version$arch > identical(arch, "i386") || identical(arch, "i686") || identical(arch, > "armel") || identical(arch, "armhf") Hi Andreas, how about: system("dpkg-architecture -qDEB_BUILD_ARCH", intern=TRUE)

Bug#1042776: [R-pkg-team] Bug#1042776: Bug#1042776: r-bioc-deseq: still depends on obsolete r-api-bioc-3.16

Le Tue, Aug 01, 2023 at 09:29:59AM +0900, Charles Plessy a écrit : > > the DESeq Bioconductor package was removed from the 3.17 release > upstream. I think that we can remove it from unstable and testing too. > > I will fill a removal later today. Actually it was removed

Bug#1042776: marked as pending in r-bioc-deseq

/bad370412269ea6b7543b3f76d238f1765e3affd r-bioc-deseq (1.39.0-12) unstable; urgency=medium * Team upload. * Update patch to rebuild for BioC API 3.17 (Closes: #1042776) -- Charles Plessy Tue, 01 Aug 2023 11:41:09 +0900

Bug#1042776: [R-pkg-team] Bug#1042776: r-bioc-deseq: still depends on obsolete r-api-bioc-3.16

7 release upstream. I think that we can remove it from unstable and testing too. I will fill a removal later today. Have a nice day, Charles -- Charles Plessy Nagahama, Yomitan, Okinawa, Japan Debian Med packaging team http://www.debian.org/devel/debian-med Too

Bug#1022307: [Debian-med-packaging] Bug#1022307: status on t_coffee causing biopython ftbfs

ersion may build fine, and let biophython pass its tests, we do not know if t_coffee produces sound results on these architectures. Unless we know or hear from an ARM user, I would recommend to play safe and only distribute it on amd64 for this release. Have a nice day

Bug#1023230: [Debian-med-packaging] Bug#1023230: t-coffee breaks libbio-tools-run-alignment-tcoffee-perl autopkgtest: test times out after 2:47 hours

ink that t-coffee never worked on ARM. It built, but never worked. The simplest would be to distribute it only on amd64. See https://bugs.debian.org/631249 Have a nice day, Charles -- Charles Plessy Nagahama, Yomitan, Okinawa, Japan Debian Med packaging team http

Bug#946850: [Debian-med-packaging] Bug#946850: last-align ftbfs on non-x86 architectures

Le Wed, Dec 18, 2019 at 09:35:44AM +0100, Michael Crusoe a écrit : > > dcut dm --uid 724D609337113C710550D7473C26763F6C67E6E2 --allow last-align Hi Michael, I ran the commmand a bit more than one hour ago. My Debian skills are a bit rusty; I am not sure if I should receive an automatic email

Bug#946850: LAST build fails on non-amd64 platforms.

portability bugs such as this one). What would you prefer ? Have a nice day, Charles -- Charles Plessy Akano, Uruma, Okinawa, Japan Debian Med packaging team http://www.debian.org/devel/debian-med Tooting from work, https://mastodon.technology

Bug#890117: Bug #890117 in bedtools marked as pending

. -- Charles Plessy Thu, 14 Feb 2019 22:11:21 +0900 (this message was generated automatically) -- Greetings https://bugs.debian.org/890117

Bug#890117: Bug #890117 in bedtools marked as pending

Control: tag -1 pending Hello, Bug #890117 in bedtools reported by you has been fixed in the Git repository and is awaiting an upload. You can see the commit message below and you can check the diff of the fix at:

Bug#890117: bedtools FTBFS on big endian: Tools failing: bamtobed bamtofastq coverage genomecov groupby intersect jaccard map merge multicov negativecontrol

Charles -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Akano, Uruma, Okinawa, Japan

Bug#879886: [Debian-med-packaging] Bug#879886: libhts2: libhts2 needs to handle ABI changes

(to be re-added) symbols file. Have a nice day, Charles -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan

Bug#861333: r-base: R packages uploaded to Debian before 14 April 2017 that use .C or .Fortran fail to find objects

has been done until now. Not supporting partial upgrades puts the maintainers of the r-cran and r-bioc packages between the hammer and the anvil. This said, I think that we have made constant progresses over the years, so I do not feel shy saying "not yet" to the Release team again if ne

Bug#859255: binNMU needed for more R packages.

nomicalignments_1.10.0-1 . ANY . -m "Rebuild for R 3.3.3." Note to debian-science: there are also R CRAN packages that fail with R 3.3.3, (r-cran-lubridate, r-cran-spam), but I am not yet sure if a binNMU is enough. Have a nice day, Charles -- Charles Plessy Debian Med packaging team

Bug#858183: binNMU needed for r-bioc- packages broken by R 3.3.3.

.1-2 . ANY . -m "Rebuild for R 3.3.3." nmu r-bioc-iranges_2.8.1-1-m . ANY . "Rebuild for R 3.3.3." nmu r-bioc-genomicranges_1.26.2-1 . ANY -m "Rebuild for R 3.3.3." Otherwise I can prepare a more extensive list of packages to rebuild. Cheers, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan

Bug#857466: marked as done (r-base: CVE-2016-8714: R: Buffer overflow in the LoadEncoding functionality)

Hi Dirk and Salvatore, > From: Dirk Eddelbuettel > On 11 March 2017 at 17:56, Salvatore Bonaccorso wrote: > | > | The relevant changes seem to be the following, but I might be mistaken. > (btw, > | is there a VCS repository for r-base or does upstream not share development > |

Bug#845505: sra-sdk 2.7.0-1 is broken libncbi-vdb2 2.8.0+dfsg-1

Package: sra-sdk Severity: grave Hi all, quick note from work; sorry to not being able to go deeper. A colleague has reported to me that sra-sdk 2.7.0-1 is broken libncbi-vdb2 2.8.0+dfsg-1. For instance: fastq-dump fastq-dump: symbol lookup error: /usr/lib/x86_64-linux-gnu/libncbi-vdb.so.2:

Bug#831833: [Debian-med-packaging] Bug#831833: Tagged as fixed-upstream - do you intend to upload?

> On Wed, Nov 02, 2016 at 09:03:45PM +0900, Charles Plessy wrote: > > > > I was hoping that Upstream would make a new release with the fix :( > > > > So one would need to check if the following commit would be enough as a > > patch... > > > &

Bug#831833: Tagged as fixed-upstream - do you intend to upload?

Le Wed, Nov 02, 2016 at 12:52:58PM +0100, Andreas Tille a écrit : > > you have set #831833 as fixed-upstream at 20 Jul 2016. Do you intend to > upload the fix to the Debian archive? Hi Andreas, I was hoping that Upstream would make a new release with the fix :( So one would need to check if

Bug#838748: Bug#695327: Patch pending for cloud-init bugs 838748, 780637 and 695327

Le Sat, Sep 24, 2016 at 03:34:52PM +0200, Nicolas Braud-Santoni a écrit : > Control: tag -1 pending > X-Debbugs-CC: hol...@debian.org > > Hi, > > I prepared an upload for a new version of cloud-init which fixes > (among other things) this bug. It is currently available in the > v0.7.8/master

Bug#831833: Processed: Re: [Debian-med-packaging] bedtools is marked for autoremoval from testing

Control: tag -1 +sid Le Wed, Jul 27, 2016 at 05:03:05AM +, Debian Bug Tracking System a écrit : > Processing control commands: > > > notfound -1 2.25.0-1 > Bug #831833 [src:bedtools] bedtools groupby broken; will break users > pipelines. > Ignoring request to alter found versions of bug

Bug#831833: [Debian-med-packaging] bedtools is marked for autoremoval from testing

break users pipelines. This bug only affects the new upstream release. -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan

Bug#831833: [Debian-med-packaging] Bug#831833: Command `groupby` broken; will break users pipelines.

Control: retitle -1 bedtools groupby broken; will break users pipelines. Control: forwarded -1 https://github.com/arq5x/bedtools2/issues/418 Control: tag -1 +confirmed Marking as forwarded now that commented in the issue. The command is completely broken, but unfortunately the regression tests

Bug#831833: Command `groupby` broken; will break users pipelines.

Source: bedtools Version: 2.26.0-1 Severity: serious Tags: upstream Hi all, at work I was just bitten by upstream issue 418, reporting that `bedtools groupby` is broken. https://github.com/arq5x/bedtools2/issues/418 I am filing this bug to prevent migration to Squeeze. Have a nice day, --

Bug#823673: samtools: FTBFS in testing

equired a change recently for htslib 1.3.1. > However, if this only builds now with libhts >= 1.3.1, then the > Build-Depends field should be updated accordingly. Thanks for the report; the issue was already reported in #822701, which I just fixed by updating Build-Depends. Have a nice Sunday, -- Charles Plessy Tsurumi, Kanagawa, Japan

Bug#822701: [Debian-med-packaging] Bug#822701: samtools: FTBFS: UNEXPECTED PASS: Task worked when we expected failure;

Control: tag -1 +pending Le Wed, Apr 27, 2016 at 10:12:31AM +0900, Charles Plessy a écrit : > > Perhaps we also need htslib 1.3.1 to "Break" samtools < 1.3.1... I cloned > this bug to address that issue. Hi all, I added: "Breaks: samtools (<< 1.3.1)". I t

Bug#822701: [Debian-med-packaging] Bug#822701: samtools: FTBFS: UNEXPECTED PASS: Task worked when we expected failure;

clone 822701 -2 reassign -2 htslib retitle -2 htslib 1.3.1 breaks samtools 1.3, at least at build time. retitle 822701 samtools 1.3 fails to build against htslib 1.3.1. tag 822701 +pending Le Tue, Apr 26, 2016 at 07:02:28PM +0100, Chris Lamb a écrit : > Source: samtools > Version: 1.3-1 >

Bug#796114: Phasing out libnetty-java (was Re: Bug#796114: CVE-2015-2156)

, would it be possible to transfer it under the umbrella of the Debian Java team ? Have a nice day, Charles -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan

Bug#796114: Phasing out libnetty-java (was Re: Bug#796114: CVE-2015-2156)

Le Thu, Aug 20, 2015 at 05:27:34PM +0200, Emmanuel Bourg a écrit : Le 20/08/2015 13:40, Charles Plessy a écrit : Is that because of incompatibility ? If libnetty-java is still needed, would it be possible to transfer it under the umbrella of the Debian Java team ? Hi Charles, I

Bug#795847: [Debian-med-packaging] Bug#795847: jellyfish: FTBFS: error: 'struct std::__cxx11::basic_stringbuf_CharT, _Traits, _Alloc::__xfer_bufptrs' redeclared with different access

Le Mon, Aug 17, 2015 at 12:46:40PM +0100, Chris Lamb a écrit : Source: jellyfish Version: 2.2.3-1 Severity: serious Justification: fails to build from source User: reproducible-bui...@lists.alioth.debian.org Usertags: ftbfs X-Debbugs-Cc: reproducible-bui...@lists.alioth.debian.org

Bug#792442: [pkg-eucalyptus-maintainers] Bug#792442: jsilver: Should this package be removed?

Moritz for the heads up. I agree to remove it: I do not see manpower anymore here, and on my side, I would not be able to provide assistance in case a serious bug would be found. Have a nice day, Charles -- Charles Plessy Tsurumi, Kanagawa, Japan signature.asc Description: Digital signature

Bug#762647: [Debian-med-packaging] Bug#762647: samtools: FTBFS: test suite errors

Le Thu, Jun 18, 2015 at 11:25:46PM -0400, Aaron M. Ucko a écrit : I'm glad to see those platforms are doing better now, but that was only part of the problem. There are still unexpected failures on i386 and kfreebsd-i386 (though the count's dropped from 95 to 2, a big improvement):

Bug#780637: cloud-init: needs to be build in the cloud

Le Tue, Mar 17, 2015 at 10:15:38AM +0100, Holger Levsen a écrit : building the cloud-init package fails during package tests because the hostname metadata.google.internal cannot be resolved and cloud specific URLs like http://169.254.169.254/openstack/latest cannot be accessed, see attached

Bug#769219: function moved

Le Sun, Nov 16, 2014 at 12:36:05AM +0100, Bill Allombert a écrit : Do you know if there is a org to XML (or SGML) conversion option ? Hi Bill, according to its documentation, Pandoc can do convert Org-Mode to DocBoox Have a nice Sunday, -- Charles -- To UNSUBSCRIBE, email to

Bug#763218: [Debian-med-packaging] Bug#763218: python-pysam: FTBFS: Tests failures

before the Freeze, I am removing the tag 'jessie' from this bug. Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe

Bug#762647: [Debian-med-packaging] Bug#762647: samtools: FTBFS: test suite errors

is likely to be solved in the short term. https://github.com/samtools/samtools/issues/268 Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org

Bug#756780: Status bowtie + tophat (Was: [Help] Need help for architecture specific code)

will want to use Bowtie 2 with TopHat, how about solution 2 ? Have a nice day, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#755333: [pkg-eucalyptus-maintainers] Bug#755333: wsdl2c: FTBFS: [javac] /«PKGBUILDDIR»/src/org/apache/axis2/builder/MultipartFormDataBuilder.java:28: error: package javax.servlet.http does not exi

Le Tue, Jul 22, 2014 at 01:47:49PM -0300, Miguel Landaeta a écrit : This is just about a missing jar file in the classpath of the compilation. diff -Nru wsdl2c-0.1/debian/rules wsdl2c-0.1/debian/rules --- wsdl2c-0.1/debian/rules 2012-06-23 04:07:09.0 -0300 +++

Bug#755333: [pkg-eucalyptus-maintainers] Bug#755333: wsdl2c: FTBFS: [javac] /«PKGBUILDDIR»/src/org/apache/axis2/builder/MultipartFormDataBuilder.java:28: error: package javax.servlet.http does not

not sure what to do. Is that due to some transition ? Shall I just wait and try again in a couple of weeks ? (The VCS URL of the package is svn+ssh://svn.debian.org/svn/svn/pkg-eucalyptus) Have a nice day, -- Charles Plessy, Tsurumi, Kanagawa, Japan Le Sat, Jul 19, 2014 at 08:34:02PM +0200

Bug#751255: TreeView X abandonned upstream … (was: Re: [Debian-med-packaging] Processed: severity of 751255 is serious).

found a solution on their side. Thanks again, and have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact

Bug#753210: [Debian-med-packaging] Bug#753210: bamtools: FTBFS: Patch failed

/Multiarch/Implementation for details. Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas

Bug#736565: [Debian-med-packaging] Bug#736565: NMU patch for staden-io-lib 1.13.5-1.1

Le Wed, Apr 02, 2014 at 07:10:23PM +1100, Aníbal Monsalve Salazar a écrit : I just submitted Aleksandar Zlicic's patch to upstream. https://sourceforge.net/p/staden/bugs/105/ Thanks a lot for this ! -- Charles -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a

Bug#736565: [Debian-med-packaging] Bug#736565: Bug#736565: FTBFS on non-PC architectures: FAIL: scram_mt.test

tracker on SourceForge: http://sourceforge.net/p/staden/bugs/, which is a better place for providing patches. Have a nice day, Charles -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ

Bug#736565: [Debian-med-packaging] Bug#736565: FTBFS on non-PC architectures: FAIL: scram_mt.test

where it does not build. Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#741221: Need more (legal) information

, which is included at Appendix F.” To me, it appears that Appendix F, which has non-Free clauses, applies. Have you tried to contact the authors of KANJIDIC ? Have a nice day, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org

Bug#736565: [Debian-med-packaging] Bug#736565: FTBFS on non-PC architectures: FAIL: scram_mt.test

Le Sat, Mar 15, 2014 at 01:32:40PM +0900, Charles Plessy a écrit : Le Mon, Mar 10, 2014 at 12:13:34AM +1100, Aníbal Monsalve Salazar a écrit : On Sun, Mar 09, 2014 at 07:58:25PM +0900, Charles Plessy wrote: Speaking of Upstream, I see a new release, version 1.13.5. Would you like me

Bug#736565: FTBFS on non-PC architectures: FAIL: scram_mt.test

Le Mon, Mar 10, 2014 at 12:13:34AM +1100, Aníbal Monsalve Salazar a écrit : On Sun, Mar 09, 2014 at 07:58:25PM +0900, Charles Plessy wrote: Speaking of Upstream, I see a new release, version 1.13.5. Would you like me to upload it ? Yes, please. Uploaded ! Sorry for the delay

Bug#741288: [Debian-med-packaging] Bug#741288: seqan: FTBFS on many buildds due to RAM exhaustion

public researchers to buy more computers with your tax money. Have a nice day, Charles -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe

Bug#736565: FTBFS on non-PC architectures: FAIL: scram_mt.test

of Upstream, I see a new release, version 1.13.5. Would you like me to upload it ? Cheers, Charles -- Charles Plessy Debian Med packaging team http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject

Bug#739575: [Debian-med-packaging] Bug#739575: python-pysam-tests: world writable directory tree: /var/lib/pysam/tests

day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#739575: [Debian-med-packaging] Bug#739575: Bug#739575: python-pysam-tests: world writable directory tree: /var/lib/pysam/tests

Le Thu, Feb 20, 2014 at 10:36:57AM +0100, Andreas Tille a écrit : While I agree that this would solve this formal problem I think providing (potentially large chunks of) data which are only to run a test and force people to create various copies of them is an insane consequence of the

Bug#736407: [Debian-med-packaging] Bug#736407: staden-io-lib: FTBFS on non-x86 architectures

Control: severity -1 wishlist Le Thu, Jan 23, 2014 at 12:17:40PM +0100, Andreas Beckmann a écrit : Package: staden-io-lib Version: 1.13.3-2 Severity: serious Justification: fails to build from source staden-io-lib only built successfully on i386-any and amd64-any, all other architectures

Bug#732408: pv-grub-menu: fails to install: /usr/sbin/update-menu-lst: line 116: grub: command not found

downgrading the severity of this bug: I have confirmed in a minimal system (Debian image for the Amazon cloud) that pv-grub-menu is installable. Have a nice week-end, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject

Bug#732408: pv-grub-menu: fails to install: /usr/sbin/update-menu-lst: line 116: grub: command not found

. Does piuparts pass some special parameters to the shell to make it more sensible to errors ? Nevertheless, I will fix this bug anyway. Have a nice day, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject

Bug#729276: staden-io-lib-utils: bufferoverflow in index_tar

also submitted it upstream ? Do you have a suggestion on how to solve the problem ? Cheers, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject

Bug#729276: [Debian-med-packaging] Bug#729276: staden-io-lib-utils: bufferoverflow in index_tar

Le Sat, Nov 30, 2013 at 04:01:50AM -0500, Sang Kil Cha a écrit : Yes I think I did submitted it to upstream. Hi again, I do not see it in the Upstream bugtracker. Can you also submit it there ? http://sourceforge.net/p/staden/bugs/ Have a nice Sunday, -- Charles Plessy Debian Med

Bug#729785: Copyright review for the package libpqxx 4.0.1-2.

missing from the Debian copyright file. Have a nice Sunday, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas

Bug#728650: [Debian-med-packaging] Bug#728650: FTBFS on PowerPC, patch attached.

Debian packages on PowerPC. I would recommend to simply stop distributing it on PowerPC, and invest further work only if we have a user asking for it. Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan

Bug#728650: [Debian-med-packaging] Bug#728650: Bug#728650: FTBFS on PowerPC, patch attached.

Le Sun, Nov 03, 2013 at 08:44:01PM -0700, Adam Conrad a écrit : On Mon, Nov 04, 2013 at 08:36:52AM +0900, Charles Plessy wrote: I would recommend to simply stop distributing it on PowerPC, and invest further work only if we have a user asking for it. Well, if you make that argument

Bug#724138: Future of the wss4j package in Debian.

platform. Thanks Tony for the help, feel free to upload if you are the first to have time. Cheers, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#724478: umegaya: FTBFS: pandoc errors

Le Tue, Sep 24, 2013 at 10:10:13AM +0300, Damyan Ivanov a écrit : Package: src:umegaya Version: 0.13 Severity: serious Justification: FTBFS umegaya fails to build in a current clean sid pbuilder chroot: debian/rules build dh build dh_testdir dh_auto_configure debian/rules

Bug#724102: #724102: pandoc misses recommends on pandoc-data

Le Wed, Sep 25, 2013 at 07:20:27AM +0200, intrigeri a écrit : Charles Plessy wrote (23 Sep 2013 00:31:50 GMT) : I think that pandoc lost by accident its recommendation (via CDBS) on pandoc-data. pandoc 1.11.1-4 does recommend pandoc-data, so perhaps the problem is rather that pandoc

Bug#724138: Future of the wss4j package in Debian.

Le Mon, Sep 23, 2013 at 08:04:53AM +0200, Emmanuel Bourg a écrit : Le 23/09/2013 02:05, Charles Plessy a écrit : - Is wss4j still needed in Debian ? Would Eucalyptus 3.0 still use it ? - Is the Java team interested by taking it over, in any case ? The package is probably not needed

Bug#724138: Future of the wss4j package in Debian.

time: 6 seconds make: *** [debian/stamp-ant-build] Error 1 The full build log is available from: http://aws-logs.debian.net/ftbfs-logs/2013/09/22/wss4j_1.5.8+svntag-2_unstable.log Have a nice day, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc

Bug#724102: #724102: pandoc misses recommends on pandoc-data (was: Re: Bug#724102: umegaya: FTBFS: pandoc ...)

, and have a nice day, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#722982: Broken in Wheezy.

Package: emboss-explorer Version: 2.2.0-7 Severity: grave Hello everybody. I just tried emboss-explorer on a minimal Wheezy system (7.1), and it does not work out of the box. For each item in the menu, the main frame reports [item name] is not a valid EMBOSS application. There are patches on

Bug#720618: non-free license statement in /usr/share/inkscape/icons/inkscape.svg

is CC-BY-SA 2.0. This is unfortunate, as Debian's FTP team does not consider it Free. Perhaps you can clarify this with the Inkscape authors ? Maybe they intended GPL-2 anyway... Cheers, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ

Bug#718747: [Debian-med-packaging] Bug#718747: phyml: FTBFS on arm* more

://buildd.debian.org/status/package.php?p=phymlsuite=sid Consider disabling SSE instructions on non Intel platforms. Hi Hector, do you think that you could send a patch for this ? Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan

Bug#718747: [Debian-med-packaging] Bug#718747: phyml: FTBFS on arm* more

Le Mon, Aug 05, 2013 at 04:23:20AM +0200, Hector Oron a écrit : 2013/8/5 Hector Oron hector.o...@gmail.com: 2013/8/5 Charles Plessy ple...@debian.org: do you think that you could send a patch for this ? Find it attached Note I have uploaded package to delayed queue 4, please let me

Bug#718120: libbio-primerdesigner-perl: FTBFS: Too early to specify a build action 'vendor'. Do 'Build vendor' instead.

/OpenGuides/OpenGuides/pull/71 I've now pushed a patch to git along these lines; reviews welcome! Thanks Gregor. I just corrected the bug number in the changelog. (718056 - 718120). Have a nice week-end, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med

Bug#718120: libbio-primerdesigner-perl: FTBFS: Too early to specify a build action 'vendor'. Do 'Build vendor' instead.

Le Sat, Aug 03, 2013 at 02:47:56PM +0200, gregor herrmann a écrit : On Sat, 03 Aug 2013 21:26:49 +0900, Charles Plessy wrote: Still, I'd like to have a review from someone who has used Devel::CheckLib before ... Not me, sorry :( -- Charles -- To UNSUBSCRIBE, email to debian-bugs-rc-requ

Bug#709173: Debian cloud images for OpenStack?

in the debian directory instead. Could you give us a bit more explanations on your patch ? Have a nice day, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#713284: [Debian-med-packaging] Bug#713284: r-other-mott-happy: FTBFS: ERROR: a 'NAMESPACE' file is required

merge 709190 713284 thanks ERROR: a 'NAMESPACE' file is required Hi all, the problem was fixed in a new upstream release. I hope to upload it within a week. Cheers, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan

Bug#701322: [Debian-med-packaging] Bug#701322: Brief update on this bug (ftbfs with GCC-4.8)

. I think I'll just upload a fix for this. Thanks ! Do you think this is something that should be forwarded upstream ? Cheers, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ

Bug#701322: Brief update on this bug (ftbfs with GCC-4.8)

Le Wed, Jun 05, 2013 at 09:34:04AM +0900, Charles Plessy a écrit : - there is a patch for building with a recent BOOST in Ubuntu, which looks needed to build on unstable but is not sufficient. - the new stable upstream release need further work on BOOST (maybe something trivial like

Bug#701322: Brief update on this bug (ftbfs with GCC-4.8)

), so I did not have time to see if the failure related to GCC is still present there. I also did not have time to try the development version. Please feel free to take the lead on this issue: I am still very busy and next weekend I may be away from the keyboard as well. Cheers, -- Charles

Bug#709773: Wrong handling of debconf

that on my system, the package builds only with sudo, not with fakeroot) Have a nice week-end, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#694908: Redistribution of Pathway ontology inside EMBOSS suite packaged for Debian

Dear Victoria, I am Charles Plessy from the Debian project, working with Andreas Tille on packaging and distributing software relevant to medecine and bioinformatics. Thank you for your answers about Pathway Ontology (PW) and sorry to bother you again. It would tremendously help us if we could

Bug#699260: [Debian-med-packaging] Bug#699260: Help (Was: Bug#699260: r-cran-genabel: FTBFS: error: subscript out of bounds)

tag 699260 confirmed severity 699260 grave thanks Le Tue, Jan 29, 2013 at 01:28:36PM -0600, Dirk Eddelbuettel a écrit : Also, CRAN has 1.7-3, you guys are at 1.7-0 of GenABEL. Maybe this even changed upstream... Indeed :) +*** v. 1.7-3 (2013.01.09) + +(2013.01.09) +Commented the parts

Bug#694908: [Debian-med-packaging] Bug#694908: Status update (Was: Bug#694908: Contains non-free data)

Le Wed, Jan 09, 2013 at 03:32:34PM +0100, Andreas Tille a écrit : So we have confirmation about the free distribution from three out of seven questionable files. I'm positive we will get more like this and would consider it safe to set the bug wheezy-ignore for the moment if the release

Bug#694908: [Debian-med-packaging] Bug#694908: Contains non-free data

Le Sun, Dec 30, 2012 at 07:46:10PM +0900, Charles Plessy a écrit : I am contacting Gene Ontology's helpdesk to make sure that we have the right to redistribute the datai (copy pasted below). I received excellent news: Gene Ontology is considering to switch to the Creative Commons

Bug#694908: [Debian-med-packaging] Bug#694908: Bug#694908: Contains non-free data

Le Tue, Jan 01, 2013 at 09:53:09AM +0100, Andreas Tille a écrit : Could you also somehow publish (if needed internally) your e-mail to Gene Ontology to write similar mails to the other copyright holders? Hi Andreas, It was at the bottom of http://bugs.debian.org/694908#22, and I just saw

Bug#694908: [Debian-med-packaging] Bug#694908: Bug#694908: Contains non-free data

Le Mon, Dec 31, 2012 at 04:32:29PM +0100, Andreas Tille a écrit : I could imagine to use the Debian Med sprint to work on this issue. Hi Andreas, very good idea: there would definitely need the energy of a Sprint to solve the problem, as there are half a dozen different sources of external

Bug#694908: [Debian-med-packaging] Bug#694908: Bug#694908: Contains non-free data

Le Sat, Dec 29, 2012 at 08:42:41PM +0100, Steffen Möller a écrit : The GO license I read as scientific integrity. Yes, as a consequence you cannot modify the database at will or it is not GO any more and you cite it where you use it. IIRC some two GO terms or so I had at some point

Bug#694908: [Debian-med-packaging] Bug#694908: Contains non-free data

On Sun, Dec 2, 2012 at 09:39:14 +0900, Charles Plessy wrote: As discussed in the following message, EMBOSS contains non-free data. https://lists.debian.org/20120918045219.ga26...@falafel.plessy.net We need to consider short- and long-term solutions to this problem

Bug#694908: Contains non-free data

Package: emboss Version: 6.4.0-4 Severity: serious As discussed in the following message, EMBOSS contains non-free data. https://lists.debian.org/20120918045219.ga26...@falafel.plessy.net We need to consider short- and long-term solutions to this problem. For the short-term solution, I think

Bug#681654: #681654 kstars-data-extra-tycho2: undistributable

considers that in the statement in 681654#52, cannot charge for the data means the same as not sold by themselves in the OFL, then it would be consistent to keep kstars-data-extra-tycho2 in Debian, as SIL-OFL-licensed works are allowed. Have a nice Sunday, -- Charles Plessy Tsurumi, Kanagawa, Japan

Bug#692946: cdd-dev: copyright file missing after upgrade (policy 12.5)

, there is anyway not copyrighted work to look for in this package), but is the breakage limited to /usr/share/doc/cdd-dev/ ? Cheers, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ

Bug#691900: [pkg-eucalyptus-maintainers] Bug#691900: gwt: CVE-2012-4563

Le Fri, Nov 02, 2012 at 07:43:19AM +0100, Thomas Koch a écrit : Charles Plessy: In particular I do not know if the best resolution for this bug is to upgrade to 2.5.0 or to patch, so I am reluctant to take action by myself, worrying that I might complicate your work on Gerrit. Hi

Bug#691900: [pkg-eucalyptus-maintainers] Bug#691900: gwt: CVE-2012-4563

help, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#691900: [pkg-eucalyptus-maintainers] Bug#691900: gwt: CVE-2012-4563

Le Wed, Oct 31, 2012 at 07:47:07AM +0100, Moritz Muehlenhoff a écrit : Package: gwt Severity: grave Tags: security Justification: user security hole Please see https://developers.google.com/web-toolkit/release-notes#Release_Notes_2_4_0 under Security vulnerability in GWT 2.4. Hi all,

Bug#688630: Bug#688630: t-coffee-doc: empty package

not related to the release. I propose to either ignore the emptiness of t-coffee-doc, or to make an upload to testing-proposed-updates, where the t-coffee-doc package would be discarded. Please let us know if you would like this to happen. Have a nice day, -- Charles Plessy Debian Med packaging team

Bug#688630: [Debian-med-packaging] Bug#688630: t-coffee-doc: empty package

Le Mon, Sep 24, 2012 at 08:40:12PM +0900, Charles Plessy a écrit : Le Mon, Sep 24, 2012 at 11:57:54AM +0200, Vincent Fourmond a écrit : t-coffee-doc is empty: the problem is that it is empty upstream as well. Would you like to ask Upstream to add it back ? Otherwise, I will need

Bug#689951: Package appears to be non-free

not be removed ? Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org

Bug#689951: Package appears to be non-free

. Distribution of this code for any commercial purpose is permissible ONLY BY DIRECT ARRANGEMENT WITH THE COPYRIGHT OWNER. The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. Cheers, -- Charles Plessy Debian

Bug#645487: [Debian-med-packaging] Bug#645487: Bug#645487: ensembl: includes GPL code without source

Le Mon, Sep 24, 2012 at 01:01:44PM +0900, Charles Plessy a écrit : Le Sun, Sep 23, 2012 at 07:00:23PM -0700, Jonathan Nieder a écrit : This seems to be fixed in the packaging repo. What is left to do before the updated package is uploaded? Would you be terribly offended if I requested

Bug#688630: [Debian-med-packaging] Bug#688630: t-coffee-doc: empty package

://www.tcoffee.org/Projects/tcoffee/#DOCUMENTATION (assuming that the MS-Word documents are the source). Have a nice day, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org

Bug#645487: [Debian-med-packaging] Bug#645487: ensembl: includes GPL code without source

to set a good example by not asking mirrors to violate the GPL? Hi all, I can upload if needed. Cheers -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ...@lists.debian.org with a subject

Bug#670945: [php-maint] Bug#670945: About the media types text/x-php and text/x-php-source

using PHP, please consider that the PHP maintainers team is one of them. They need your help ! The time you will give will directly help Debian to stay among the top distributions. Have a nice day, -- Charles Plessy Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-rc-requ

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