Bug#864355: ITP: cod-tools -- tools for manipulation of Crystallographic Information Format v1.1 and v2.0 files

2017-06-07 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys * Package name: cod-tools Version : 2.0 Upstream Author : Saulius Gražulis , Andrius Merkys , Antanas Vaitkus * URL : http://wiki.crystallography.net/cod-tools * License : GPL 2.0 Programming Lang: C

Bug#864355: ITP: cod-tools -- tools for manipulation of Crystallographic Information Format v1.1 and v2.0 files

2017-06-07 Thread Andrius Merkys
m up with > Debian Science at some point. > > Best, > > Steffen -- Andrius Merkys PhD student at Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania Lecturer at Vilnius University Faculty of Mathematics and Informatics, Naugarduk

Bug#864355: ITP: cod-tools -- tools for manipulation of Crystallographic Information Format v1.1 and v2.0 files

2017-06-08 Thread Andrius Merkys
apply for their help for packaging cod-tools? Many thanks, Andrius On 07/06/17 17:19, Steffen Möller wrote: > Hi Andrius, > > I happily help with sponsoring. You may also consider to team up with > Debian Science at some point. > > Best, > > Steffen -- Andrius Merkys

Bug#864355: ITP: cod-tools -- tools for manipulation of Crystallographic Information Format v1.1 and v2.0 files

2017-06-13 Thread Andrius Merkys
pe of Debian Science or DebiChem. I'd like to suggest you should > maintain the package in either of this team. > > Kind regards > >Andreas. > > On Wed, Jun 07, 2017 at 04:33:49PM +0300, Andrius Merkys wrote: >> Package: wnpp >> Severity: wishlist >&

Bug#864713: RFS: cod-tools/2.0-5 [ITP] -- tools for manipulation of Crystallographic Information Format files

2017-06-13 Thread Andrius Merkys
Package: sponsorship-requests Severity: wishlist Dear mentors, I am looking for a sponsor for my package "cod-tools" * Package name: cod-tools Version : 2.0-5 Upstream Author : Saulius Gražulis , Andrius Merkys , Antanas Vaitkus * URL

Bug#1062398: sympa: lacks dependency on perl-doc

2024-02-01 Thread Andrius Merkys
Package: sympa Version: 6.2.70~dfsg-2 Dear Maintainers, Please consider adding dependency on perl-doc for sympa. When called 'sympa help' or just 'sympa', instead of readable manual 'sympa' shows plain Perl code with a warning that perl-doc is needed to show it in more human-readable form. Af

Bug#1058454: [Debichem-devel] Bug#1058454: Do we really need to support 32bit in abinit and prody (maybe others)

2024-02-01 Thread Andrius Merkys
Hi Andreas, On 2024-01-31 13:08, Andreas Tille wrote: in connection with the time_t transition in Debian Med we are discussing[1] whether we really need 32 bit support for some of our tools or whether we should realistically drop this support to concentrate on problems which are more relevant fo

Bug#1062666: transition: openmm

2024-02-02 Thread Andrius Merkys
Package: release.debian.org Severity: normal User: release.debian@packages.debian.org Usertags: transition Hello, I would like to request a transition slot for openmm (experimental -> unstable) due to soname bump. Current ben tracker [1] is OK. All reverse dependencies rebuild fine, except

Bug#1064953: [Debichem-devel] Bug#1064953: rdkit: Please provide cmake files

2024-02-28 Thread Andrius Merkys
Hi Gürkan, On 2024-02-28 10:17, Gürkan Myczko wrote: thanks for the rdkit packaging would it be possible to also ship rdkit-config.cmake rdkit-config-version.cmake rdkit-targets.cmake rdkit-targets-none.cmake in /usr/lib/cmake/rdkit/ (needed for coot packaging)? I can give it a look. I tried

Bug#1075834: [Debichem-devel] Bug#1075834: Bug#1075834: python3-ase: new upstream release available

2024-07-08 Thread Andrius Merkys
Hi, On 7/8/24 21:11, Graham Inggs wrote: On Sat, 6 Jul 2024 at 02:45, Drew Parsons wrote: debian/watch is broken. gitlab access to the tarballs is confusing, and I wasn't able to find a simple fix for debian/watch Apparently, this changed in gitlab in March, 2024 [1]. version=4 opts="searchm

Bug#1074897: cura-engine: ftbfs with GCC-14

2024-07-09 Thread Andrius Merkys
Control: retitle -1 rapidjson: causes FTBFS with GCC-14 Control: block 1075335 by -1 Control: block 1075439 by -1 Hello, When building other packages with rapidjson-dev with GCC-14, the following failure occurs: /usr/include/rapidjson/document.h: In member function ‘rapidjson::GenericStringR

Bug#1076519: [Debichem-devel] Bug#1076519: libinchi1: new version 1.07 of InChI (now MIT license scheme)

2024-07-17 Thread Andrius Merkys
provides the software equivalent to version 1.03/June 15, 2010. While Andrius Merkys thankfully packaged this version in 2019, there already was the request to provide the community a package corresponding to a more recent version of InChI. However, starting with version 1.04 (September 2011

Bug#1077055: [Debichem-devel] Bug#1077055: postgresql-16-rdkit: inchi support not included in rdkit build

2024-07-29 Thread Andrius Merkys
Hi David, On 7/25/24 18:51, David Lounsbrough via Debichem-devel wrote: I wanted to ask if there's a reason that `inchi` support is not enabled for this package. You can read more about the attempts to enable InChI support in rdkit in [1]. In short, inchi package in Debian seems incompatible

Bug#1056065: transition: spdlog

2023-11-16 Thread Andrius Merkys
On Thu, 16 Nov 2023 18:01:01 +0200 Andrius Merkys wrote: * kodi (seems to be affected by spdlog API change) Sorry, kodi builds fine, it should not be here, my mistake. Best, Andrius

Bug#1056065: transition: spdlog

2023-11-16 Thread Andrius Merkys
On 2023-11-17 08:42, Sebastian Ramacher wrote: I suspect that's due to the use of libspdlogX-fmtY. I've added a manual tracker and added the fmt postfix. Right, this might be the reason. Thanks! Andrius

Bug#1055696: 1055696: more info

2023-11-17 Thread Andrius Merkys
Hi, I have reassigned this issue to python3-rdkit as Python 3.12 specific issue seems to be confined to python3-rdkit: $ python3.12 -c 'import rdkit' Traceback (most recent call last): File "", line 1, in File "/usr/lib/python3/dist-packages/rdkit/__init__.py", line 6, in from . im

Bug#1056065: transition: spdlog

2023-11-20 Thread Andrius Merkys
Hi Sebastian, On 2023-11-18 14:36, Sebastian Ramacher wrote: spdlog's autopkgtest fail, though: https://ci.debian.net/data/autopkgtest/testing/amd64/s/spdlog/39983394/log.gz Could you please take a look? Apparently spdlog needs catch2 >= 3.0.0. I have just added the versioned depends and uplo

Bug#1056343: ITP: nanovg -- antialiased vector graphics rendering library for OpenGL

2023-11-21 Thread Andrius Merkys
Package: wnpp Owner: Andrius Merkys Severity: wishlist * Package name: nanovg Version : 0.0~git20230826.f93799c Upstream Author : Mikko Mononen * URL : https://github.com/memononen/nanovg * License : Zlib Programming Lang: C Description : antialiased

Bug#1056241: dials autopkg tests fail with Python 3.12

2023-11-22 Thread Andrius Merkys
Hi, On 2023-11-19 13:42, Matthias Klose wrote: dials autopkg tests fail with Python 3.12: [...] 548s E   FileNotFoundError: [Errno 2] No such file or directory: '/usr/lib/cctbx/python3.12' 548s === short test summary info 548s ERROR  - Fi

Bug#1017811: node-wikibase-cli: FTBFS without Internet access

2023-11-23 Thread Andrius Merkys
Hello, I have commented out a pair of test cases which attempted network access in the upload of node-wikibase-cli 15.15.4-5. Could you please check whether FTBFS continues? On Wed, 14 Dec 2022 12:16:39 +0100 Sven Mueller wrote: Interestingly, in our build environment which has some extreme

Bug#992180: [Debichem-devel] Bug#992180: MR with fix available Re: openmm FTBFS on amd64/arm64/ppc64el

2023-11-23 Thread Andrius Merkys
Hi Michael, On 2023-11-23 19:25, Michael R. Crusoe wrote: Hello, I opened the merge request below to add SIMDe to this package; I tested on the riscv64 porterbox where the build succeeded, included tests. Likewise on my personal amd64 laptop. https://salsa.debian.org/debichem-team/openmm/-/me

Bug#992180: [Debichem-devel] Bug#992180: Bug#992180: MR with fix available Re: openmm FTBFS on amd64/arm64/ppc64el

2023-11-24 Thread Andrius Merkys
Hi Michael, On 2023-11-24 09:30, Andrius Merkys wrote: On 2023-11-23 19:25, Michael R. Crusoe wrote: It won't fix the FTBFS on armel / armhf; that's due to them being detected as arm64 and inappropriate NEON intrinsics being used Thanks for spotting this, I will give it a look,

Bug#1057025: node-ip-address: please remove me from uploaders

2023-11-27 Thread Andrius Merkys
Source: node-ip-address Severity: wishlist Hello, Back in a day I packaged/sponsored a bunch of node packages needed by node-shiny-server. I ended up never using shiny-server and/or node-shiny-server, but with the responsibility for its dependencies. Thus I would like to be removed from the u

Bug#1057024: node-client-sessions: please remove me from uploaders

2023-11-27 Thread Andrius Merkys
Source: node-client-sessions Severity: wishlist Hello, Back in a day I packaged/sponsored a bunch of node packages needed by node-shiny-server. I ended up never using shiny-server and/or node-shiny-server, but with the responsibility for its dependencies. Thus I would like to be removed from

Bug#1057026: node-morgan: please remove me from uploaders

2023-11-27 Thread Andrius Merkys
Source: node-morgan Severity: wishlist Hello, Back in a day I packaged/sponsored a bunch of node packages needed by node-shiny-server. I ended up never using shiny-server and/or node-shiny-server, but with the responsibility for its dependencies. Thus I would like to be removed from the uploa

Bug#1057027: node-pause: please remove me from uploaders

2023-11-27 Thread Andrius Merkys
Source: node-pause Severity: wishlist Hello, Back in a day I packaged/sponsored a bunch of node packages needed by node-shiny-server. I ended up never using shiny-server and/or node-shiny-server, but with the responsibility for its dependencies. Thus I would like to be removed from the upload

Bug#1057028: node-stable: please remove me from uploaders

2023-11-27 Thread Andrius Merkys
Source: node-stable Severity: wishlist Hello, Back in a day I packaged/sponsored a bunch of node packages needed by node-shiny-server. I ended up never using shiny-server and/or node-shiny-server, but with the responsibility for its dependencies. Thus I would like to be removed from the uploa

Bug#1072115: ERROR:: Failure to read or parse /usr/share/coot/ui/coot-gtk4.ui

2024-05-28 Thread Andrius Merkys
Control: severity -1 serious Control: owner -1 ! Hi, On 2024-05-28 23:07, Picca Frédéric-Emmanuel wrote: while trying to start coot, I get this error message. $ coot INFO:: built with GTK 4.12.5 pdd /usr/share/coot WARNING:: Coot REFMAC dictionary override COOT_REFMAC_LIB_DIR /usr/share/coot/

Bug#1039087: removing embeded version of yajl

2024-05-28 Thread Andrius Merkys
Hi, On 2024-05-28 18:35, PICCA Frederic-Emmanuel wrote: Here the diff between the epics version (debian patch unapplyed) and the current 2.1.0 version of yajl (debian patch unapplyed). It seems EPICS authors have forked yajl and implemented JSON5 support there. As a result, the code diverged

Bug#1072148: epics-base: please add support for loong64

2024-05-29 Thread Andrius Merkys
Control: forwarded -1 https://github.com/epics-base/epics-base/pull/329 Hi, On 2024-05-29 10:31, wuruilong wrote: Compile error on loongarch, reference upstream code to provide patch. Link to upstream code:https://github.com/epics-base/epics-base/pull/329 Why does this patch modify the embedd

Bug#1072148: epics-base: please add support for loong64

2024-05-29 Thread Andrius Merkys
On 2024-05-29 11:32, wuruilong wrote: Modify the valgrind header file because valgrind's code has gone too long without loongarch support. Does the valgrind Debian package support loong64? If so, the embedded valgrind/valgrind.h can be replaced with the header from Debian package. Andrius

Bug#1072148: epics-base: please add support for loong64

2024-05-29 Thread Andrius Merkys
On 2024-05-30 05:17, wuruilong wrote: I checked valgrind debian package is not supported loongarch architecture. Thanks for checking. I would like to remove the embedded valgrind/valgrind.h and use the header from valgrind package. Thus I would suggest implementing loongarch support in valgri

Bug#1072195: valgrind: add support for loong64

2024-05-29 Thread Andrius Merkys
Package: valgrind Version: 1:3.20.0-2.1 Severity: wishlist Control: block 1072148 by -1 X-Debbugs-CC: wuruil...@loongson.cn Hello, In #1072148 a patch to support loong64 has been proposed in epics-base. The proposed patch modifies valgrind header (valgrind/valgrind.h) embedded in epics-base so

Bug#998820: lintian: overly generic python modules /usr/lib/python3/dist-packages/benchmarks/*.py

2024-06-03 Thread Andrius Merkys
On 2024-06-03 08:51, Andreas Beckmann wrote: Followup-For: Bug #998820 Then we also have /usr/lib/python3/dist-packages/build/lib/doc/conf.py ^^^ e.g. nxtomo 1.2.3-2 usr/lib/python3/dist-packages/build/lib/docs/conf.py

Bug#1072383: lintian: flag packages bloated by auxiliary tests/docs/examples

2024-06-03 Thread Andrius Merkys
Hi Aaron, On 2024-06-02 05:41, Aaron M. Ucko wrote: A number of binary packages accompany their primary content by tests, examples, and/or other documentation that appreciably increase their size, in some cases by more than an order of magnitude, and as such would be very reasonable to split out

Bug#1070770: lintian: check for testing presence of "nodocs" in DEB_BUILD_OPTIONS

2024-06-03 Thread Andrius Merkys
On 2024-06-02 19:49, Louis-Philippe Véronneau wrote:> Sounds like a plan. I made the changed you proposed and also made sure the tag will output the problematic BUILD_OPTION. That way, when/if someone wants to make it more generic, it'll be possible to pass other invalid BUILD_OPTION. The tag

Bug#1072515: general: Repeating cracking sound in headphones when nothing is playing.

2024-06-03 Thread Andrius Merkys
Hi Christian, On 2024-06-03 11:38, Christian Böck wrote: when using headphones with my laptop (Thinkpad W550s) I get a repeating cracking (~1sec intervalls) when nothing is playing. I have a similar issue on a workstation with Ubuntu 22.04. What is your operating system version? I believe the

Bug#1072564: nmu: cctbx_2023.12+ds2+~3.17.0+ds1-4 clipper_ 2.1.20201109-2 libpdb-redo_3.0.5-2 ssm_1.4.0-2

2024-06-04 Thread Andrius Merkys
Package: release.debian.org Severity: normal User: release.debian@packages.debian.org Usertags: binnmu Hello, I want to request binNMU on packages which are affected by libccp4 soname change due to time_t64 transition: nmu cctbx_2023.12+ds2+~3.17.0+ds1-4 . ANY . unstable . -m "Rebuild

Bug#1072618: coot: layla fails to start unless LD_LIBRARY_PATH is specified

2024-06-05 Thread Andrius Merkys
Package: coot Version: 1.1.08+dfsg-3 Severity: important Forwarded: https://github.com/pemsley/coot/issues/120 layla executable fails to start unless LD_LIBRARY_PATH is given for it to locate the coot private libraries, e.g.: $ LD_LIBRARY_PATH=/usr/lib/ layla A thin wrapper is needed to set t

Bug#1072576: coot: save its states in HOME.

2024-06-05 Thread Andrius Merkys
Control: tags -1 + confirmed Hi, On 2024-06-04 17:31, Picca Frédéric-Emmanuel wrote: While using coot I found that it save it's states in these files DEBUG:: saving state to filename 0-coot.state.py State file 0-coot.state.py written. State file 0-coot-history.py written. State file 0-coot-his

Bug#1072576: coot: save its states in HOME.

2024-06-05 Thread Andrius Merkys
On 2024-06-05 10:13, Andrius Merkys wrote: The REFMAC dictionary packaged in Debian as refmac-dictionary needs some adjustment to make usable by coot and make the messages above go away. I have the fix for refmac-dictionary at hand, by the way. I will upload it soon. Andrius

Bug#1057556: elpa: FTBFS: not enough slots available

2024-06-07 Thread Andrius Merkys
Control: owner -1 ! On Fri, 31 May 2024 14:46:28 +0200 Santiago Vila wrote:> Instead of patch-2.txt and patch-3.txt, the following more simple patch would also fix the issue (I've tested it on single-cpu systems and also on m6a.large instances from AWS, which have 1 core and two threads). (S

Bug#1072576: coot: save its states in HOME.

2024-06-11 Thread Andrius Merkys
Hi, On 2024-06-11 07:50, Paul Emsley wrote: OK, so 1.1.09 should now read and save the state and config files in an XDG Base Directory compliant manner. Thanks. I will update the Debian package ASAP. I have cleaned up some of the terminal output (it is verbose because doing so helps me diagn

Bug#1072576: coot: save its states in HOME.

2024-06-11 Thread Andrius Merkys
On 2024-06-11 07:54, Paul Emsley wrote: I have been a bit sloppy with my file names and you should not be. Let's call the "refmac-dictionary" the "ccp4-monomer-library" OK, I will rename it to 'ccp4-monomer-library'. This is where it lives: https://github.com/MonomerLibrary/monomers Looki

Bug#1053729: RFP: SAIL image decoding library

2023-12-13 Thread Andrius Merkys
Hi Sudip, On 2023-12-13 12:28, Sudip Mukherjee wrote: Hi Andrius, On Wed, Oct 18, 2023 at 08:38:52AM +0300, Andrius Merkys wrote: Hi Dmitry, On 2023-10-17 16:25, Dmitry Baryshev wrote: > Does it produce desired Debian packages? I've just pushed a couple of fixes to the Debian ru

Bug#1058690: liblatex-tounicode-perl: trying to overwrite .../ltx2unitxt.1.gz, which is also in package texlive-bibtex-extra 2023.20231207-1

2023-12-14 Thread Andrius Merkys
Control: tags -1 + patch Hello, On 2023-12-14 16:07, Vincent Lefevre wrote: Package: liblatex-tounicode-perl Version: 0.54-1 Severity: serious As a consequence of the upgrade of texlive-bibtex-extra to 2023.20231207-3: [...] Selecting previously unselected package liblatex-tounicode-perl. (Re

Bug#1058722: scikit-build-core: please remove me from uploaders

2023-12-14 Thread Andrius Merkys
Source: scikit-build-core Severity: wishlist Hello, Back in a day I thought scikit-build-core was a new build dependency of a package I maintained, thus I packaged it. Later it turned out that it was not necessary. Thus now I have no interest in scikit-build-core and would prefer to be remove

Bug#1058723: python-parsley: run autopkgtest for all supported Python versions

2023-12-14 Thread Andrius Merkys
Source: python-parsley Version: 1.3-3 Severity: wishlist Tags: help Hello, python-parsley builds for all supported Python versions. It seems only appropriate to run autopkgtest on all supported Python versions as well. However, currently it is run only on the default version: $ cat debian/te

Bug#1058865: ITP: python-pubchempy -- pubchem python rest api chemistry cheminformatics

2023-12-17 Thread Andrius Merkys
Hi Yogeswaran, On 2023-12-17 09:57, Yogeswaran Umasankar wrote: * Package name: python-pubchempy Version : 1.0.4 Upstream Contact: Matt Swain * URL :https://github.com/mcs07/PubChemPy * License : Expat Programming Lang: Python Description : pubchem

Bug#1058868: [Debichem-devel] Bug#1058868: gemmi: Please build shared library

2023-12-17 Thread Andrius Merkys
Control: tags -1 + moreinfo Hi Yadd, On 2023-12-17 11:31, Yadd wrote: Source: gemmi Version: 0.6.3+ds-1 Severity: important Tags: patch X-Debbugs-Cc: y...@debian.org Hi, currently src:gemmi builds gemmi and gemmi-dev. This doesn't permit to build any software using gemmi-dev without static li

Bug#1058868: [Debichem-devel] Bug#1058868: gemmi: Please build shared library

2023-12-18 Thread Andrius Merkys
Control: owner -1 ! Control: tags -1 - moreinfo Hi, On 2023-12-18 09:47, Yadd wrote: yas I'm going to package ovito which depends on it. If shared library isn't provided, cmake automatically uses libgemmi_cpp.a which then embed gemmi into ovito 🙁 I see. OK, let me apply your patch and build

Bug#1058868: [Debichem-devel] Bug#1058868: gemmi: Please build shared library

2023-12-19 Thread Andrius Merkys
Hi, On 2023-12-17 11:31, Yadd wrote: currently src:gemmi builds gemmi and gemmi-dev. This doesn't permit to build any software using gemmi-dev without static linking. The proposed patch adds package libgemmi1 which contains the shared library. I looked into the shared library provided by gemm

Bug#1010653: closed by Debian FTP Masters (reply to Komolehin Israel Timilehin ) (Bug#1010653: fixed in busco 5.5.0-2)

2023-12-19 Thread Andrius Merkys
Hi, On 2023-12-19 18:51, Debian Bug Tracking System wrote: [ Komolehin Israel Timilehin ] * Added autopkgtest to check hmmer and prodigal integration (Closes: #1010653) Thanks for working on this. I see that the added autopkgtest uses network to download the dataset. It is done prope

Bug#1010653: needs-internet restriction (Was: Bug#1010653: closed ...) (Bug#1010653: fixed in busco 5.5.0-2)

2023-12-20 Thread Andrius Merkys
Hi Andreas, On 2023-12-20 12:37, Andreas Tille wrote: Hi Andrius, Am Wed, Dec 20, 2023 at 08:27:31AM +0200 schrieb Andrius Merkys: On 2023-12-19 18:51, Debian Bug Tracking System wrote: [ Komolehin Israel Timilehin ] * Added autopkgtest to check hmmer and prodigal integration

Bug#1056457: [Debichem-devel] Bug#1056457: python-ase's autopkg tests fail with Python 3.12

2023-12-20 Thread Andrius Merkys
Control: tags -1 + patch Hi, On 2023-12-20 20:23, s3v wrote: After applying [1][2][3] from upstream and adding "-p no:warnings":   addopts = -p no:cacheprovider -p no:warnings in ase/test/pytest.ini (DeprecationWarnings from various packages make tests fail), I was able to build your pack

Bug#1059175: dials: FTBFS: Imported target "DXTBX::DXTBX" includes non-existent path

2023-12-20 Thread Andrius Merkys
Control: tags -1 + patch pending Hi, On 2023-12-21 00:42, Sebastian Ramacher wrote: Source: dials Version: 3.12.1+dfsg3-5 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/st

Bug#1059706: epics-base.pc is broken in epics-dev package

2023-12-30 Thread Andrius Merkys
Control: tags -1 + confirmed Hi, On 2023-12-30 18:06, Matwey V. Kornilov wrote: Package: epics-dev Version: 7.0.7+dfsg1-5 Please note, that epics-base.pc file is installed into /usr/share/pkg-config instead of /usr/share/pkgconfig and cannot be found. I have just fixed this in the packaging

Bug#1057644: multiple python versions in a single .deb package

2024-01-02 Thread Andrius Merkys
Hi, On 2024-01-01 06:21, Mo Zhou wrote: I tried this and it turns to be a little bit complicated to support. The code change can be found in the git history, which was reverted by me. The problem is that the file libtorch_python.so.* is specific to one python version, and cannot be shared betw

Bug#1067212: ITP: libgraph-grammar-perl -- Grammar for graphs

2024-03-20 Thread Andrius Merkys
Package: wnpp Owner: Andrius Merkys Severity: wishlist * Package name: libgraph-grammar-perl Version : 0.1.0 Upstream Author : Andrius Merkys * URL : https://metacpan.org/release/Graph-Grammar * License : BSD-3-Clause Programming Lang: Perl Description

Bug#1066296: RE: Bug#1066296: xli: FTBFS: dither.c:77:36: error: implicit declaration of function ‘strlen’ [-Werror=implicit-function-declaration]

2024-03-26 Thread Andrius Merkys
Hi Nilson, On Wed, 13 Mar 2024 17:34:15 + Nilson Silva wrote: Relevant part (hopefully): > cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -DSYSPATHFILE=\"/usr

Bug#943315: ITP: vst3sdk -- professional audio plugin development kit

2024-03-27 Thread Andrius Merkys
Hello, I had some luck in packaging vst3sdk. I pushed my packaging attempts (just the debian/ directory) to my personal repository on salsa [1]. The package builds and installs VST3 plugins, debian/copyright is as well almost finished. I had some difficulties in constructing the multiple ups

Bug#1003512: closed by Debian FTP Masters (reply to Patrick Winnertz ) (Bug#1003512: fixed in cherrytree 1.1.0+dfsg-1)

2024-03-28 Thread Andrius Merkys
Hi Patrick, On 2024-03-28 17:09, Debian Bug Tracking System wrote: This is an automatic notification regarding your Bug report which was filed against the wnpp package: #1003512: RFA: cherrytree -- hierarchical note taking application It has been closed by Debian FTP Masters (reply to Patric

Bug#1066450: opensearch: FTBFS with lucene9/9.10.0+dfsg

2024-04-02 Thread Andrius Merkys
control: retitle -1 opensearch: FTBFS with lucene9/9.10.0+dfsg I have recently updated lucene9. Current FTBFS is caused by missing lucene9 classes. Thus it seems that lucene9 API has changed breaking backwards compatibility. Andrius

Bug#1068294: RFH: liboqs -- library for quantum-safe cryptographic algorithms

2024-04-02 Thread Andrius Merkys
Package: wnpp Severity: normal In the light of recent calls to increase the quality and the bus factor of security-related packages, I request assistance with maintaining the liboqs package. I do not have enough time nor expertise to properly maintain liboqs alone. The package is sid-only pe

Bug#1068381: closed by Debian FTP Masters (reply to Andrius Merkys ) (Bug#1068381: fixed in openapi-specification 3.1.0-2)

2024-04-04 Thread Andrius Merkys
On 2024-04-04 15:41, Julian Gilbey wrote: Wow, that was fast - thank you! You are welcome - hope that helps! Best wishes, Andrius

Bug#1036769: lintian: Check for certificates .pem/.crt/.pkcs12 with expiry set

2024-05-13 Thread Andrius Merkys
Control: owner -1 ! Hi, On Thu, 25 May 2023 17:27:48 +0200 Florian Lohoff wrote: i am in the middle of a stretch rebuild for mipsel (Upgrade path from jessie as stretch dropped 75% of supported systems with mips32) A big issue are certificates, mostly for build tests which have an expire date

Bug#1035833: cpptraj: autopkgtest failure everywhere except on amd64

2024-05-13 Thread Andrius Merkys
On Wed, 10 May 2023 02:29:08 +0530 Kiran S Kunjumon wrote: === FAILURES === TEST: /tmp/autopkgtest-lxc.kz5vbtvg/downtmp/build.qgE/src/test/Test_SPAM CPPTRAJ: SPAM Test ../MasterTest.sh: line 495: 3218 Killed $c

Bug#1071089: RM: cpptraj [arm64 armel armhf i386 mips64el ppc64el riscv64 s390x] -- ROM; FTBFS on non-amd64 archs

2024-05-13 Thread Andrius Merkys
Package: ftp.debian.org Severity: normal Hello, Please remove cpptraj binaries for the following architectures: arm64 armel armhf i386 mips64el ppc64el riscv64 s390x It FTBFS on non-amd64 architectures as noticed in #1035833. Andrius

Bug#1071176: ITP: python-htmltools -- Tools for creating, manipulating, and writing HTML

2024-05-15 Thread Andrius Merkys
Package: wnpp Owner: Andrius Merkys Severity: wishlist * Package name: python-htmltools Version : 0.5.1 Upstream Author : Posit Software, PBC * URL : https://github.com/rstudio/py-htmltools * License : Expat Programming Lang: Python Description

Bug#1071207: ITP: r-cran-calculus -- High Dimensional Numerical and Symbolic Calculus

2024-05-15 Thread Andrius Merkys
Package: wnpp Owner: Andrius Merkys Severity: wishlist * Package name: r-cran-calculus Version : 1.0.1 Upstream Author : Emanuele Guidotti * URL : https://cran.r-project.org/package=calculus * License : GPL-3 Programming Lang: GNU R Description

Bug#1035833: cpptraj: autopkgtest failure everywhere except on amd64

2024-05-17 Thread Andrius Merkys
Control: severity -1 important Control: retitle -1 cpptraj: FTBFS on \!amd64 On Wed, 10 May 2023 02:29:08 +0530 Kiran S Kunjumon wrote: You package cpptraj has an autopkgtest, great. However, it fails everywhere except on amd64. Can you please investigate the situation and fix it? I have ex

Bug#1070770: lintian: check for testing presence of "nodocs" in DEB_BUILD_OPTIONS

2024-05-20 Thread Andrius Merkys
On 2024-05-19 15:48, Julian Gilbey wrote: But here I'd suggest doing the opposite: checking for valid build options (and note: this is a check for DEB_BUILD_OPTIONS, not for DEB_BUILD_PROFILES). There is a very short list of standard build options: those listed in dpkg-buildpackage(1) (parallel=

Bug#1071573: ITP: libnet-ssl-expiredate-perl -- obtain expiration date of certificate

2024-05-21 Thread Andrius Merkys
Package: wnpp Owner: Mason James Severity: wishlist Control: block 1036769 by -1 X-Debbugs-CC: m...@kohaaloha.com * Package name: libnet-ssl-expiredate-perl Version : 1.24 Upstream Author : Hirose Masaaki * URL : https://metacpan.org/release/Net-SSL-ExpireDate * Licen

Bug#1071655: pytorch: FTBFS on ppc64el

2024-05-22 Thread Andrius Merkys
Source: pytorch Version: 2.1.2+dfsg-4 Severity: serious Tags: ftbfs Hello, pytorch FTBFS on ppc64el: FAILED: caffe2/CMakeFiles/torch_cpu.dir/__/aten/src/ATen/native/Col2Im.cpp.o /usr/bin/c++ -DAT_PER_OPERATOR_HEADERS -DCAFFE2_BUILD_MAIN_LIB -DFMT_HEADER_ONLY=1 -DHAVE_MALLOC_USABLE_SIZE=1 -DHA

Bug#1071573: Status of libnet-ssl-expiredate-perl

2024-05-26 Thread Andrius Merkys
Control: owner -1 ! Hello, It is quite important to me to get libnet-ssl-expiredate-perl done ASAP. Thus if you do not have any objections, I am going to finalize it. Andrius

Bug#1059706: epics-base.pc is still broken

2024-05-27 Thread Andrius Merkys
Hi, On Sat, 4 May 2024 22:53:36 +0900 Kentaro HAYASHI wrote: I've attached PoC patches which are based on https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1059706#33 Before: $ pkg-config --cflags epics-base -I/build/reproducible-path/epics-base-7.0.8+dfsg1/include -I/build/reproducible-pat

Bug#1071573: Status of libnet-ssl-expiredate-perl

2024-05-27 Thread Andrius Merkys
Hi Mason, On 2024-05-27 13:11, Mason James wrote: sorry for my late reply and no objections from me! Now worries, I finished the package and uploaded today. Best, Andrius

Bug#1069873: rdkit: FTBFS convert: Unable to read font (/usr/share/fonts/type1/gsfonts/n019003l.pfb).

2024-05-27 Thread Andrius Merkys
Control: severity -1 important On Fri, 26 Apr 2024 09:25:06 +0300 Andrius Merkys wrote: Since I need to upload rdkit to experimental to deal with time_t64 transition, I am going to disable latexpdf documentation building for the time being and deal with this issue later. I have disabled

Bug#1039087: removing embeded version of yajl

2024-05-28 Thread Andrius Merkys
Hi, On 2024-05-28 17:49, PICCA Frederic-Emmanuel wrote: following a different path..., I added this in the rules file -export POSIX_CFLAGS+=$(CFLAGS) +export POSIX_CFLAGS+=$(CFLAGS) $(shell pkgconf --cflags yajl) export POSIX_CFLAGS+=$(CPPFLAGS) export POSIX_CPPFLAGS+=$(CPPFLAGS) -export POSIX

Bug#1064311: rdkit: NMU diff for 64-bit time_t transition

2024-04-23 Thread Andrius Merkys
Hi, On Mon, 19 Feb 2024 21:35:16 + Steve Langasek wrote:> Since turning on 64-bit time_t is being handled centrally through a change to the default dpkg-buildflags (https://bugs.debian.org/1037136), it is important that libraries affected by this ABI change all be uploaded close together

Bug#1063124: libccp4: NMU diff for 64-bit time_t transition

2024-04-24 Thread Andrius Merkys
Hi, On Mon, 05 Feb 2024 07:52:37 + Steve Langasek wrote: If you have any concerns about this patch, please reach out ASAP. Although this package will be uploaded to experimental immediately, there will be a period of several days before we begin uploads to unstable; so if information becom

Bug#1064311: rdkit: NMU diff for 64-bit time_t transition

2024-04-25 Thread Andrius Merkys
Hi Chris, On 2024-04-25 00:57, Chris Hofstaedtler wrote: t64 is already in unstable and making its way to testing. So you are a bit late with getting rdkit fixed for t64. An upload with t64 binaries is required as soon as possible. Given the packages have to go to binary-NEW, you must upload wi

Bug#1069873: rdkit: FTBFS convert: Unable to read font (/usr/share/fonts/type1/gsfonts/n019003l.pfb).

2024-04-25 Thread Andrius Merkys
Source: rdkit Version: 202309.3-3 Severity: serious Tags: ftbfs sid Hello, rdkit FTBFS with the following error in latexpdf documentation build: Extension error: convert exited with error: [stderr] b'convert: Unable to read font (/usr/share/fonts/type1/gsfonts/n019003l.pfb).\n' [stdout] b'' m

Bug#1065660: antlr4-maven-plugin: please provide debian-versioned maven coordinates

2024-04-25 Thread Andrius Merkys
Hi, On 2024-04-25 19:12, Santiago Vila wrote: I noticed that chemicaltagger currently FTBFS and I believe it is because of this problem, so to avoid duplicate reports, I'm raising this one to serious. A build log for chemicaltagger is available here: https://tests.reproducible-builds.org/deb

Bug#1065660: antlr4-maven-plugin: please provide debian-versioned maven coordinates

2024-04-26 Thread Andrius Merkys
Control: severity -1 important Control: tags -1 - ftbfs Hi, On 2024-04-25 19:12, Santiago Vila wrote: I noticed that chemicaltagger currently FTBFS and I believe it is because of this problem, so to avoid duplicate reports, I'm raising this one to serious. A build log for chemicaltagger is a

Bug#1064311: rdkit: NMU diff for 64-bit time_t transition

2024-04-29 Thread Andrius Merkys
Hi, On Wed, 24 Apr 2024 23:57:17 +0200 Chris Hofstaedtler wrote:> An upload with t64 binaries is required as soon as possible. Given the packages have to go to binary-NEW, you must upload with binaries, and then probably follow up with a source-only upload once they are ACCEPTed. t64 binarie

Bug#956194: streamlit status

2024-04-29 Thread Andrius Merkys
Hello, Is anybody still interested in streamlit? Some time ago I packaged its dependency node-xxhashjs and ended up maintaining it. I do not use node-xxhashjs myself and would like to pass its maintenance to people interested in streamlit. Andrius

Bug#1068925: 1068925: macromoleculebuilder should be limited to 64bit

2024-05-02 Thread Andrius Merkys
Control: owner -1 ! Hello, Upstream has confirmed that macromoleculebuilder should be limited to 64bit. I am going to limit the architectures and file for RM on armhf soon. Andrius

Bug#1070275: RM: macromoleculebuilder [armhf] -- ROM; unsupported on 32bit archs

2024-05-02 Thread Andrius Merkys
Package: ftp.debian.org Severity: normal Hello, Please remove macromoleculebuilder binaries for armhf. The upstream has confirmed the package is no longer supported on 32bit architectures. Andrius

Bug#1068578: RFH: singularity-container -- container platform focused on supporting "Mobility of Compute"

2024-04-07 Thread Andrius Merkys
Hi Nilesh, On 2024-04-07 15:28, Nilesh Patra wrote: Assistance required with maintaining the singularity-container package. I am not offering help with singularity-container, but do you by any chance know why apptainer is not packaged for Debian? I cannot find a wnpp bug. Thanks for caring

Bug#1068626: libdwarf-dev: please provide CMake files

2024-04-08 Thread Andrius Merkys
Package: libdwarf-dev Version: 20210528-1 Hello, dwarfutils seem to contain CMake files needed to find libdwarf using CMake's find_library(). However, these files do not seem to be installed into the libdwarf-dev binary package. It might be because the package is currently built using configu

Bug#1068692: RFP: python-pycddl -- Deserialize CBOR and/or do CDDL schema validation

2024-04-09 Thread Andrius Merkys
Package: wnpp Severity: wishlist X-Debbugs-CC: pkg-rust-maintain...@lists.alioth.debian.org * Package name: python-pycddl Version : 0.6.1 Upstream Author : Systema Development LLC * URL : https://gitlab.com/tahoe-lafs/pycddl * License : Expat Programming Lang

Bug#1068708: Building with EPICS fails because the compiler cannot find `compilerSpecific.h`.

2024-04-10 Thread Andrius Merkys
Hi Florian, On 2024-04-09 16:38, Florian Forster wrote: Building with EPICS fails because the compiler cannot find `compilerSpecific.h`: ``` In file included from /usr/include/epics/epicsThread.h:62, from /usr/include/epics/cadef.h:35, from src/epics.c:26: /

Bug#1059706: epics-base.pc is still broken

2024-04-10 Thread Andrius Merkys
control: reopen -1 control: found -1 7.0.8+dfsg1-1 Hello, As epics-base.pc still contains incorrect paths, I am reopening this bug. Andrius

Bug#1068708: Building with EPICS fails because the compiler cannot find `compilerSpecific.h`.

2024-04-10 Thread Andrius Merkys
Hi Florian, On 2024-04-10 16:40, Florian Forster wrote: pkg-config references paths (/build/reproducible-path/…) that likely exist on the build system, but are not provided by the package: ``` # pkg-config epics-base --cflags | sed -e 's/  */\n/g' -I/build/reproducible-path/epics-base-7.0.8+df

Bug#1068925: [Debichem-devel] Bug#1068925: macromoleculebuilder: FTBFS on armhf (error: inconsistent deduction for auto return type: 'long int' and then 'long long int')

2024-04-15 Thread Andrius Merkys
control: forwarded -1 https://simtk.org/tracker/?func=detail&group_id=359&atid=827&aid=3289 Hi, On 2024-04-13 16:52, Kentaro HAYASHI via Debichem-devel wrote: Dear Maintainer, macromoleculebuilder fails to build on armhf. FYI: https://buildd.debian.org/status/fetch.php?pkg=macromoleculebu

Bug#1069098: emboss: all executables segfault on s390x

2024-04-16 Thread Andrius Merkys
Package: emboss Version: 6.6.0+dfsg-9 Severity: important Tags: bullseye bookworm trixie sid X-Debbugs-CC: debian-...@lists.debian.org Hello, All emboss executables segfault on s390x since bullseye. Segfault is evident when calling any of emboss executables without CLI arguments or only with '

Bug#1069098: emboss: all executables segfault on s390x

2024-04-16 Thread Andrius Merkys
Hi Andreas, On 2024-04-17 08:32, Andreas Tille wrote: I'd recommend following the procedure you supposed in https://lists.debian.org/debian-med/2024/04/msg00034.html Someone needs to file removal requests for s390x for the rdepends from emboss, thought. Thanks, this is what I am going to

Bug#1069142: emboss: build time testsuite is failing silently

2024-04-16 Thread Andrius Merkys
Source: emboss Version: 6.4.0-3 Severity: important Owner: Andrius Merkys Hello, While looking into why #1069098 has not been detected earlier, I noticed that emboss build time testsuite is silently failing since at least 6.4.0-3. This needs fixing in order to avoid problems similar to

Bug#1069142: emboss: build time testsuite is failing silently

2024-04-17 Thread Andrius Merkys
Hi Charles, On Wed, 17 Apr 2024 09:30:03 +0300 Andrius Merkys wrote: While looking into why #1069098 has not been detected earlier, I noticed that emboss build time testsuite is silently failing since at least 6.4.0-3. This needs fixing in order to avoid problems similar to #1069098. I

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