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

2017-06-08 Thread Andrius Merkys
ld I 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

2017-06-07 Thread Andrius Merkys
o team 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

2017-06-07 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys <andrius.mer...@gmail.com> * Package name: cod-tools Version : 2.0 Upstream Author : Saulius Gražulis <grazu...@ibt.lt>, Andrius Merkys <andrius.mer...@gmail.com>, Antanas Vaitkus <antanas.vaitk

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 <grazu...@ibt.lt>, Andrius Merkys <andrius.mer...@gmail.co

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#878422: ITP: voronota -- Voronoi diagram-based tool to find atom contacts

2017-10-13 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys <andrius.mer...@gmail.com> * Package name: voronota Version : 1.18.1877 Upstream Author : Kliment Olechnovič <klim...@ibt.lt> * URL : https://bitbucket.org/kliment/voronota * License : MIT

Bug#864713: Bug #864713: cod-tools package is ready

2017-09-29 Thread Andrius Merkys
. Sincerely, Andrius Merkys -- Andrius Merkys PhD student at Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#882399: ITP: spglib -- C library for crystal symmetry determination

2017-11-22 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys <andrius.mer...@gmail.com> * Package name: spglib Version : 1.10.1 Upstream Author : Atsushi Togo <atz.t...@gmail.com> * URL : https://atztogo.github.io/spglib/ * License : BSD-3-Clause Prog

Bug#602113: Debian packaging of spglib

2017-11-22 Thread Andrius Merkys
there? If not, would you mind if I start packaging spglib there (either on top or as a separate branch)? Best wishes, Andrius Merkys -- Andrius Merkys PhD student at Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#883840: Retitling the bug report as per new upstream release of spglib

2017-12-14 Thread Andrius Merkys
retitle 883840 RFS: spglib/1.10.2-1 [ITP] -- C library for crystal symmetry determination thanks I have updated the package as per new upstream patch release of "spglib". Andrius -- Andrius Merkys PhD student at Vilnius University Institute of Biotechnology, Saulėtekio al. 7, ro

Bug#883840: RFS: spglib/1.10.1-1 [ITP] -- C library for crystal symmetry determination

2017-12-08 Thread Andrius Merkys
it the following URL: https://anonscm.debian.org/git/debian-science/packages/spglib.git Alternatively, a package can be GIT cloned from the packaging repository by: git clone git://anonscm.debian.org/git/debian-science/packages/spglib.git Best regards, Andrius Merkys

Bug#880167: fp-utils-3.0.0: package installs lstlang[123].sty that hide files in texlive-latex-recommended

2017-10-30 Thread Andrius Merkys
Package: fp-utils-3.0.0 Version: 3.0.0+dfsg-2 Severity: normal Dear Maintainer, * What led up to the situation? I have installed texlive-latex-recommended and fp-utils-3.0.0. Files lstlang[123].sty are installed by both packages in different destinations, however, ones that

Bug#880167: fp-utils-3.0.0: package installs lstlang[123].sty that hide files in texlive-latex-recommended

2017-10-31 Thread Andrius Merkys
Hi Paul, thanks for a quick reply! Best wishes, Andrius On 10/30/2017 09:15 PM, Paul Gevers wrote: > Hi Andrius, > > On 30-10-17 10:16, Andrius Merkys wrote: >> I have installed texlive-latex-recommended and fp-utils-3.0.0. Files >> lstlang[123].sty are installed >

Bug#884867: Package libspreadsheet-readsxc-perl is ready

2017-12-20 Thread Andrius Merkys
Dear Gregor, thank you for reviewing my package! I will check the TODO list and fix the package accordingly. Many thanks, Andrius On 12/20/2017 08:20 PM, gregor herrmann wrote: > On Wed, 20 Dec 2017 19:44:08 +0200, Andrius Merkys wrote: > >> I consider the package libspreadsheet-

Bug#884867: libspreadsheet-read-perl: depends on Spreadsheet::ReadSXC, which is being packaged as libspreadsheet-readsxc-perl

2017-12-20 Thread Andrius Merkys
::ReadSXC (libspreadsheet-readsxc-perl). The bug could be fixed by adding libspreadsheet-readsxc-perl to Debian and listing it as a dependency of libspreadsheet-read-perl in its debian/control. Best wishes, Andrius Merkys -- System Information: Debian Release: stretch/sid APT prefers xenial-updates

Bug#884866: Package libspreadsheet-readsxc-perl is ready

2017-12-20 Thread Andrius Merkys
-- Andrius Merkys PhD student at Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#884866: Bug#884867: Package libspreadsheet-readsxc-perl is ready

2017-12-21 Thread Andrius Merkys
/2017 08:20 PM, gregor herrmann wrote: > On Wed, 20 Dec 2017 19:44:08 +0200, Andrius Merkys wrote: > >> I consider the package libspreadsheet-readsxc-perl ready to be uploaded >> to Debian. I have prepared it in >> https://anonscm.debian.org/git/pkg-perl/packages/libspre

Bug#897952: aspell-autobuildhash warnings on upgrade

2018-05-05 Thread Andrius Merkys
means that due to invalid characters these words are altogether removed from prepared hash. andrius@amalas:~$ dpkg -S /usr/sbin/aspell-autobuildhash dictionaries-common: /usr/sbin/aspell-autobuildhash andrius@amalas:~$ dpkg -l | grep dictionaries-common ii dictionaries-common 1.27.2 all spelling dictionaries - common utilities Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#898609: libvecmath-java could provide symlinks in /usr/share/maven-repo/ for maven-debian-helper

2018-05-14 Thread Andrius Merkys
Package: libvecmath-java Severity: wishlist Hello, the package could provide symlinks for packaging against it with maven-debian-helper. I will soon prepare a PR with this functionality. Best wishes, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7

Bug#898609: libvecmath-java could provide symlinks in /usr/share/maven-repo/ for maven-debian-helper

2018-05-14 Thread Andrius Merkys
elocation for the older java3d:vecmath coordinates. OK, I will look into this a bit later. Thanks, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#898644: ITP: refmac-dictionary -- dictionary for macromolecular refinement and model building

2018-05-14 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys <andrius.mer...@gmail.com> Control: block 897579 by -1 * Package name: refmac-dictionary Version : 5.41 Upstream Author : Garib Murshudov <ga...@mrc-lmb.cam.ac.uk> * URL : http://www2.mrc-lmb.cam.

Bug#635182: cdk 2.1 released

2018-05-14 Thread Andrius Merkys
dependencies missing in Debian. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#896530: No patch is required for python3-ase to use python3-spglib v1.10.3

2018-04-27 Thread Andrius Merkys
Dear Maintainers, I was wrong -- no patch is necessary for python3-ase to use python3-spglib v1.10.3. Therefore, dependency on python3-spglib might be added as soon as python3-spglib is uploaded. Best, Andrius

Bug#897579: mmdb transition

2018-05-10 Thread Andrius Merkys
Thanks for information. Best, Andrius On 05/10/2018 09:19 AM, Emilio Pozuelo Monfort wrote: > There's nothing to do at this moment, just waiting for mmdb to be old enough > so > that britney attempts to migrate it to testing. That should happen in ~16 > hours. -- Andrius Me

Bug#897579: mmdb transition

2018-05-10 Thread Andrius Merkys
architectures. What would be the next steps towards the completion of this transition? Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#898843: Error with producer 'SQL::Translator::Producer::JSON': Can't locate object method "imap_url" via package "JSON"

2018-05-16 Thread Andrius Merkys
bsql-translator-perl 0.11024-1 libjson-perl 2.97001-1 -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#897579: mmdb2 transition

2018-05-22 Thread Andrius Merkys
Hello, am I right to assume that the transition is complete? New version of the package is in unstable and the tracker (https://release.debian.org/transitions/html/auto-mmdb.html) is already dead. If so, the transition bug can be closed. Best, Andrius -- Andrius Merkys Vilnius University

Bug#896530: No patch is required for python3-ase to use python3-spglib v1.10.3

2018-06-06 Thread Andrius Merkys
Hi once more, On 06/06/2018 03:30 PM, Graham Inggs wrote: > Is this ready to go?  I am about to upload 3.16.2-1. I have tested GIT commit 318262a77753a6854320f8b4d8f40a345abe2486 of python-ase, my MR works as expected. Best, Andrius -- Andrius Merkys Vilnius University Instit

Bug#896530: No patch is required for python3-ase to use python3-spglib v1.10.3

2018-06-06 Thread Andrius Merkys
you like?  Build-Depends? Depends? Recommends? I have included it into Depends of python3-ase. > > A tested patch will be most welcome. As said, I have tested the patch with 3.16.0-2. I will try it with 3.16.2-1 too. Many thanks, Andrius -- Andrius Merkys Vilnius University Institute o

Bug#901025: python3-dput: AttributeError: module 'urllib' has no attribute 'request'

2018-06-08 Thread Andrius Merkys
ume this is an error. A proper error message should be issued should there be a problem with the input. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#901060: lammps: generate irreducible q-points with spglib

2018-06-08 Thread Andrius Merkys
Package: lammps Severity: wishlist lammps has an optional feature to generate irreducible q-points set via spglib, which is now packaged in Debian. I attach a patch to enable this feature. lammps must build-depend on libsymspg-dev in order to use it. Best, Andrius -- Andrius Merkys Vilnius

Bug#901047: debian-science: s/spglib/libsymspg-dev/

2018-06-08 Thread Andrius Merkys
Package: src:debian-science Version: 1.7 Please replace spglib with libsymspg-dev, since this is the libdevel package from spglib source. Thanks, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#901392: ITP: aiida -- Automated Interactive Infrastructure and Database for Computational Science

2018-06-12 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys Control: block -1 by 901022 * Package name: aiida Version : 1.0.0a1 Upstream Author : Giovanni Pizzi et al. * URL : http://www.aiida.net * License : MIT Programming Lang: Python Description

Bug#901393: python-pip: new upstream release 10.0.1

2018-06-12 Thread Andrius Merkys
Source: python-pip Severity: wishlist Control: block 901392 by -1 Hello, there is a new major release of python-pip, v10.0.1, which fixes a bunch of bugs (https://pip.pypa.io/en/stable/news/). However, as a major release it may not be backwards-compatible. Best, Andrius

Bug#901346: RFS: reentry/1.2.1a2-1 -- plugin manager based on setuptools entry points

2018-06-11 Thread Andrius Merkys
Package: sponsorship-requests Severity: normal Hello, I am looking for a sponsor for my package "reentry". * Package name: reentry Version : 1.2.1a2 Upstream Author : Rico Haeuselmann * URL : https://pypi.org/project/reentry/ * License : MIT Programming

Bug#901022: ITP: reentry -- plugin manager based on setuptools entry points

2018-06-07 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys * Package name: reentry Version : 1.2.1a2 Upstream Author : Rico Haeuselmann * URL : https://pypi.org/project/reentry/ * License : MIT Programming Lang: Python Description : plugin manager based

Bug#814867: InChI license

2018-05-30 Thread Andrius Merkys
Debian altogether. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#814867: InChI license

2018-06-05 Thread Andrius Merkys
ry. Best wishes, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#814867: inchi: RFP -> ITP

2018-06-05 Thread Andrius Merkys
retitle 814867 ITP: inchi -- International Chemical Identifier generator owner 814867 ! thanks Hello, I am interested in packaging inchi. Everyone willing to contribute is welcome. The package is to be maintained by DebiChem. Best, Andrius -- Andrius Merkys Vilnius University Institute

Bug#902745: clipper: please make the build reproducible

2018-07-01 Thread Andrius Merkys
o it's not very useful for end-users anyway...) Hi, thanks for the patch! I have incorporated it, the fixed package is ready to be uploaded (I don't have privileges myself). Best wishes, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 L

Bug#902404: maven-ant-helper: Provider com.bea.xml.stream.MXParserFactory not found

2018-06-25 Thread Andrius Merkys
m. I would expect maven-ant-helper depend on it. Best, Andrius [1] https://salsa.debian.org/merkys-guest/openchemlib, git commit  d3ef782a917f30c9bfb74c7da3468a49bb12f1bb -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#902404: maven-ant-helper: Provider com.bea.xml.stream.MXParserFactory not found

2018-06-26 Thread Andrius Merkys
nt-helper with maven-debian-helper. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#901929: transition: openbabel

2018-06-20 Thread Andrius Merkys
On 06/20/2018 07:40 PM, Emilio Pozuelo Monfort wrote: > mpqc3 is not in testing so no big deal. Go ahead then. Thanks! Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#901916: chemical-structures: provide data-only package

2018-06-20 Thread Andrius Merkys
hen depend on the 'chemical-structures-data'. I could help with reorganizing the package should this be deemed useful. Best wishes, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#901997: python-pycodcif has unsatisfiable dependencies

2018-06-21 Thread Andrius Merkys
librarian.net/375388523/cod-tools_2.1+dfsg-1_2.1+dfsg-1ubuntu1.diff.gz > this is already fixed and waiting for sponsor to be uploaded. Many thanks! Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#897579: transition: mmdb

2018-05-02 Thread Andrius Merkys
1-1~exp2), ssm (1.4-1~exp2). This is my first transition, therefore please let me know should there be any issues. Thanks, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#897579: transition: mmdb

2018-05-03 Thread Andrius Merkys
On 05/03/2018 08:59 AM, Emilio Pozuelo Monfort wrote: > Please go ahead. Thank you. > Are you going to upload the rdeps from experimental to unstable as well? Yes. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 V

Bug#897673: ITP: coot -- model building program for macromolecular crystallography

2018-05-03 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys <andrius.mer...@gmail.com> Control: block -1 by 897579 * Package name: coot Version : 0.8.9.1 Upstream Author : Paul Emsley <paul.ems...@bioch.ox.ac.uk> * URL : http://www2.mrc-lmb.cam.ac.uk/Personal/

Bug#902917: ikiwiki: mass rebuild in postinst resets CSS and favicon.ico

2018-07-03 Thread Andrius Merkys
results in all wikis falling back to the default looks. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#902917: ikiwiki: mass rebuild in postinst resets CSS and favicon.ico

2018-07-03 Thread Andrius Merkys
er with the "output". There is, however, some logic in keeping the *.css and *.ico files separate from the *.mdwn input (such as different sites using different styles, but being compiled from the same *.mdwn source). Nevertheless, this bug can be closed. Sorry for the noise. Thanks,

Bug#884867: marked as done (libspreadsheet-read-perl: depends on Spreadsheet::ReadSXC, which is being packaged as libspreadsheet-readsxc-perl)

2018-01-07 Thread Andrius Merkys
> misconfiguration somewhere. Please contact ow...@bugs.debian.org > immediately.) > > > > > ___ > pkg-perl-maintainers mailing list > pkg-perl-maintain...@lists.alioth.debian.org > http://lists.alioth.debian.org/cgi-bin/ma

Bug#884866: Bug#884867: Package libspreadsheet-readsxc-perl is ready

2017-12-21 Thread Andrius Merkys
Dear Gregor, On 12/21/2017 03:29 PM, gregor herrmann wrote: > I've uploaded the package to the NEW queue. many thanks for reviewing and uploading the package! Best wishes, Andrius -- Andrius Merkys PhD student at Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325

Bug#884866: ITP: libspreadsheet-readsxc-perl -- Extract OpenOffice 1.x spreadsheet data

2017-12-20 Thread Andrius Merkys
Package: wnpp Severity: wishlist Owner: Andrius Merkys <andrius.mer...@gmail.com> * Package name: libspreadsheet-readsxc-perl Version : 0.20 Upstream Author : Christoph Terhechte <terhec...@cpan.org> * URL : https://metacpan.org/release/Spreadsheet-ReadS

Bug#884867: Dependency of libspreadsheet-read-perl is being packaged for Debian

2017-12-20 Thread Andrius Merkys
block 884867 by 884866 thanks Correct me if I am wrong, but I suppose that dependency on package libspreadsheet-readsxc-perl which is not yet in the Debian could be threated as being blocked by libspreadsheet-readsxc-perl ITP. Best, Andrius -- Andrius Merkys PhD student at Vilnius University

Bug#901929: transition: openbabel

2018-06-20 Thread Andrius Merkys
in [1] against the new version of libopenbabel. All seem to build successfully except mpqc3, which FTBFS on x86_64 unstable no matter which libopenbabel version I use. Thanks, Andrius [1] https://release.debian.org/transitions/html/auto-openbabel.html -- Andrius Merkys Vilnius University Ins

Bug#904639: elpa: package the 2018.05.001.rc1 release

2018-07-26 Thread Andrius Merkys
Source: elpa Severity: wishlist Control: tags -1 + help Hello, a new release (actually, an rc) of elpa is ready. I attempted to package it in a GIT fork [1], however, all its tests fail, seemingly due to inability to force more than one task to be run by MPI. I have no experience with MPI and

Bug#901393: python-pip: versioning scheme changed

2018-08-01 Thread Andrius Merkys
Control: retitle -1 python-pip: new upstream release 18.0 Hello, the upstream have switched from semver towards year number-based versioning scheme. Therefore, v10 is followed by v18. Andrius

Bug#901929: openbabel: transition complete

2018-08-02 Thread Andrius Merkys
Hello, the transition has been completed for some time now. I suppose this bug could be closed. Best, Andrius

Bug#906907: ITP: pw -- A simple command-line password manager

2018-08-21 Thread Andrius Merkys
ditional or related info. > It provides commands for manipulating the passwords, allowing the user > to add, remove, edit, generate passwords etc. > > Repository: https://gitlab.com/dashohoxha/pw > Documentation: https://dashohoxha.gitlab.io/pw/man/ > -- Andrius Merkys Vil

Bug#907374: ITP: pspio -- multiformat I/O library for pseudopotentials

2018-08-27 Thread Andrius Merkys
to maintain the package inside the Debichem team. -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#907412: ITP: pslibrary -- library of ultrasoft and PAW pseudopotentials

2018-08-27 Thread Andrius Merkys
=8672732540737765863= -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#907395: abinit: new upstream release 8.8.4

2018-08-27 Thread Andrius Merkys
Source: abinit Control: block 897696 by -1 Control: block -1 by 578829 Hello, there is a new upstream release, fixing at least #897696. Please consider packaging it. New release depends on wannier90, hence the block by #578829. Andrius -- Andrius Merkys Vilnius University Institute

Bug#907456: RFS: pslibrary/1.0.0-1 [ITP] -- library of ultrasoft and PAW pseudopotentials

2018-08-28 Thread Andrius Merkys
sevier.com/sd/article/S0927025614005187 [2] https://scholar.google.lt/scholar?as_ylo=2018=en_sdt=2005=0,5=8672732540737765863= [3] https://salsa.debian.org/merkys-guest/pslibrary <https://salsa.debian.org/science-team/wannier90> -- Andrius Merkys Vilnius University Institute of Biotechnolog

Bug#897696: tag 897696 as fixed-upstream

2018-08-27 Thread Andrius Merkys
|control: tags 897696 + fixed-upstream Hello, the bug indeed seems to be fixed at least in 8.8.4, which builds in sid on amd64. Andrius | -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#907395: abinit: package for v8.8.4 prepared

2018-08-29 Thread Andrius Merkys
Control: unblock -1 by 578829 Hello, I have packaged 8.8.4 release. Please consider uploading it. BTW, I was wrong about required build-dependency on wannier90, therefore, I remove its ITP from the blocking bugs. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology

Bug#903979: Parse::Yapp non-deterministic output problem solved

2018-07-20 Thread Andrius Merkys
On 2018.07.20 00:08, gregor herrmann wrote: > Built & uploaded, with small tweaks :) Many thanks! :) Best, Andrius signature.asc Description: OpenPGP digital signature

Bug#903986: libtm-perl: installs upstream-generated TM::AsTMa::Fact{,2} instead of (re)building them

2018-07-17 Thread Andrius Merkys
Package: libtm-perl Hello, the package installs upstream-generated TM::AsTMa::Fact and TM::AsTMa::Fact2 instead of (re)building them from the source grammars, which seem to be located in yapp/. I suggest repackaging the source to exclude the upstream-generated parsers and regenerating them

Bug#903982: libxml-xql-perl: installs upstream-generated XML::XQL::Parser instead of (re)building it

2018-07-17 Thread Andrius Merkys
Package: libxml-xql-perl Hello, the package installs upstream-generated XML::XQL::Parser instead of (re)building it from the source grammar, which seems to be located in XQLParser/Parser.yp. I suggest repackaging the source to exclude XQLParser/Parser.pm and regenerating it from the source

Bug#903984: libmath-calc-units-perl: installs upstream-generated Math::Calc::Units::Grammar instead of (re)building it

2018-07-17 Thread Andrius Merkys
Package: libmath-calc-units-perl Hello, the package installs upstream-generated |Math::Calc::Units::Grammar| instead of (re)building it from the source grammar, which seems to be located in Units/Grammar.y. I suggest repackaging the source to exclude Units/|Grammar|.pm and regenerating it from

Bug#903979: libparse-yapp-perl: non-deterministic output

2018-07-17 Thread Andrius Merkys
Package: libparse-yapp-perl Control: forwarded -1 https://rt.cpan.org/Public/Bug/Display.html?id=122977 Hello, parsers generated by libparse-yapp-perl are not reproducible bit-by-bit, most likely due to non-deterministic order of Perl hash keys. While this issue does not affect the behavior of

Bug#903979: Parse::Yapp non-deterministic output problem solved

2018-07-18 Thread Andrius Merkys
Control: tags 903979 + fixed Hello, I have fixed the issue of non-deterministic output by sorting all hash keys prior to their processing. I have also added a test to enforce deterministic output. I consider the package ready to be uploaded. Best, Andrius -- Andrius Merkys Vilnius

Bug#903979: Parse::Yapp non-deterministic output problem solved

2018-07-18 Thread Andrius Merkys
ners can claim that :) > I can take a look in the evening, if noone beats me to it. Thanks! > BTW, for the 2 reverse dependencies: I don't think they need > repackaging, just cleaning of the generated files at build done. Indeed, repackaging is probably an overkill. Best, Andrius --

Bug#903867: cod-tools: fix is pending

2018-07-17 Thread Andrius Merkys
Control: tags 903867 + |pending Dear |Santiago, many thanks for the report and hints about how to fix it. I will soon upload the fixed package. Best wishes, Andrius || -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#903979: Parse::Yapp non-deterministic output problem solved

2018-07-18 Thread Andrius Merkys
On 07/18/2018 06:11 PM, gregor herrmann wrote: > No problem; and: you're part of the collective maintainer called > Debian Perl Group :) True indeed :) > Done, and a few notes added to d/changelog, as usual. Great, I will work on them. Best, Andrius -- Andrius Merkys Vilnius U

Bug#903979: Parse::Yapp non-deterministic output problem solved

2018-07-19 Thread Andrius Merkys
my patches upstream. Please let me know should you find more changes necessary. Best wishes, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania signature.asc Description: OpenPGP digital signature

Bug#879752: http://qe-forge.org is down

2018-07-18 Thread Andrius Merkys
Hello, http://qe-forge.org seems to be down. Download page of QE [1] directs to GitHub and GitLab-hosted GIT repositories. So debian/watch should point to either one of them, preferably, IMO, the GitLab one. Andrius [1] http://www.quantum-espresso.org/download -- Andrius Merkys Vilnius

Bug#903904: RFS: wannier90/2.1.0 -- maximally localized Wannier functions

2018-07-16 Thread Andrius Merkys
e packages are not in the Mentors (due to #901025). The packaging is done in Salsa repository at https://salsa.debian.org/science-team/wannier90 and can be reviewed there. The package could be maintained in either Debian Science or DebiChem team. Many thanks, Andrius -- Andrius Merkys Vilnius University

Bug#714730: Found in 1.178

2018-07-24 Thread Andrius Merkys
Control: found -1 1.178 Hello, the issue seems to strike after the upload of version 1.178 into unstable. AFAIK, it causes FTBFS of at least 'elpa' and 'espresso' with message "Fatal Error: Cannot read module file '...' opened at (1), because it was created by a different version of GNU

Bug#901943: (no subject)

2018-07-24 Thread Andrius Merkys
Control: forwarded -1 https://gcc.gnu.org/bugzilla/show_bug.cgi?id=86278 Control: tags -1 + fixed-upstream

Bug#901943: Bug is forwarded and fixed upstream

2018-07-24 Thread Andrius Merkys
Control: forwarded -1 https://gcc.gnu.org/bugzilla/show_bug.cgi?id=86278 Control: tags -1 + fixed-upstream

Bug#904024: libmath-symbolic-perl: installs upstream-generated lib/Math/Symbolic/Parser/Yapp.pm instead of (re)building it

2018-07-18 Thread Andrius Merkys
-- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#903984: libmath-calc-units-perl: rebuilding Math::Calc::Units::Grammar

2018-07-18 Thread Andrius Merkys
is beneficial. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#908458: Missing Vcs-* fields in d/control

2018-09-10 Thread Andrius Merkys
ius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#908493: Duplicate of tao-pegtl

2018-09-10 Thread Andrius Merkys
'. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#903666: cod-tools: missing dependencies

2018-07-12 Thread Andrius Merkys
Source: cod-tools Control: found -1 2.2+dfsg-1 Control: owner -1 ! Hello, cod-tools depends on libdate-calc-perl, what is obvious from autopkgtest log [1]. By the way, failed autopkgtest is not recognized as failed. From build logs [2] is evident that some b-depends are also missing. However,

Bug#903689: cod-tools: missing build-depends

2018-07-13 Thread Andrius Merkys
d bug. I will upload it soon. Best wishes, Andrius [1] https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=903666 -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#908643: dh-r: missing dependency on libswitch-perl

2018-09-12 Thread Andrius Merkys
ndrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#896530: Hard dependency on spglib

2018-04-22 Thread Andrius Merkys
The genetic algorithm for slabs (ase/ga/slab_operators.py) fails without spglib, thus a "hard" dependency. However, the python3-ase code has to be patched to use currently packaged python3-spglib v1.10.3. I will prepare the patches ASAP. Best, Andrius -- Andrius Merkys Vilnius

Bug#896530: Conditional dependency on spglib, which is being packaged as python3-spglib

2018-04-22 Thread Andrius Merkys
Package: python3-ase Version: 3.16.0-1 Control: block -1 by 882399 Dear Maintainers, the package conditionally uses spglib, which is being packaged as python3-spglib. I suggest adding this package to Recommends section of python3-ase once it is ready. Best wishes, Andrius Merkys -- Andrius

Bug#883840: RFS: spglib/1.10.3-1 [ITP]

2018-04-23 Thread Andrius Merkys
5. I'd suggest you install the library in the multiarch directory. > for example /usr/lib/$(dpkg-architecture -qDEB_HOST_MULTIARCH) Done. > 6. tests: your autopkgtest testsuite failed: I will look into this. It is possible that I invoke the Python tests incorrectly. Thanks again! Andrius --

Bug#883840: RFS: spglib/1.10.3-1 [ITP]

2018-04-23 Thread Andrius Merkys
> Please let me know if you think the package is ready. Then I'll check > it again :-) I suppose it's ready now. By the way, the package is already in NEW queue -- should I close this bug? Or is it possible to update a package already in the NEW? Many thanks for help! Andrius -- Andrius

Bug#883840: Retitling the bug report as per new upstream release of spglib

2018-03-28 Thread Andrius Merkys
retitle 883840 RFS: spglib/1.10.3-1 [ITP] -- C library for crystal symmetry determination thanks I have updated the package as per new upstream patch release of "spglib". Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-102

Bug#902649: openbabel: CMake v3.11.2 deprecation warnings

2018-06-28 Thread Andrius Merkys
should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. The input files for CMake should be updated in order not to use the deprecated features. Andrius -- Andrius Merkys Vilnius University

Bug#900458: tag 900458 as fixed upstream

2018-06-29 Thread Andrius Merkys
Control: tags 900458 + |confirmed ||upstream ||fixed-upstream Hello, the bug is fixed upstream. Version 2.2 of the package will be released soon. Andrius | -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#901929: transition: openbabel

2018-06-20 Thread Andrius Merkys
lot would help a lot to track the progress of the transition. Thanks, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#894359: Now we have antlr 4.6 - any chance to get 4.7 soon (Was: beast-mcmc2: Cannot find symbol CharStreams.fromString(newick))

2018-10-15 Thread Andrius Merkys
right now. Best, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#911311: lintian: libjs-jquery-ui distributes neither jquery-ui.structure.css nor jquery-ui.structure.min.css

2018-10-18 Thread Andrius Merkys
warning is somewhat misleading. Thanks, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#911371: antlr4: package v4.7.1 and include Cpp libraries/headers

2018-10-19 Thread Andrius Merkys
Source: antlr4 Owner: Andrius Merkys Control: block -1 by 911302 Control: block 902798 by -1 Control: block 894359 by -1 Hello, I have started packaging antlr4 v4.7.1. Apart from updating the existing binary packages, I have packaged antlr4 Cpp libraries/headers, what seems to be required

Bug#911311: lintian: libjs-jquery-ui distributes neither jquery-ui.structure.css nor jquery-ui.structure.min.css

2018-10-18 Thread Andrius Merkys
Hi Chris, On 2018-10-19 06:15, Chris Lamb wrote: > Fixed in Git, pending upload: many thanks for a prompt fix! Best wishes, Andrius -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

Bug#894359: Now we have antlr 4.6 - any chance to get 4.7 soon (Was: beast-mcmc2: Cannot find symbol CharStreams.fromString(newick))

2018-10-19 Thread Andrius Merkys
https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=911371 -- Andrius Merkys Vilnius University Institute of Biotechnology, Saulėtekio al. 7, room V325 LT-10257 Vilnius, Lithuania

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