apbs (3.0.0+dfsg1-3) unstable; urgency=medium * Team upload. * use -fcommon in CFLAGS to aid build with gcc-10 (managing multiple definitions of common variables). Closes: #956998. * provide python path to inputgen for build-time tests -- Drew Parsons Thu, 23 Jul 2020 17:35:23 +0800 apbs (3.0.0+dfsg1-2) unstable; urgency=medium * Team upload. * reinstate debian patch python3.patch (to specify python executable as python3) -- Drew Parsons Wed, 24 Jun 2020 03:37:37 +0800 apbs (3.0.0+dfsg1-1) experimental; urgency=medium * Team upload. * New upstream release. - now supports Python 3. Drop debian patch python3.patch. - bump to soname 3 (provide libapbs3) * update debian/watch to catch new releases * debhelper compatibility level 13 * update debian/not-installed for unused files installed by build system * lintian lib overrides moved to libapbs3.lintian-overrides * mark libapbs-dev and libapbs3 Multi-Arch: same, apbs-data Multi-Arch: foreign -- Drew Parsons Thu, 18 Jun 2020 16:05:52 +0800 apbs (1.5+dfsg1-3) unstable; urgency=medium * Team upload. * python3.patch, wrong-path-for-interpreter.patch: use python3 as python executable for tests and scripts, fix print statements -- Drew Parsons Fri, 03 Apr 2020 12:05:58 +0800 apbs (1.5+dfsg1-2) unstable; urgency=medium * Team upload. * Split package into component packages supporting shared libraries and python module: libapbs-dev, libapbs1, python3-apbslib. Python 3 support Closes: #936124 * debian patch link_libapbs_routines.patch links libapbs_routines to libapbs_generic and libapbs_mg (providing internal symbols) * debian/not-installed marks components of usr/share/apbs/tools which are deliberately not installed (matlab, windows, osx, etc) -- Drew Parsons Mon, 30 Mar 2020 12:08:59 +0800 apbs (1.5+dfsg1-1) unstable; urgency=medium * Team upload. [ Daniel Leidert ] * debian/apbs-data.install: Fix brace-expansion-in-debhelper-config-file. * debian/compat: Increase dh level to 12. * debian/copyright: Minor update. Use HTTPS. Fix license short name. * debian/rules: Fix debian-rules-uses-unnecessary-dh-argument. (override_dh_install): Remove deprecated options. Make scripts executable. * debian/patches/debian_testfiles.patch (Description): Fix typo. * debian/patches/wrong-path-for-interpreter.patch: Added. - Fix wrong-path-for-interpreter in examples/protein-rna/apbs_unix_dx.py. * debian/patches/series: Adjusted. * debian/upstream: Rename to debian/upstream/metadata. Use HTTPS. [ Drew Parsons ] * update Homepage to http://www.poissonboltzmann.org/ * update debian/watch to track https://github.com/Electrostatics/apbs-pdb2pqr * exclude pdb2pqr from source tarball (reversion with +dfsg1) since pdb2pqr is currently packaged separately. * New upstream release (+dfsg1 excluding pdb2pqr). * provide binary mesh tools in /usr/lib/apbs/tools/bin (linked from share) * activate Python support (uses shared libs) * add debian patches - shared_library_soname.patch assigns a soversion to shared libs - use major version as soname (until ABI proves unstable in the minor version). Requires cmake policy to set CMP0048 as NEW. - python3.patch enables tests to run in python3 * modernize debhelper compatibility with Build-Depends: debhelper-compat (= 12) * Standards-Version: 4.5.0 -- Drew Parsons Sun, 29 Mar 2020 23:54:29 +0800 apbs (1.4.2.1-1) unstable; urgency=medium * New upstream release. * debian/patches/debian_testfiles.patch: Updated. * debian/patches/debian_testfiles.patch: Remove geoflow testcase, no longer working. * debian/patches/debian_testfiles.patch: Include test_cases.cfg in binary package. * debian/control (Build-Depends): Added swig3.0. * debian/rules (override_dh_auto_configure): Removed -DBUILD_SHARED_LIBS and switched -DENABLE_PYTHON to Off. * debian/patches/debian_testfiles.patch: Add /usr/share/apbs/tools/manip/ to python search path. * debian/tests/control: Added needs-root to system-wide test. * debian/patches/debian_make.patch: Updated. * debian/gitlab-ci.yml: New file. -- Michael Banck Fri, 19 Jul 2019 21:20:55 -0300 apbs (1.4-2) UNRELEASED; urgency=medium * Team upload. * fix spelling-error-in-binary lintian warnings * add debian/tests/control for autopkgtest * cme fix dpkg-control * update debhelper to >= 9 * fix hardening-no-pie and hardening-no-bindnow lintian warnings * make debian/copyright machine-readable and check with "cme fix dpkg-copyright" * split to apbs and apbs-data, install examples/ and tests/ to apbs-data * fix script-not-executable lintian warnings * add allow-stderr restriction to debian/tests/control * add tests to debian/tests/control to check the same test when installed, install tools/manip/ to /usr/share/apbs (this is used with tests/) * add debian/README.test and debian/docs -- Tatiana Malygina Wed, 03 Aug 2016 16:46:10 +0300 apbs (1.4-1) unstable; urgency=low * New upstream release. [ Daniel Leidert ] * debian/control (Uploaders): Removed myself. (Standards-Version): Bumped to 3.9.4. (Vcs-Browser, Vcs-Svn): Fixed vcs-field-not-canonical. (DM-Upload-Allowed): Dropped. (Build-Depends): Dropped all autotools related build dependencies, libarpack2-dev, libblas-dev and bc. Added cmake, libpython-dev and zlib1g-dev. * debian/copyright: Updated. * debian/rules: Enable hardening. Dropped all autotools related stuff and rewrote it for cmake build system. * debian/watch: Make regex case insensitive. * debian/patches/03_skip_expensive_tests.patch: Dropped. Upstream changed to cmake. * debian/patches/06_quicktest.patch: Ditto. * debian/patches/07_destdir.patch: Ditto. * debian/patches/08_distclean.patch: Ditto. * debian/patches/09_acinclude_fix.patch: Ditto. * debian/patches/debian_make.patch: Added. - Compile internal libraries statically into apbs. * debian/patches/debian_testfiles.patch: Added. - Skip expensive tests (see 03_skip_expensive_tests.patch). * debian/patches/series: Adjusted. [ Andreas Tille ] * debian/upstream: Author field in BibTeX syntax -- Debichem Team Thu, 08 Aug 2013 18:21:30 +0200 apbs (1.3.0-2) unstable; urgency=low * debian/apbs.install: Adjusted. * debian/apbs.manpages: Added to fix binary-without-manpage. * debian/compat: Increased dh level to 7. * debian/control: Used wrap-and-sort. (Standards-Version): Bumped to recent 3.9.3. (Build-Depends): Removed unused cdbs. Added autotools-dev version requirements. Lowered required debhelper version. (Vcs-Browser): Fixed. * debian/copyright: Updated. Removed BSD license file reference to fix copyright-refers-to-deprecated-bsd-license-file. * debian/rules: Run autotools_dev template. Added override target for dh_install. Added target to install upstream changelog file. * debian/upstream: Added. * debian/README.source: Dropped obsolete file. * debian/patches/*.patch: Updated for quilt. * debian/patches/04_remove_install-exec-am_rule.patch: Dropped. Moved patch content to 07_destdir.patch. * debian/patches/series: Adjusted. -- Daniel Leidert (dale) Sun, 29 Apr 2012 23:35:09 +0200 apbs (1.3.0-1) unstable; urgency=low * New upstream release. [ Daniel Leidert (dale) ] * debian/rules (DEB_CONFIGURE_EXTRA_FLAGS): Don't build nor link against shipped copy of zlib. [ Michael Banck ] * Switch packaging to "3.0 (quilt)" format. * debian/rules: Rewritten for dh. * debian/control (Build-Depends): Removed quilt, bumped required debhelper version to 8. * debian/apbs.install: Install apbs executable explicitly. * debian/patches/07_destdir.patch: New patch, fixes DESTDIR in python setup.py installation in a contributed module. * debian/control (Build-Depends): Added dh-autoreconf, autoconf and automake. * debian/rules: Use --with autoreconf. * debian/rules (override_dh_auto_clean): Run make distclean in examples directory and remove all uncleaned Makefiles. * debian/patches/08_distclean.patch: New patch, fixes Makefile.am in various directories to clean all relevant files on make distclean. * debian/patches/09_acinclude_fix.patch: New patches, rewrites some m4 macros so that recent autoconf versions do not produce faulty shell code, taken from Gentoo. * debian/control (Build-Depends): Added python-setuptools. -- Michael Banck Sun, 11 Mar 2012 19:12:24 +0100 apbs (1.2.1b-1) unstable; urgency=low * New upstream (bugfix) release. * debian/control (Standards-Version): Bumped to 3.8.3. (Build-Depends): Replace libmpich1.0-dev with mpi-default-dev. * debian/rules: Added list-missing target. (DEB_CONFIGURE_EXTRA_FLAGS, DEB_CONFIGURE_SCRIPT_ENV): Use the default MPI implementation for the architecture. * debian/watch: Slightly adjusted for upstream version schema. -- Daniel Leidert (dale) Sun, 13 Dec 2009 15:59:00 +0100 apbs (1.1.0-1) unstable; urgency=low * New upstream release. * debian/apbs.1: Added citation section. (SEE ALSO): User guide is not available locally anymore. * debian/apbs.doc-base, debian/apbs.dirs: Dropped useless files. * debian/apbs.install: Removed documentation files, because the user guide is not shipped anymore (closes: #508980). The lintian overrides are considered by dh_lintian. * debian/control (Uploaders): Removed LI as requested. Thanks for your work! (Build-Depends): Re-added arpack, which is back in main. (Standards-Version): Bumped to 3.8.2 (no other changes). (Vcs-Svn): Fixed vcs-field-uses-not-recommended-uri-format. * debian/copyright: Updated and completed. * debian/rules (DEB_CONFIGURE_EXTRA_FLAGS): Build with arpack. * debian/README.source: Added to comply to policy. * debian/lintian-overrides/apbs: Dropped. License file is not installed anymore. * debian/patches/01_html_documentation.dpatch: Dropped, as there is no documentation installed anymore. * debian/patches/04_remove_install-exec-am_rule.dpatch: Updated/adjusted. * debian/patches/05_reduce_test_suite.dpatch: Dropped (cannot be applied anymore). * debian/patches/00list: Adjusted. -- Daniel Leidert (dale) Fri, 17 Jul 2009 19:06:05 +0200 apbs (1.0.0-2) unstable; urgency=low * debian/patches/06_quicktest.dpatch: New patch, add a `quicktest' target which only runs a couple of small tests. * debian/rules (DEB_MAKE_CHECK_TARGET): Run quicktest instead of test for now. * debian/control (Build-Depends): Removed libarpack2-dev. (closes: #497722) * debian/rules (DEB_CONFIGURE_EXTRA_FLAGS): Removed --with-arpack. -- Michael Banck Thu, 04 Sep 2008 00:00:41 +0200 apbs (1.0.0-1) unstable; urgency=low * New upstream release. + No longer contains a corrupted tarball (closes: #473822). * debian/patches/04_remove_install-exec-am_rule.dpatch: Refreshed. * debian/patches/05_reduce_test_suite.dpatch: New patch, remove most of the coordinates for the ion test to save time (closes: 475064). -- Michael Banck Tue, 10 Jun 2008 14:25:47 +0200 apbs (0.5.1-2) unstable; urgency=low * Acknowledge NMU 0.5.1-1.1 (closes: #462263). Thanks to Colin Tuckley. [ Daniel Leidert ] * debian/apbs.1: Added. * debian/apbs.doc-base (Section): Adjusted accordingly to latest doc-base policy. * debian/apbs.install: Install lintian override. * debian/compat: Raised to level 5. * debian/control: Homepage field transition. Added Vcs fields. Added DM-Upload-Allowed field for DM status. (Maintainer): Set to the debichem team address. Moved Michael to Uploaders. (Uploaders): Added myself and LI Daobing. (Standards-Version): Updated to latest 3.7.3 (no other changes). (Build-Depends): Raised debhelper to v5. Added libarpack2-dev. Added libmpich1.0-dev for MPI support. Added python-minimal for some tests. * debian/copyright: Fixed old-fsf-address-in-copyright-file issue. Updated copyright information. Added exception. * debian/rules: Install the newly added apbs.1 manpage. (DEB_CONFIGURE_EXTRA_FLAGS): Enable building with arpack (not useful atm without tools). Set prefix. (DEB_CONFIGURE_EXTRA_FLAGS, DEB_CONFIGURE_SCRIPT_ENV): Enable MPI. (DEB_MAKE_INSTALL_TARGET): Only install from bin/ as long as we don't use the rest. * debian/watch: Updated to fit new source archive naming. * debian/lintian-overrides/apbs: Added. The documentation contains the license in several formats. [ LI Daobing ] * FTBFS if built twice in a row (Closes: #424100) -- Daniel Leidert (dale) Mon, 10 Mar 2008 08:46:53 +0100 apbs (0.5.1-1.1) unstable; urgency=low * Non-maintainer upload * Build depend on libblas-dev instead of refblas3-dev (closes: #462263) * Add gfortran to Build Depends: to fix FTBFS in clean chroot -- Colin Tuckley Mon, 28 Jan 2008 11:05:21 +0000 apbs (0.5.1-1) unstable; urgency=low * New upstream release. [ Daniel Leidert ] * debian/control (Build-Depends): Added dpatch and autotools-dev. (Standards-Version): Changed to latest standards version 3.7.2. (Description): Added Homepage field. * debian/copyright: Fixed download location after apbs has been moved to sourceforge.net. * debian/rules: Changed to use dpatch.mk instead of simple-patchsys.mk. Added buildcore.mk ruleset. Added FFLAGS flags to configure. * debian/watch: Added. * debian/patches/01_html_documentation.dpatch: Added. Replaces debian/patches/01_html_docu.patch. * debian/patches/02_remove_vf2c.dpatch: Added. Replaces debian/patches/02_remove_vf2c.patch. * debian/patches/90_autoreconf.dpatch: Added. Replaces debian/patches/90_autoreconf.patch. Probably closes: #424100. * debian/patches/00list: Added. [ Michael Banck ] * debian/patches/01_html_documentation: Updated. * debian/patches/02_remove_vf2c: Removed; no longer needed. * debian/patches/90_autoreconf: Likewise. * debian/control (Build-Depends): Added bc, needed for the test suite. * debian/rules (DEB_CONFIGURE_EXTRA_FLAGS): Added --with-fetk-include=/usr/include --with-fetk-library=/usr/lib --with-blas=-lblas. * debian/rules (DEB_MAKE_CHECK_TARGET): New target, run the test suite. * debian/patches/03_skip_expensive_tests.dpatch: New patch, skip tests which take a lot of memory and CPU. * debian/patches/04_remove_install-exec-am_rule.dpatch: New patch, remove the install-exec-am rule from the top-level Makefile. We can just install that data manually and it does not support DESTDIR anyway. * debian/apbs.install: Updated location of the user's guide and tutorial in the source tree. Install license.html as well. -- Michael Banck Wed, 18 Jul 2007 15:48:58 +0200 apbs (0.4.0-2) unstable; urgency=low * debian/patches: New directory, manage changes to upstream with simple-patchsys.mk. * debian/patches/01_html_docu.patch: New patch, supress link to the programmer's manual we don't ship for now. * debian/patches/02_remove_vf2c.patch: New patch, remove MALOC's own -lvf2c f2c fork from linking. * debian/patches/90_autoreconf.patch: Update libtool; closes: #378211. -- Michael Banck Sun, 10 Sep 2006 19:14:24 +0200 apbs (0.4.0-1) unstable; urgency=low * Initial release. -- Michael Banck Thu, 29 Jun 2006 17:10:18 +0200