* Link with libatomic.
[dgit import unpatched pygalmesh 0.10.6-1+rpi1]
--- /dev/null
--- /dev/null
++pygalmesh (0.10.6-1+rpi1) bookworm-staging; urgency=medium
++
++ * Link with libatomic.
++
++ -- Peter Michael Green <plugwash@raspbian.org> Sat, 23 Apr 2022 15:15:39 +0000
++
++pygalmesh (0.10.6-1) unstable; urgency=medium
++
++ * New upstream release.
++ * run debian/tests (autopkgtest) over all supported python versions
++
++ -- Drew Parsons <dparsons@debian.org> Wed, 26 Jan 2022 17:21:20 +0100
++
++pygalmesh (0.10.5-2) unstable; urgency=medium
++
++ * debian/tests skip test_rectangle on i386
++ (see https://github.com/nschloe/pygalmesh/issues/170)
++ * reinstate debian patch test_relax_tolerance.patch
++ for test_extrude on i386. Closes: #996336.
++
++ -- Drew Parsons <dparsons@debian.org> Sun, 31 Oct 2021 17:15:26 +0100
++
++pygalmesh (0.10.5-1) unstable; urgency=medium
++
++ * New upstream release.
++ - provides single pygalmesh executable
++ * update Build-Depends: python3-all-dev:any (>= 3.7)
++ * drop debian patch test_relax_tolerance.patch
++ (tolerance changes made upstream)
++ * Standards-Version: 4.6.0
++
++ -- Drew Parsons <dparsons@debian.org> Tue, 12 Oct 2021 16:20:43 +0200
++
++pygalmesh (0.9.4-1) experimental; urgency=medium
++
++ * New upstream release.
++ * Build-Depends: python3-pybind11 (>= 2.6)
++
++ -- Drew Parsons <dparsons@debian.org> Tue, 16 Mar 2021 11:07:53 +0100
++
++pygalmesh (0.9.3-1) experimental; urgency=medium
++
++ * New upstream release.
++ - provides better handling of tetrahedra
++ - Build-Depends: libgmp-dev, libmpfr-dev
++ * Standards-Version: 4.5.1
++
++ -- Drew Parsons <dparsons@debian.org> Thu, 25 Feb 2021 16:50:49 +0100
++
++pygalmesh (0.9.1-2) unstable; urgency=medium
++
++ * debian patch test_relax_tolerance.patch relaxes test tolerances
++ (needed for i386 to pass tests)
++
++ -- Drew Parsons <dparsons@debian.org> Sat, 17 Oct 2020 13:43:21 +0800
++
++pygalmesh (0.9.1-1) unstable; urgency=medium
++
++ * New upstream release.
++ * update versioned Build-Depends: python3-pybind11 (>= 2.5),
++ python3-setuptools (>= 42)
++
++ -- Drew Parsons <dparsons@debian.org> Thu, 15 Oct 2020 21:05:40 +0800
++
++pygalmesh (0.7.2-1) unstable; urgency=medium
++
++ * New upstream release.
++ * generate manpages directly from binary commands using help2man
++ rather than markdown and pandoc.
++
++ -- Drew Parsons <dparsons@debian.org> Sat, 26 Sep 2020 17:33:24 +0800
++
++pygalmesh (0.7.1-1) unstable; urgency=medium
++
++ * New upstream release.
++ - changes copyright licence to GPL-3
++ * debhelper compatibility level 13
++
++ -- Drew Parsons <dparsons@debian.org> Thu, 10 Sep 2020 23:35:09 +0800
++
++pygalmesh (0.6.6-1) unstable; urgency=medium
++
++ * New upstream release.
++ - drop debian patch relax_test_tolerance.patch. inr test tolerance
++ raised upstream.
++
++ -- Drew Parsons <dparsons@debian.org> Tue, 12 May 2020 19:28:09 +0800
++
++pygalmesh (0.6.2-1) unstable; urgency=medium
++
++ * New upstream release.
++
++ -- Drew Parsons <dparsons@debian.org> Thu, 16 Apr 2020 16:34:22 +0800
++
++pygalmesh (0.5.2-1) unstable; urgency=medium
++
++ * New upstream release.
++ - versioned Build-Depends: python3-meshio (>= 4)
++ * Update debian patch relax_test_tolerance.patch to relax upstream
++ tolerance only for ref[5]. Closes: #951864.
++
++ -- Drew Parsons <dparsons@debian.org> Mon, 24 Feb 2020 11:54:01 +0800
++
++pygalmesh (0.5.0-4) unstable; urgency=medium
++
++ * It is possible to build pygalmesh using cmake, but normally it
++ should be built using setup.py (distutils). Disambiguate between
++ the two build systems by setting PYBUILD_SYSTEM=distutils.
++ Closes: #946233.
++ * Standards-Version: 4.5.0
++
++ -- Drew Parsons <dparsons@debian.org> Tue, 18 Feb 2020 15:50:47 +0800
++
++pygalmesh (0.5.0-3) unstable; urgency=medium
++
++ * more tolerance relaxing in relax_test_tolerance.patch.
++ Closes: #947058.
++
++ -- Drew Parsons <dparsons@debian.org> Tue, 31 Dec 2019 09:19:05 +1100
++
++pygalmesh (0.5.0-2) unstable; urgency=medium
++
++ * debian patch relax_test_tolerance.patch relaxes tolerance in
++ test_inr.py to allow successful tests on arm64. Closes: #947058.
++ * Standards-Version: 4.4.1
++
++ -- Drew Parsons <dparsons@debian.org> Sat, 28 Dec 2019 10:54:34 +1100
++
++pygalmesh (0.5.0-1) unstable; urgency=medium
++
++ * New upstream release.
++ - fixes build against CGAL 5. Thanks Joachim Reichel for a patch.
++ Closes: #946234.
++
++ -- Drew Parsons <dparsons@debian.org> Sat, 07 Dec 2019 14:07:47 +0800
++
++pygalmesh (0.4.0-1) unstable; urgency=medium
++
++ * set debian/watch to track upstream git tags,
++ needed to pull in git lfs objects (mesh files)
++ * New upstream release.
++
++ -- Drew Parsons <dparsons@debian.org> Mon, 19 Aug 2019 00:42:35 +0800
++
++pygalmesh (0.3.6-2) unstable; urgency=medium
++
++ * debian/clean: delete pygalmesh-from-inr.1 and
++ pygalmesh-volume-from-surface.1, generated in
++ override_dh_auto_build. Thanks Joachim Reichel.
++ Closes: #933848, #933986.
++
++ -- Drew Parsons <dparsons@debian.org> Tue, 06 Aug 2019 16:53:03 +0800
++
++pygalmesh (0.3.6-1) unstable; urgency=medium
++
++ * New upstream release.
++ * Standards-Version: 4.4.0
++
++ -- Drew Parsons <dparsons@debian.org> Thu, 11 Jul 2019 10:25:00 +0800
++
++pygalmesh (0.3.5-1) unstable; urgency=medium
++
++ * New upstream release.
++ - provides utility scripts pygalmesh-from-inr and
++ pygalmesh-volume-from-surface
++
++ -- Drew Parsons <dparsons@debian.org> Sun, 07 Jul 2019 19:33:56 +0800
++
++pygalmesh (0.3.3-2) experimental; urgency=medium
++
++ * debian/tests/control: Depends: python3-requests.
++
++ -- Drew Parsons <dparsons@debian.org> Fri, 17 May 2019 15:11:08 +0800
++
++pygalmesh (0.3.3-1) experimental; urgency=medium
++
++ * New upstream release.
++
++ -- Drew Parsons <dparsons@debian.org> Sat, 11 May 2019 16:12:20 +0800
++
++pygalmesh (0.3.1-3) experimental; urgency=medium
++
++ * skip dh_dwz and don't build dbgsym packages on arches where debug
++ symbols have been switched off (-g0)
++
++ -- Drew Parsons <dparsons@debian.org> Sat, 04 May 2019 00:33:39 +0800
++
++pygalmesh (0.3.1-2) experimental; urgency=medium
++
++ * disable debugging symbols (replace -g flag with -g0 in CFLAGS)
++ on low memory (32 bit) arches:
++ armhf i386 mips mipsel hppa hurd-i386 kfreebsd-i386 powerpcspe x32
++ Closes: #928140.
++
++ -- Drew Parsons <dparsons@debian.org> Fri, 03 May 2019 22:40:41 +0800
++
++pygalmesh (0.3.1-1) experimental; urgency=medium
++
++ * New upstream release
++ - supports periodic meshes
++ - Build-Depends: python3-meshio
++ * Standards-Version: 4.3.0
++ * debhelper compatibility level 12
++
++ -- Drew Parsons <dparsons@debian.org> Wed, 24 Apr 2019 22:41:19 +0800
++
++pygalmesh (0.2.6-1) unstable; urgency=medium
++
++ * New upstream release.
++ - fixes meshio API used in pygalmesh tests
++ * add debian/tests (autopkgtest) to run pytest-3
++
++ -- Drew Parsons <dparsons@debian.org> Wed, 14 Nov 2018 23:10:51 +0800
++
++pygalmesh (0.2.5-1) unstable; urgency=medium
++
++ * Initial release (Closes: #910278)
++ - package Python 3 module only (Python 2 is deprecated)
++
++ -- Drew Parsons <dparsons@debian.org> Mon, 08 Oct 2018 00:49:13 +0800
--- /dev/null
--- /dev/null
++pygalmesh-from-inr.1
++pygalmesh-volume-from-surface.1
--- /dev/null
--- /dev/null
++Source: pygalmesh
++Section: python
++Priority: optional
++Maintainer: Debian Science Maintainers <debian-science-maintainers@lists.alioth.debian.org>
++Uploaders: Drew Parsons <dparsons@debian.org>
++Build-Depends: debhelper-compat (= 13),
++ dh-python, python3-all-dev:any (>= 3.7), python3-setuptools (>= 42),
++ libcgal-dev,
++ libeigen3-dev,
++ libgmp-dev, libmpfr-dev,
++ python3-meshio (>= 4),
++ python3-pybind11 (>= 2.6)
++Standards-Version: 4.6.0
++Homepage: https://github.com/nschloe/pygalmesh
++Vcs-Browser: https://salsa.debian.org/science-team/pygalmesh
++Vcs-Git: https://salsa.debian.org/science-team/pygalmesh.git
++
++Package: python3-pygalmesh
++Architecture: any
++Depends: ${python3:Depends}, ${shlibs:Depends}, ${misc:Depends}
++Suggests: python-pygalmesh-doc
++Description: Python 3 frontend to CGAL's 3D mesh generators
++ pygalmesh makes it easy to create high-quality 3D volume and surface
++ meshes.
++ .
++ CGAL offers two different approaches for mesh generation:
++ - Meshes defined implicitly by level sets of functions.
++ - Meshes defined by a set of bounding planes.
++ .
++ pygalmesh provides a front-end to the first approach, which has the
++ following advantages and disadvantages:
++ - All boundary points are guaranteed to be in the level set within
++ any specified residual. This results in smooth curved surfaces.
++ - Sharp intersections of subdomains (e.g., in unions or
++ differences of sets) need to be specified manually (via feature edges,
++ see below), which can be tedious.
++ .
++ On the other hand, the bounding-plane approach (realized by mshr),
++ has the following properties:
++ - Smooth, curved domains are approximated by a set of bounding
++ planes, resulting in more of less visible edges.
++ - Intersections of domains can be computed automatically, so
++ domain unions etc. have sharp edges where they belong.
++ .
++ pygalmesh and mshr are therefore complementary.
++ .
++ pygalmesh also interfaces CGAL's 3D periodic mesh generation.
++ .
++ This package installs the pygalmesh module for Python 3.
++ .
++ It also provides the utility scripts pygalmesh-from-inr and
++ pygalmesh-volume-from-surface for generating volume meshes from
++ INR or surface meshes.
--- /dev/null
--- /dev/null
++Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
++Upstream-Name: pygalmesh
++Source: https://github.com/nschloe/pygalmesh
++
++Files: *
++Copyright: 2016-2020 Nico Schlömer <nico.schloemer@gmail.com>
++License: GPL-3
++ This software is released under the terms of the GNU General Public
++ Licence, Version 3.
++ .
++ On a Debian system, the full text of the GPL can be found at
++ /usr/share/common-licenses/GPL-3
--- /dev/null
--- /dev/null
++Description: Link with libatomic.
++Author: Peter Michael Green <plugwash@raspbian.org>
++
++Index: pygalmesh-0.10.6/src/CMakeLists.txt
++===================================================================
++--- pygalmesh-0.10.6.orig/src/CMakeLists.txt
+++++ pygalmesh-0.10.6/src/CMakeLists.txt
++@@ -13,7 +13,7 @@ FILE(GLOB pygalmesh_SRCS "${CMAKE_CURREN
++ pybind11_add_module(pygalmesh ${pygalmesh_SRCS})
++
++ # ADD_LIBRARY(pygalmesh ${pygalmesh_SRCS})
++-target_link_libraries(pygalmesh PRIVATE ${CGAL_LIBRARIES})
+++target_link_libraries(pygalmesh PRIVATE ${CGAL_LIBRARIES} -latomic)
++
++ # https://github.com/CGAL/cgal/issues/6002
++ # find_program(iwyu_path NAMES include-what-you-use iwyu REQUIRED)
++Index: pygalmesh-0.10.6/setup.py
++===================================================================
++--- pygalmesh-0.10.6.orig/setup.py
+++++ pygalmesh-0.10.6/setup.py
++@@ -27,7 +27,7 @@ ext_modules = [
++ "/usr/local/include/eigen3",
++ ],
++ # no CGAL libraries necessary from CGAL 5.0 onwards
++- libraries=["gmp", "mpfr"],
+++ libraries=["gmp", "mpfr","atomic"],
++ )
++ ]
++
--- /dev/null
--- /dev/null
++test_relax_tolerance.patch
++link-with-libatomic.patch
--- /dev/null
--- /dev/null
++Index: pygalmesh/tests/test_volume_mesh.py
++===================================================================
++--- pygalmesh.orig/tests/test_volume_mesh.py 2021-10-12 15:37:28.785405237 +0200
+++++ pygalmesh/tests/test_volume_mesh.py 2021-10-31 17:08:26.013461086 +0100
++@@ -483,7 +483,7 @@
++ assert abs(min(mesh.points[:, 1]) + 0.3) < tol
++ # Relax tolerance for debian, see <https://github.com/nschloe/pygalmesh/pull/47>
++ assert abs(max(mesh.points[:, 2]) - 1.0) < 1.1e-3
++- assert abs(min(mesh.points[:, 2]) + 0.0) < tol
+++ assert abs(min(mesh.points[:, 2]) + 0.0) < 1.1e-3
++
++ vol = sum(helpers.compute_volumes(mesh.points, mesh.get_cells_type("tetra")))
++ assert abs(vol - 0.4) < tol
--- /dev/null
--- /dev/null
++.\" DO NOT MODIFY THIS FILE! It was generated by help2man 1.48.5.
++.TH PYGALMESH "1" "October 2021" "pygalmesh 0.10.5" "User Commands"
++.SH NAME
++pygalmesh \- create high-quality meshes with ease
++.SH DESCRIPTION
++usage: pygalmesh [\-h] [\-\-version]
++.IP
++{from\-inr,remesh\-surface,volume\-from\-surface} ...
++.PP
++pygalmesh command\-line tools
++.SS "optional arguments:"
++.TP
++\fB\-h\fR, \fB\-\-help\fR
++show this help message and exit
++.TP
++\fB\-\-version\fR, \fB\-v\fR
++display version information
++.SS "subcommands:"
++.IP
++{from\-inr,remesh\-surface,volume\-from\-surface}
++.TP
++from\-inr
++Create volume mesh from INR voxel files
++.TP
++remesh\-surface
++Remesh surface mesh
++.TP
++volume\-from\-surface
++Generate volume mesh from surface mesh
++.PP
++pygalmesh is a Python frontend to CGAL's 2D and 3D mesh generation capabilities.
++pygalmesh makes it easy to create high-quality 2D, 3D volume meshes,
++periodic volume meshes, and surface meshes.
++.PP
++pygalmesh 0.10.5 [Python 3.9.7, CGAL 5.3]
++.PP
++Copyright (c) 2016-2021, Nico Schlömer <nico.schloemer@gmail.com>
--- /dev/null
--- /dev/null
++debian/pygalmesh.1
--- /dev/null
--- /dev/null
++#!/usr/bin/make -f
++# See debhelper(7) (uncomment to enable)
++# output every command that modifies files on the build system.
++#export DH_VERBOSE = 1
++
++export PYBUILD_NAME=pygalmesh
++
++export PYBUILD_SYSTEM=distutils
++
++DEB_BUILD_ARCH ?= $(shell dpkg-architecture -qDEB_BUILD_ARCH)
++
++DPKG_EXPORT_BUILDFLAGS = 1
++include /usr/share/dpkg/buildflags.mk
++
++# some arches (mostly 32 bit) don't provide enough memory to build with debug symbols
++ARCH_NO_DEBUG_SYMBOLS := armhf i386 mips mipsel hppa hurd-i386 kfreebsd-i386 powerpcspe x32
++ifneq ($(findstring $(DEB_BUILD_ARCH),$(ARCH_NO_DEBUG_SYMBOLS)),)
++# disable debugging symbols (replace -g with -g0 in build flags) on weak arches
++ CFLAGS := $(shell dpkg-buildflags --get CFLAGS | sed 's/-g /-g0 /' )
++endif
++
++%:
++ dh $@ --with python3 --buildsystem=pybuild
++
++# debug symbols (-g) have been switched off (-g0) in CFLAGS for some arches, so no point building dbgsym packages
++override_dh_strip:
++ case " $(ARCH_NO_DEBUG_SYMBOLS) " in \
++ *\ $(DEB_HOST_ARCH)\ *) dh_strip --no-automatic-dbgsym;; \
++ *) dh_strip;; \
++ esac
++
++override_dh_dwz:
++ case " $(ARCH_NO_DEBUG_SYMBOLS) " in \
++ *\ $(DEB_HOST_ARCH)\ *) echo "skipping dh_dwz since debug symbols (-g) have been switched off (-g0) for $(DEB_HOST_ARCH)";; \
++ *) dh_dwz;; \
++ esac
--- /dev/null
--- /dev/null
++3.0 (quilt)
--- /dev/null
--- /dev/null
++extend-diff-ignore = "^[^/]*[.]egg-info/"
--- /dev/null
--- /dev/null
++Tests: test-pygalmesh
++Depends: @, @builddeps@,
++ python3-all,
++ python3-pytest,
++ python3-requests
--- /dev/null
--- /dev/null
++# test_rectangle started failing on i386,
++# see https://github.com/nschloe/pygalmesh/issues/170
++DEB_HOST_ARCH=$(dpkg-architecture -qDEB_HOST_ARCH)
++if [ "x${DEB_HOST_ARCH}" = "xi386" ]; then
++ TEST_OPTIONS="not test_rectangle"
++fi
++
++for pyver in $(py3versions -sv); do
++ python$pyver -m pytest -k "${TEST_OPTIONS}"
++done
--- /dev/null
--- /dev/null
++version=4
++opts="mode=git, gitmode=full, pgpmode=none" \
++https://github.com/nschloe/pygalmesh.git \
++refs/tags/v([\d\.]+) debian uupdate
projects / pygalmesh.git / commitdiff