Import pygalmesh_0.10.6-1.debian.tar.xz

[dgit import tarball pygalmesh 0.10.6-1 pygalmesh_0.10.6-1.debian.tar.xz]

diff --git a/changelog b/changelog
new file mode 100644 (file)
index 0000000..3436260
--- /dev/null
+++ b/changelog
@@ -0,0 +1,214 @@
+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

diff --git a/clean b/clean
new file mode 100644 (file)
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--- /dev/null
+++ b/clean
@@ -0,0 +1,2 @@
+pygalmesh-from-inr.1
+pygalmesh-volume-from-surface.1

diff --git a/control b/control
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--- /dev/null
+++ b/control
@@ -0,0 +1,53 @@
+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.

diff --git a/copyright b/copyright
new file mode 100644 (file)
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--- /dev/null
+++ b/copyright
@@ -0,0 +1,12 @@
+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

diff --git a/patches/series b/patches/series
new file mode 100644 (file)
index 0000000..29f1cb6
--- /dev/null
+++ b/patches/series
@@ -0,0 +1 @@
+test_relax_tolerance.patch

diff --git a/patches/test_relax_tolerance.patch b/patches/test_relax_tolerance.patch
new file mode 100644 (file)
index 0000000..35a6618
--- /dev/null
+++ b/patches/test_relax_tolerance.patch
@@ -0,0 +1,13 @@
+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

diff --git a/pygalmesh.1 b/pygalmesh.1
new file mode 100644 (file)
index 0000000..64a4c38
--- /dev/null
+++ b/pygalmesh.1
@@ -0,0 +1,37 @@
+.\" 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>

diff --git a/python3-pygalmesh.manpages b/python3-pygalmesh.manpages
new file mode 100644 (file)
index 0000000..7cc6a22
--- /dev/null
+++ b/python3-pygalmesh.manpages
@@ -0,0 +1 @@
+debian/pygalmesh.1

diff --git a/rules b/rules
new file mode 100755 (executable)
index 0000000..9400c5e
--- /dev/null
+++ b/rules
@@ -0,0 +1,36 @@
+#!/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

diff --git a/source/format b/source/format
new file mode 100644 (file)
index 0000000..163aaf8
--- /dev/null
+++ b/source/format
@@ -0,0 +1 @@
+3.0 (quilt)

diff --git a/source/options b/source/options
new file mode 100644 (file)
index 0000000..cb61fa5
--- /dev/null
+++ b/source/options
@@ -0,0 +1 @@
+extend-diff-ignore = "^[^/]*[.]egg-info/"

diff --git a/tests/control b/tests/control
new file mode 100644 (file)
index 0000000..e5ff2b1
--- /dev/null
+++ b/tests/control
@@ -0,0 +1,5 @@
+Tests: test-pygalmesh
+Depends: @, @builddeps@,
+ python3-all,
+ python3-pytest,
+ python3-requests

diff --git a/tests/test-pygalmesh b/tests/test-pygalmesh
new file mode 100644 (file)
index 0000000..8643fb5
--- /dev/null
+++ b/tests/test-pygalmesh
@@ -0,0 +1,10 @@
+# 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

diff --git a/watch b/watch
new file mode 100644 (file)
index 0000000..9f582da
--- /dev/null
+++ b/watch
@@ -0,0 +1,4 @@
+version=4
+opts="mode=git, gitmode=full, pgpmode=none" \
+https://github.com/nschloe/pygalmesh.git \
+refs/tags/v([\d\.]+) debian uupdate