From: Doug Torrance Date: Sat, 21 May 2022 11:09:31 +0000 (+0100) Subject: Import macaulay2_1.20+ds-4.debian.tar.xz X-Git-Tag: archive/raspbian/1.20+ds-4+rpi1^2~10^2 X-Git-Url: https://dgit.raspbian.org/?a=commitdiff_plain;h=ca29e625d9e41df6c59822a3708769dfcbc1a61d;p=macaulay2.git Import macaulay2_1.20+ds-4.debian.tar.xz [dgit import tarball macaulay2 1.20+ds-4 macaulay2_1.20+ds-4.debian.tar.xz] --- ca29e625d9e41df6c59822a3708769dfcbc1a61d diff --git a/README.Debian b/README.Debian new file mode 100644 index 0000000..c1f7213 --- /dev/null +++ b/README.Debian @@ -0,0 +1,53 @@ +Macaulay2 for Debian +==================== + +Javascript libraries +-------------------- +Macaulay2 uses a number of Javascript libraries. In particular, they +are used to render mathematical expressions in the browser-based +documentation and to visualize various mathematical objects by the +Visualize package. + +Upstream embeds these libraries in the source code, often minimized. +This is not desirable for the Debian package. Therefore, we repack +the tarball (using Files-Excluded in debian/copyright) without the +embedded copies and use dh_linktree to create symbolic links to the +Debian versions. + +dwww +---- +The Macaulay2 documentation is registered with doc-base. In order to +view the html documentation properly in your web browser using dwww, +you must append "/usr/share/Macaulay2" to DWWW_DOCPATH in +/etc/dwww/dwww.conf. Otherwise, some resources (e.g., CSS and +Javascript files) will be unavailable. + +Suggested packages +------------------ +Quite a few additional Debian packages will be installed alongside +Macaulay2 automatically due to being listed in "Depends" or +"Recommended", but there are a number of others that are listed under +"Suggests" that will not be installed unless you pass +"--install-suggests" to apt or install them separately. They are: + +* dot2tex - Used by showTikZ function in Graphs package. + +* fig2dev - Used by gfanRender and gfanRenderStaircase functions in + gfanInterface package. + +* graphviz - Used by displayGraph function in Graphs package. + +* pdf-viewer (virtual package) - Used by displayPoset function in + Posets package. The default pdf viewer is called using xdg-open; + use xdg-mime to change it. + +* phcpack - Used by MonodromySolver, NumericalSchubertCalculus, and + PHCpack packages. + +* polymake - Used by Polymake, StatePolytope, and Tropical packages. + +* qepcad - Used by CoincidentRootLoci package. + +* sdpa - Used by SemidefiniteProgramming package. + + -- Doug Torrance , Thu, 10 Feb 2022 14:33:41 -0500 diff --git a/changelog b/changelog new file mode 100644 index 0000000..d5154e0 --- /dev/null +++ b/changelog @@ -0,0 +1,917 @@ +macaulay2 (1.20+ds-4) unstable; urgency=medium + + * debian/control + - Add node-import-local, node-interpret, and node-rechoir to + Build-Depends-Indep; needed for webpack 5 to build highlight.js for + syntax highlighting in the HTML documentation. + * debian/rules + - Re-enable syntax highlighting in the HTML documentation; the webpack + bug that was causing build failures has been fixed. + + -- Doug Torrance Sat, 21 May 2022 07:09:31 -0400 + +macaulay2 (1.20+ds-3) unstable; urgency=medium + + * debian/rules + - Temporarily disable syntax highlighting in the HTML documentation. + Otherwise, a webpack bug will cause the build to fail. + + -- Doug Torrance Mon, 16 May 2022 22:26:51 -0400 + +macaulay2 (1.20+ds-2) unstable; urgency=medium + + * debian/control + - Bring w3c-markup-validator back to Build-Depends-Indep. + * debian/patches/highlightjs.patch + - Fix typo in Description; the backport was for highlight.js 9, not + webpack 9. + * debian/patches/skip-failing-package-tests.patch + - Skip check(13, "SpecialFanoFourfolds") on s390x. + * debian/rules + - Restore validate-html check now that the libxml bug that was causing + it to fail has been fixed. + + -- Doug Torrance Mon, 16 May 2022 14:20:47 -0400 + +macaulay2 (1.20+ds-1) unstable; urgency=medium + + * New upstream release. + * debian/control + - Add libboost-math-dev to Build-Depends; needed for several new + numerical functions. + - Add versioned dependency for libmathicgb-dev; need a newer version + to enable TBB support. + - Add libjs-bootsidemenu and libjs-nouislider to Build-Depends-Indep; + these replace formerly embedded JavaScript libraries. + - Add a versioned dependency for libjs-katex to ensure it has the + render-a11y-string extension. + - Add several dependencies for syntax highlighting in the HTML + documentation (node-css-loader, node-highlight.js, node-style-loader, + pkg-js-tools, and webpack) to Build-Depends-Indep. + - Bump Standards-Version to 4.6.1. + * debian/copyright + - Simplify KaTeX files in Files-Excluded; we now exclude the entire + directory instead of various specific files. + - Add BootSideMenu and noUiSlider embedded JavaScript libraries to + Files-Excluded since we now use their Debian packages. + - Bump my copyright years. + - Remove license information for formerly embedded JavaScript + libraries. + - Add license information for new packages that appeared in this + release. + * debian/macaulay2-common.linktrees + - Add symbolic links to BootSideMenu, noUiSlider, and the KaTeX + extension render-a11y-string. + * debian/macaulay2-common.lintian-overrides + - Add package-contains-documentation-outside-usr-share-doc overrides + for MergeTeX and SimplicialComplexes packages. + * debian/missing-sources + - Remove directory and its contents; no longer needed. + * debian/nodejs/extlinks + - New file; create symlinks during build to node modules needed for + enabling syntax highlighting in the HTML documentation. + * debian/patches + - Remove patches that have been applied or otherwise dealt with + upstream. + + givaro-bool-constant.patch + + tbb-2021.patch + + use-shared-mathicgb-and-friends.patch + * debian/patches/customize-argument-mode.patch + - New patch; enable adjusting command line arguments during package + tests. + * debian/patches/highlightjs.patch + - New patch; backport building of higlight.js for syntax highlighting + in HTML documentation to webpack 9, which is the version still in + Debian. + * debian/patches/skip-failing-{core,package}-tests.patch + - Stop skipping a number of tests that have either been fixed + upstream, fail very rarely, or should no longer be an issue + now that we are no longer setting ulimits. + * debian/patches/skip-failing-engine-tests.patch + - Skip an engine test that has been known to fail frequently. + * debian/README.Debian + - Drop section about embedded JavaScript libraries as there are no + longer any. + * debian/rules + - Use a number of new options to "configure" script. + + Specify that we are using the Debian packages for memtailor, + mathic, mathicgb, and gc. + + Disable building documentation when appropriate. + + Enable syntax highlighting in the HTML documentation when + appropriate. + - Use pkg-js-tools to create symlinks to the node modules needed + for enabling syntax highlighting. + - Instead of creating dummy copies of various KaTeX files before + the symlinks are created by dh_linktree, just create an empty dummy + directory. + - Don't set ulimits during tests. These were a frequent cause of build + errors on slow build machines. + * debian/scripts/Debian.m2 + - Cache SemidefiniteProgramming::Solver example; it had reproducility + problems. + * debian/source/lintian-overrides + - Add package-does-not-install-examples override for OnlineLookup + cached examples. + * debian/tests/control + - Skip package tests on armhf instead of marking them as flaky on all + architectures. + + -- Doug Torrance Sun, 15 May 2022 07:04:54 -0400 + +macaulay2 (1.19.1+ds-9) unstable; urgency=medium + + * debian/tests/control + - Mark package-tests as flaky since it regularly times out on armhf + (Closes: #1010453). + + -- Doug Torrance Sun, 01 May 2022 20:14:15 -0400 + +macaulay2 (1.19.1+ds-8) unstable; urgency=medium + + * debian/tests/control + - Add 4ti2, gfan, and normaliz to Depends for core-tests + (Closes: #1010172). + + -- Doug Torrance Mon, 25 Apr 2022 14:14:15 -0400 + +macaulay2 (1.19.1+ds-7) unstable; urgency=medium + + * debian/gbp.conf + - Switch to "debian/latest" for Debian branch; recommended by DEP-14. + * debian/macaulay2-common.links + - New file; use dh_link to create symlinks to GPL text for docs. + * debian/macaulay2-common.linktree + - Stop using dh_linktree for creating symlinks to GPL text for docs; + was creating unnecessary versioned dependency on base-files + (Closes: #1009838). + * debian/patches/skip-failing-package-tests.patch + - Skip new failing package tests: + + check(4, "ThreadedGB"); failing on ppc64el. + + check({25, 31}, "AssociativeAlgebras"); failing on ppc64el + (Closes: #1010096). + * debian/scripts/m2-get-orig-source.sh + - Run missingPackages() when --merge option is given to see if any new + packages should be added to d/copyright. + * debian/tests/control + - Split each "M2 --check n" into its own separate test. + - Use "macaulay2" instead of "@" in Depends since we don't need + elpa-macaulay2. + - Add test names. + + -- Doug Torrance Sun, 24 Apr 2022 21:05:14 -0400 + +macaulay2 (1.19.1+ds-6) unstable; urgency=medium + + * debian/control + - Exclude python3-dev from Build-Depends with nopython build profile. + * debian/macaulay2-common.install + - Install make-M2-symbols.m2; generates files for syntax highlighting + in Emacs, Pygments, etc. + * debian/patches/skip-failing-package-tests.patch + - Properly skip tests marked "no-check-architecture". + * debian/patches/tbb-2021.patch + - New patch; add support for TBB 2021. + * debian/patches/use-dh-elpa.patch + - Fix path to M2-emacs-help.txt in documentation. + * debian/rules + - Don't build with Python support with "nopython" build profile. + + -- Doug Torrance Fri, 11 Feb 2022 11:25:09 -0500 + +macaulay2 (1.19.1+ds-5) unstable; urgency=medium + + * debian/control + - Remove w3c-markup-validator from Build-Depends-Indep; it is only used + for validating the html documentation, which we are currently + skipping. + - Add phcpack to Suggests. + * debian/README.Debian + - Add blurb about phcpack to "Suggested packages" section. + + -- Doug Torrance Thu, 27 Jan 2022 11:42:39 -0500 + +macaulay2 (1.19.1+ds-4) unstable; urgency=medium + + * debian/patches/givaro-bool-constant.patch + - New patch; fix "'givaro_bool_constant' does not name a type" error + when building with givaro 4.2.0 and fflas-ffpack 2.5.0, which are + now in Debian. + * debian/rules + - Make dump directories inside the dump file targets instead of their + own; fixes strange "unlink" message that was appearing in the build + logs. + * debian/scripts/m2-get-orig-source.sh + - Make the repack suffix a variable. + + -- Doug Torrance Sun, 19 Dec 2021 07:29:32 -0500 + +macaulay2 (1.19.1+ds-3) unstable; urgency=medium + + * debian/control + - Add versioned dependency on libsingular4-dev; configure script will + fail if < 4.2.0 is found. For this reason, we can't depend on + the virtual package libsingular-dev any more. + - Add gdbmtool and faketime to Build-Depends-Indep; needed for + generating reproducible dumps of the documentation database files. + - Add gdbmtool to Depends for macaulay2; needed for new postinst + script. + * debian/macaulay2.install + - Stop installing files in /usr/lib; no longer necessary now that we + will generate package documentation databases during postinst. + * debian/macaulay2.postinst + - New file; load package documentation databases from dump files after + installation. + * debian/macaulay2.prerem + - New file; remove directories containing package documentation + databases that were created during postinst. + * debian/patches/allow-older-factory.patch + - Remove patch; no longer necessary as singular 4.2.1 is now in Debian. + * debian/patches/skip-failing-core-tests.patch + - Fix ComputationsBook::varieties test instead of skipping it. + * debian/rules + - Append -indep to execute_before_dh_auto_build target; we only need + the dummy KaTeX files and cached examples when building the + documentation. + - New override_dh_auto_build target; only build documentation when + building macaulay2-common. + - Append -indep to execute_after_dh_auto_install target; the cached + example directories will only exist and need to be removed when + building the documentation. + - Also in execute_after_dh_auto_install, create dumps of package + documentation to ship with macaulay2-common and then load during + postinst and then remove the database files. + - Remove execute_after_dh_install-arch target; empty directory is now + removed with the package documentation database after they're dumped. + - Exclude database dump files from dh_compress. + - Add override_dh_installdeb target to substitute variables in new + maintainer scripts. + * debian/salsa-ci.yml + - Stop allowing reprotest to fail; the parts of the package that are + built on Salsa are now reproducible. + - Allow autopkgtest to fail; the new test requires the documentation to + be built, which doesn't happen on Salsa. + * debian/scripts/Debian.m2 + - Stop caching almost all examples; since we won't be building them on + non-amd64 architectures, we should see far fewer failures. + - Add new "skipTestArch" function to skip tests only on a particular + architecture. + * debian/scripts/m2-get-orig-source.sh + - Update string to grep for when "quilt push" fails. + * debian/tests/check-doc-db.m2 + - New CI test for autopkgtest; test that the documentation database can + be loaded. + * debian/upstream/metadata + - Add "---" to signal document start. + + -- Doug Torrance Tue, 14 Dec 2021 21:24:21 -0500 + +macaulay2 (1.19.1+ds-2) unstable; urgency=medium + + * debian/* + - Update my email address; now a Debian Developer. + * debian/patches/skip-failing-package-tests.patch + - Skip check(3, "K3Surfaces"); failing on s390x. + * debian/rules + - Stop setting IgnoreExampleErrors to true on certain architectures; + most example issues seem to have been cleared up. + * debian/scripts/Debian.m2 + - Cache new failing examples; all failing on s390x: + + K3Surfaces::K3(String) + + K3Surfaces::LatticePolarizedK3surface Sequence + + K3Surfaces::project + + SpecialFanoFourfolds::CongruenceOfCurves EmbeddedProjectiveVariety + + SpecialFanoFourfolds::map(CongruenceOfCurves) + + QuaternaryQuartics::Half canonical degree 20 + + -- Doug Torrance Tue, 30 Nov 2021 12:49:29 -0500 + +macaulay2 (1.19.1+ds-1) unstable; urgency=medium + + * New upstream release. + * debian/patches/skip-failing-core-tests.patch + - Skip 000-core; it was renamed from core-tests, which we had been + previously skipping. + * debian/patches/skip-failing-package-tests.patch + - Skip new failing package tests: + + check(8, "K3Surfaces"); failing on i386 (Closes: #1000772). + + check(9, "SpecialFanoFourfolds"); failing on armhf. + - Update Bug metadata. + * debian/scripts/Debian.m2 + - Cache Cremona::rationalMap(Ring,Tally); failing on s390x. + + -- Doug Torrance Mon, 29 Nov 2021 10:56:36 -0500 + +macaulay2 (1.19+ds-3) unstable; urgency=medium + + * debian/patches/skip-failing-package-tests.patch + - Skip new failing package tests: + + check(7, "K3Surfaces"); failing on i386. + + check(15, "MultiprojectiveVarieties"); failing on i386. + * debian/rules + - Ignore example errors on armhf. + * debian/scripts/Debian.m2 + - Cache new failing examples: + + BettiCharacters::Example 3; failing on armhf. + + CharacteristicClasses::IndsOfSmooth; failing on s390x. + - Load Macaulay2Doc first in generateExamples to avoid "global symbols + inadvertently defined" error. + + -- Doug Torrance Wed, 24 Nov 2021 21:46:44 -0500 + +macaulay2 (1.19+ds-2) unstable; urgency=medium + + * debian/patches/skip-failing-core-tests.patch + - Skip new failing Core tests: + + methods; failing on mips64el (Closes: #1000348). + * debian/patches/skip-failing-package-tests + - Skip new failing package tests: + + check(6, "K3Surfaces"); failing on i386. + + check({4, 6, 7}, "SpecialFanoFourfolds"); failing on armhf. + + check(14, "SpecialFanoFourfolds"); sometimes segfaults. + * debian/rules + - Ignore example errors on armel, riscv64, and s390x. + * debian/scripts/Debian.m2 + - Cache new failing examples: + + NoetherianOperators::gCorners; failing on armel. + + NormalToricVarieties::isNef(ToricDivisor); failing on riscv64. + + ReesAlgebra::PlaneCurveSingularties; failing on s390x + (Closes: #1000350). + + -- Doug Torrance Tue, 23 Nov 2021 06:12:52 -0500 + +macaulay2 (1.19+ds-1) unstable; urgency=medium + + * New upstream release. + * debian/control + - Update Maintainer to Debian Math Team. + - Add python3-dev to Build-Depends; needed for Python package. + - Update Vcs-* fields (science-team -> math-team). + - Add qepcad to Suggests; used by CoincidentRootLoci. + * debian/copyright + - Use leading spaces instead of tabs. + - Add license information for new packages and Pygments lexer. + - Update my copyright years for debian/*. + * debian/examples + - Update cached examples: + + MultiprojectiveVarieties::EmbeddedProjectiveVariety ===> + EmbeddedProjectiveVariety + + SpecialFanoFourfolds::detectCongruence(SpecialGushelMukaiFourfold, + ZZ) + * debian/patches + - Refresh for new release. + - Remove patches applied upstream: + + fix-visualize-firefox.patch + + hardening.patch + + reproducible-tvalues.patch + * debian/patches/allow-older-factory.patch + - New patch; upstream requires factory 4.2.0, which isn't in Debian + yet. + * debian/patches/git-description.patch + - Update for new release. + * debian/patches/skip-failing-core-tests.patch + - Skip ComputationsBook::solving; failing on ppc64. + - Actually skip CSM.test. + * debian/patches/skip-failing-package-tests.patch + - Skip new failing tests: + + check(5, "FunctionFieldDesingularization") + + check(11, "PrimaryDecomposition") + + check({12, 13, 15}, "SpecialFanoFourfolds") + + check(36, "TestIdeals") + - Stop skipping check(4, "NumericalImplicitization"); now commented + out upstream. + * debian/patches/use-cached-examples.patch + - Set UsedCachedExampleOutput for Tropical package so that cached + examples are used; Tropical::tropicalCycle was failing on ppc64el. + * debian/patches/use-shared-mathicgb-and-friends.patch + - Link against memtailor/mathic/mathicgb as shared libraries + again. + * debian/README.Debian + - Add qepcad to section on suggested packages. + * debian/rules + - Add --with-python option to configure. + * debian/scripts/Debian.m2 + - Update code for generateExample to use new interface to + captureExampleOutput. + - Update generateExample so that it returns a boolean object (true + if an example was generated and false otherwise.) + - Update generateExamples so it returns the number of examples that + were generated. + - Deal with FastLinAlg -> FastMinors rename for cached + regularInCodimension example. + - Cache new failing examples: + + FourTiTwo::toricGraverDegrees; illegal instruction. + + Quasidegrees::exceptionalSet; sometimes segfaults. + + RandomMonomialIdeal::VariableName; failing on ppc64el. + + RationalMaps::inverseOfMap example; sometimes segfaults. + + SpecialFanoFourfolds::grassmannianHull; sometimes segfaults. + + SpecialFanoFourfolds::specialGushelMukaiFourfold(Array,Array, + String,Thing); sometimes segfaults. + - Add comment about Tropical::tropicalCycle. + * debian/scripts/m2-get-orig-source.sh + - Add -g option to commit version bump to git. + - Add -m option to merge branch. + - Add -R option to set remote. + * debian/source/lintian-overrides + - Add package-does-not-install-examples override for + MonomialIntegerPrograms and Python packages.. + - Remove source-is-missing overrides; issues fixed upstream. + * debian/watch + - Update download URL (releases -> tags). + + -- Doug Torrance Wed, 17 Nov 2021 18:04:51 -0500 + +macaulay2 (1.18+ds-5) unstable; urgency=medium + + * debian/patches/reproducible-version.patch + - Rename from reproducible-config-args.patch. + - Use dummy compile node name and kernel release for + reproducibility. + * debian/patches/skip-failing-core-tests.patch + - Skip ComputationsBook::geometry; failing on ppc64. + - Skip CSM.test; failing on mipsel. + * debian/patches/skip-failing-package-tests.patch + - Skip check(1, "Binomials"); sometimes segfaults. + * debian/rules + - Use cp's verbose option when copying cached examples to the build + directory for improved debugging. + - Move removal of cached examples from build directory until after + dh_auto_install; otherwise we may try to install one of the affected + packages again if another example failed and IgnoreExampleErrors was + set to true. In this case, we may have gotten an error since + AuxiliaryFiles was true, but the auxiliary files had already been + removed. + * debian/scripts/Debian.m2 + - Use package version from d/changelog for Version. + - Cache new failing examples: + + MultiprojectiveVarieties::∏; failing on mips64el. + + MultiprojectiveVarieties::segre(MultiprojectiveVariety); failing + on mips64el. + + -- Doug Torrance Thu, 30 Sep 2021 13:02:53 -0400 + +macaulay2 (1.18+ds-4) unstable; urgency=medium + + * debian/patches/skip-failing-core-tests.patch + - Skip isSubset test again; failing on mips64el. + * debian/patches/skip-failing-package-tests.patch + - Skip check(2, "MultiprojectiveVarieties"); failing on mipsel. + * debian/rules + - Update libxml2 bug number in comment for override_dh_auto_test-indep + target. + * debian/scripts/Debian.m2 + - New Macaulay2 package containing various helper functions for + maintaining the Debian package; replaces copyright-helper.m2, + generate-examples.m2, and skip-test.m2. + + -- Doug Torrance Wed, 22 Sep 2021 21:29:54 -0400 + +macaulay2 (1.18+ds-3) unstable; urgency=medium + + * debian/patches/skip-failing-package-tests.patch + - Skip check(5, "MultiprojectiveVarieties"); failing on armhf. + * debian/rules + - Allow examples to fail on mipsel, mips64el, and ppc64el buildd + machines without causing the entire build to fail. + * debian/scripts/generate-examples.m2 + - Cache new failing examples: + + HyperplaneArrangements::arrangement(String,PolynomialRing); + failing on ppc64el. + + SpectralSequences::pruningMaps(SpectralSequencePage), failing on + mipsel and mips64el. + + -- Doug Torrance Thu, 16 Sep 2021 15:22:15 -0400 + +macaulay2 (1.18+ds-2) unstable; urgency=medium + + * debian/control + - Move dh-elpa from Build-Depends to Build-Depends-Indep (as + dh-sequence-elpa). + * debian/patches/skip-failing-core-tests.patch + - Skip ComputationsBook::constructions; failing on s390x. + * debian/patches/skip-failing-package-tests.patch + - Skip new failing tests: + + check({1, 2, 3}, "CharacteristicClasses"); failing on armhf and + s390x. + + check(68, "EngineTests"); failing on armhf and s390x. + + check(21, "IntegralClosure"); failing on armhf. + + check(3, "MultiprojectiveVarieties"); failing on armhf. + + check(4, "NumericalImplicitization"); failing with LAPACK 3.10.0. + + check({0, 1, 2, 3, 5, 7, 8, 9, 10}, "SegreClasses"); failing on + armhf and s390x. + + check(3, "SparseResultants"); failing on armhf. + + check({0, 8}, "SpecialFanoFourfolds"); failing on armhf. + * debian/rules + - Drop --with elpa, unnecessary now that dh-sequence-elpa is in + Build-Depends-Indep. + - New execute_before_dh_missing target; remove emacs files when not + building elpa-macaulay2; otherwise dh_missing will fail. + - Skip validate-html check pending libxml2 bug + * debian/scripts/generate-examples.m2 + - Drop dir argument from generateExample; it will always be the debian + directory. + - Cache new failing examples: + + Macaulay2Doc::MinimalGenerators; failing on s390x. + + MixedMultiplicity::mixedVolume; failing on mipsel. + + MultiprojectiveVarieties::image(MultirationalMap); failing on + s390x. + + SparseResultants::char(SparseResultant); failing on s390x + (Closes: #993923). + * debian/scripts/m2-get-orig-source.sh + - Remove dch backup file if present before calling dch to update + version number. + * debian/scripts/skip-test.m2 + - New script; helper function for skipping tests + * debian/source/lintian-overrides + - Add overrides for source-is-missing false positives. + * debian/tests/control + - Clean up using wrap-and-sort. + + -- Doug Torrance Thu, 09 Sep 2021 05:36:24 -0400 + +macaulay2 (1.18+ds-1) unstable; urgency=medium + + * Upload to unstable. + * debian/control + - Bump Standards-Version to 4.6.0. + * debian/patches/skip-failing-package-tests.patch + - Skip check(90, "EngineTests"); failing on mips64el. + * debian/patches/use-cached-examples.m2 + - Add TestIdeals package; it was missing and so we weren't actually + using the cached example. + * debian/rules + - Add VERSION variable; removes duplicate code. + * debian/scripts/copyright-helper.m2 + - Improve regular expressions for matching author names. + - Add reminder to confirm that a package's copyright information is + correct. + * debian/scripts/generate-examples.m2 + - Cache new failing examples, updating d/examples and + d/patches/use-cached-examples accordingly: + + Elimination::discriminant(RingElement,RingElement); failing on + ppc64el. + + Three SpectralSequences examples; failing on mipsel. + - Raise error if a package hasn't been added to + use-cached-examples.patch. + * debian/scripts/m2-get-orig-source.sh + - Use getopt for command line args + - New --no-tarball option; only updates version number. + - Add --help option. + - Only update d/changelog if necessary. + - Don't generate orig tarball if it already exists. + + -- Doug Torrance Fri, 20 Aug 2021 21:34:00 -0400 + +macaulay2 (1.18+ds-1~exp3) experimental; urgency=medium + + * debian/copyright + - Add entries for packages that had previously been omitted. + + NCAlgebraV2 + + SubalgebraBases + + SuffixTrees + * debian/patches/skip-failing-core-tests.patch + - Skip plethysms test; failing on mipsel. + - Stop schur-2 test a bit earlier; failing on armel and armhf. + * debian/scripts/copyright-helper.m2 + - Improve regex for determining whether packages are actually listed in + d/copyright. + - Simplify missingPackages function; detect path to d/copyright instead + of requiring the user to specify it. + - Improve missingPackages function by searching for packages in the + source directory (including undistributed packages) instead of just + the ones listed in the version hash table. + * debian/scripts/generate-examples.m2 + - Cache new failing examples, updating d/examples and + d/patches/use-cached-examples accordingly: + + PrimaryDecomposition::primaryDecomposition + + M0nbar::writeCurveInSingletonSpineBasis + + M0nbar::writeCurveInSingletonSpineBasis(ZZ,List) + - Simplify generateExamples function; detect path to debian directory + instead of requiring the user to specify it. + * debian/tests/control + - Remove polymake from Depends; not necessary for most tests and not + available in armel. + + -- Doug Torrance Thu, 29 Jul 2021 07:50:46 -0400 + +macaulay2 (1.18+ds-1~exp2) experimental; urgency=medium + + * debian/gbp.conf + - Set default debian-branch to debian/master. + * debian/patches/hardening.patch + - New patch; Don't override -fstack-protector-strong from dpkg-buildflags. + * debian/patches/fix-visualize-firefox.patch + - Switch from Forwarded to Applied-Upstream. + * debian/patches/reproducible-tvalues.patch + - New patch; sort files in d directory when making tvalues.m2. Otherwise, + tvalues.m2 is not reproducible. + * debian/patches/skip-failing-core-tests.patch + - Skip core-tests.m2. + * debian/patches/skip-failing-package-tests.patch + - Skip new failing tests: + + check(8, "DiffAlg") + + check(7, "MultiprojectiveVarieties") + + check(3, "NumericalImplicitization") + + check(8, "NumericalImplicitization") + + check(0, "Topcom") + - Add missing Bug field. + * debian/salsa-ci.yml + - Allow reprotest to fail in Salsa pipeline. + * debian/scripts/generate-examples.m2 + - Cache new failing examples: + + GraphicalModelsMLE::solverMLE(...,RealPrecision=>...) + + MultiprojectiveVarieties::EmbeddedProjectiveVariety ===> + EmbeddedProjectiveVariety + + SimplicialDecomposability::isSheddingVertex + + SpecialFanoFourfolds::toGrass(EmbeddedProjectiveVariety) + + SRdeformations::complement(Complex) + - Add generated examples to debian/examples. + - Set AuxiliaryFiles and CacheExampleOutput options for affected packages + in debian/patches/use-cached-examples.patch. + - Don't reload package when generating examples unless necessary. The + Macaulay2Doc examples were really slowing down the script -- now we only + need to wait for the first one. + - Improve error handling; only raise an error if we have extra .out files. + + -- Doug Torrance Tue, 27 Jul 2021 10:43:17 -0400 + +macaulay2 (1.18+ds-1~exp1) experimental; urgency=medium + + * debian/control + - Add libmpfi-dev and libtbb-dev to Build-Depends; needed for new + features added upstream. + - Remove imagemagick from Suggests; no longer required by the + Graphs package as it now uses xdg-open to open generated images. + * debian/copyright + - Remove paragraph from Cygwin files that have been removed from + source. + - Add/update paragraphs for new/modified packages. + * debian/examples + - Add cached examples generated by d/scripts/generate-examples.m2. + * debian/macaulay2-common.info + - New file; use dh_installinfo to install info files instead of + dh_install. This way, we can more easily support builds with + "nodoc" in DEB_BUILD_OPTIONS. + * debian/macaulay2-common.lintian-overrides + - Add package-contains-documentation-outside-usr-share-doc + override for new file. + * debian/patches + - Refresh for new upstream release. + - Remove patches applied or otherwise made unnecessary upstream. + + dont-capture-check-core-32-bit.patch + + dont-capture-diffalg-tests.patch + + smaller-points-examples.patch + + use-debian-applications.patch + * debian/patches/fix-visualize-firefox.patch + - New patch; fix Visualize package in Firefox (symlinks to assets + weren't working). + * debian/patches/remove-build-paths-from-docs + - Remove patch; we now cache examples that were causing + reproducibility issues. + * debian/patches/skip-failing-{core,package}-tests + - Stop skipping tests that have been fixed upstream and start + skipping new tests that have caused build errors. + - Better document which tests go with which upstream issues. + * debian/patches/use-cached-examples.patch + - New patch replacing use-canned-examples.patch. Set affected + packages to use cached examples that are generated by + d/scripts/generate-examples.patch. + * debian/README.md + - Update descriptions of packages in Suggests. + * debian/rules + - Export MakeDocumentation variable to support builds with + "nodoc" in DEB_BUILD_OPTIONS. + - Set installation directory for Emacs files; previously this + was done in use-dh-elpa.patch. + - Move cached examples generated by d/scripts/generate-examples.m2 + into the build directory so that they may be properly installed + and then clean up afterwards. + - Use $(MAKE) instead of explicitly calling make. + * debian/salsa-ci.yml + - Add Salsa pipelines config file. + * debian/scripts/generate-examples.m2 + - New script; generate examples for the documentation for certain + cases which have been known to cause build errors. Previously, + we used canned examples, but cached examples are treated just like + standard examples that are generated during build. + * debian/scripts/m2-get-orig-source.sh + - Add support for version numbers containing "-rc". + - Explicitly call GNU awk, as it is necessary for the script to run + properly. + * debian/source/lintian-overrides + - Update package-does-not-install-examples overrides. + * debian/watch + - Add support for version numbers containing "-rc". + - Use more general regular expression to find GitHub releases. + + -- Doug Torrance Wed, 07 Jul 2021 13:08:53 +0530 + +macaulay2 (1.17.1+ds-2) unstable; urgency=medium + + * debian/patches/dont-capture-check-core-32-bit.patch + - New patch; don't use capture when running Core and Cremona tests + on 32-bit architectures. Otherwise, we run out of memory. + * debian/patches/dont-capture-diffalg-tests.patch + - New patch; don't use "capture" for DiffAlg package tests. + * debian/patches/skip-failing-package-tests.patch + - Add core-tests.m2; contains a test with an alarm that isn't + caught when running "check". + - Skip another segfaulting MinimalPrimes test. + * debian/patches/smaller-points-examples.patch + - New patch; Remove examples showing less efficient algorithms + from Points docs. + * debian/patches/use-canned-examples.patch + - Add example from TestIdeals package that has been known to + segfault. + * debian/rules + - Exclude .m2 files from being gzipped by dh_compress. Otherwise, + package tests may be compressed and won't be found by "check". + - Only set VERBOSE variable if DEB_BUILD_OPTIONS doesn't include + "terse". + + -- Doug Torrance Sun, 24 Jan 2021 08:57:47 -0500 + +macaulay2 (1.17.1+ds-1) unstable; urgency=medium + + * New upstream release. + * debian/clean + - Add autogenerated file debian/macaulay2-pkg.el. + * debian/control + - Add packages to Recommends. + + info: info is used by "infoHelp" function. + + texlive-latex-base: latex is used by "showTex" function. + + xdg-utils: xdg-open is used by "show" function. + + xterm: xterm is used by "edit" function. + - Add packages to Suggests. + + fig2dev: Used by gfanInterface package. + + dot2tex/graphviz/imagemagick: Used by Graphs package. + + pdf-viewer: Used by Posets package. + - Switch from node-jquery to libjs-jquery (versioned, to ensure + that the minified jQuery source is not a symbolic link) in + Build-Depends-Indep. + * debian/copyright + - Various updates for new release. + * debian/elpa-macaulay2.{docs,elpa} + - Update paths to Emacs-related files files. + * debian/macaulay2-common.linktrees + - Update path the minified jQuery source needed by Visualize package. + Previously, it was shipped in the node-jquery package, but was + moved to libjs-jquery in version 3.5.1+dfsg+~3.5.5-4. + * debian/patches + - Refresh for new release. + - Previous skip-*-{example,test}.patch's have been combined into + three patches for simplicity: + + used-canned-examples.patch: Canned versions of examples that + have been known to fail. + + skip-failing-core-tests.patch: Tests in M2/Macaulay2/tests that + have been known to fail. + + skip-package-tests.patch: Package tests that have been known + to fail. We also use the new "-* no-check-flag *-" feature + to skip these tests rather than patching them out entirely. + * debian/patches/git-description.patch + - New patch; provide version#"git description". + * debian/patches/use-debian-applications.patch + - New patch; tell gfanInterface package where to find fig2dev and + Posets package to use xdg-open to view pdf files. + * debian/patches/use-dh-elpa.patch + - New patch; modifications to work with dh_elpa. + * debian/README.Debian + - Remove section on orig tarballs; they are no longer generated on + Salsa. + - Add section discussing packages listed in Suggests. + * debian/rules + - Add execute_after_dh_install-arch target to remove empty directory. + - Simplify debian/macaulay2-pkg.el rule. + - Add get-orig-source target. + * debian/scripts/copyright-helper.m2 + - Move file into new debian/scripts directory. + * debian/scripts/m2-get-orig-source.sh + - New script to generate orig tarballs. + * debian/scripts/m2-tarball-warning.sh + - New script to display a warning if using uscan to generate a + tarball. + * debian/tests/control + - Add messages before each stage of testing. + - Add "M2 --check 2" for testing Core package. + * debian/watch + - Upstream has begun tagging stable releases, so we switch to + GitHub for the link. However, uscan should only be used + to check for new releases, as the tarballs it generates will + be missing the files from the M2-emacs submodule. + + -- Doug Torrance Sat, 16 Jan 2021 18:14:58 -0500 + +macaulay2 (1.16.99+git40.3a512e5+ds-1~exp1) experimental; urgency=medium + + * New upstream beta release. + * debian/control + - Add packages to Build-Depends. + + dh-linktree: We now use this debhelper addon to create symbolic + links to Debian copies of GPL licenses and various Javascript + libraries instead of patching the files directly to point to + them. + + libboost-regex-dev: Replaces embedded copy of GNU regex library + used in previous releases. + + libboost-stacktrace-dev: Improves readability of stack traces. + - Add Build-Depends-Indep. + + jdupes: Moved from Build-Depends; only needed for building + documentation. + + Various fonts and Javascript libraries; needed during build + by dh_linktree. + + w3c-markup-validator: Used to validate html in documentation. + - Bump Standards-Version to 4.5.1. + - Remove Javascript libraries from Recommends. They will now be + pulled in by ${misc:Depends} thanks to dh_linktree. + - Add emacs to Recommends for elpa-macaulay2. + * debian/copyright + - Add KaTeX files to Files-Excluded. + - Add paragraph for KaTeX files. + - Remove paragraph for embedded GNU regex library. + - Add licensing information for new packages added since previous + release. + * debian/copyright-helper.m2 + - New Macaulay2 script to help generate debian/copyright paragraphs + for new packages. + * debian/macaulay2-common.linktrees + - New file; tell dh_linktree where Debian copies of GPL licenses + and Javascript libraries are located. + * debian/macaulay2-common.lintian-overrides + - Update package-contains-documentation-outside-usr-share-doc + overrides for files that have changed since previous release. + * debian/missing-source/render-a11y-string.js + - Add source for minified KaTeX file that isn't in Debian yet. + * debian/patches + - Remove patches applied (or otherwise made unnecessary) upstream. + + fix-*.patch + + hardening.patch + + remove-build-paths-from-cached-files.patch + + remove-build-paths-from-docs.patch (Patch remains, but only + increases the default print width of examples.) + + use-debian-{4ti2,cohomcalg,csdp,gfan,nauty,normaliz,topcom}.patch + - Refresh remaining patches for new upstream version. + * debian/patches/skip-computations-book-test.patch + - Rename from fix-computations-book-test.patch; the behavior of the + test is too unpredictable between different architectures, so + we skip it entirely instead of trying to fix it. + * debian/patches/skip-*-{example,test}.patch + - Skip some additional examples and tests that have been known + to fail on various architectures. + * debian/patches/use-debian-{gpl,javascript}.patch + - Remove patches; we use dh_linktree for the same purpose instead. + * debian/README.Debian + - Add information about KaTeX to "Javascript libraries" section. + - Add section on using dwww to view the Macaulay2 documentation. + * debian/rules + - Use dh_linktree addon. + - New execute_before_dh_auto_build target; touch KaTeX files to + prevent html-check-links test from failing. + - Drop check for "nocheck" in DEB_BUILD_OPTIONS from + override_dh_auto_test rule; not necessary in debhelper 13. + We also append "-arch" to this target. + - New override_dh_auto_test-indep rule to validate html docs. + - Switch override_dh_link target that calls jdupes to + execute_before_dh_link-indep target. + - Switch override_dh_elpa target that generates -pkg.el file + to execute_before_dh_elpa target. + * debian/tests/check.m2 + - Remove file; no longer needed. + * debian/tests/control + - Use upstream's updated --check command line argument to run + continuous integration tests. + * debian/upstream/metadata + - Add recent NSF grants to Funding. + - Add new Macaulay2Web interface to Webservice. + + -- Doug Torrance Sat, 26 Dec 2020 00:29:42 -0500 + +macaulay2 (1.16+git55.94c4b7d+ds-2) unstable; urgency=medium + + * Upload to unstable. + + -- Doug Torrance Wed, 04 Nov 2020 20:54:18 -0500 + +macaulay2 (1.16+git55.94c4b7d+ds-2~exp1) experimental; urgency=medium + + * Source-only upload for migration to testing. + * debian/control + - Add libmps-dev to Build-Depends. + - Add lsb-release to Build-Depends so configure can detect the + Debian release. + - Fix URL in VCS-* fields. + * debian/elpa-test + - Disable dh_elpa_test so it doesn't override dh_auto_test. + * debian/patches/skip-mpsolve-for-now.patch + - Remove patch; mpsolve is now in Debian. + * debian/patches/{fix,skip}-*-{example,test}.patch: + - New patches; fix or skip examples or tests causing build + failures on various architectures. + * debian/README.Debian + - Remove section on 'roots' function. It is now available since + mpsolve is in Debian. + + -- Doug Torrance Wed, 04 Nov 2020 20:54:18 -0500 + +macaulay2 (1.16+git55.94c4b7d+ds-1) unstable; urgency=low + + * Initial release (Closes: #439888). + + -- Doug Torrance Sun, 04 Oct 2020 16:31:20 -0400 diff --git a/clean b/clean new file mode 100644 index 0000000..5e20d65 --- /dev/null +++ b/clean @@ -0,0 +1,2 @@ +debian/macaulay2-pkg.el +M2/usr-host/lib/libmissing.a diff --git a/control b/control new file mode 100644 index 0000000..298214c --- /dev/null +++ b/control @@ -0,0 +1,147 @@ +Source: macaulay2 +Section: math +Priority: optional +Maintainer: Debian Math Team +Uploaders: Doug Torrance +Build-Depends: 4ti2, + bison, + cohomcalg, + coinor-csdp, + debhelper-compat (= 13), + dh-linktree, + fflas-ffpack, + flex, + gfan, + install-info, + libatomic-ops-dev, + libboost-dev, + libboost-math-dev, + libboost-regex-dev, + libboost-stacktrace-dev, + libcdd-dev, + libeigen3-dev, + libflint-dev (>= 2.6.0~), + libfrobby-dev, + libgc-dev, + libgdbm-dev, + libgivaro-dev, + libglpk-dev, + libgtest-dev, + liblapack-dev, + liblzma-dev, + libmathic-dev, + libmathicgb-dev (>= 1.0~git20220225~), + libmemtailor-dev, + libmpfi-dev, + libmpfr-dev, + libmps-dev, + libntl-dev, + libreadline-dev, + libsingular4-dev (>= 1:4.2.0~), + libtbb-dev, + libxml2-dev, + lrslib, + lsb-release, + nauty, + normaliz, + pkg-config, + python3-dev , + singular-data, + time, + topcom +Build-Depends-Indep: dh-sequence-elpa, + faketime, + fonts-glyphicons-halflings, + fonts-katex, + gdbmtool, + jdupes, + libjs-bootsidemenu, + libjs-bootstrap, + libjs-d3, + libjs-jquery (>= 3.5.1+dfsg+~3.5.5-4), + libjs-katex (>= 0.11.0~), + libjs-nouislider, + libjs-three, + libjs-underscore, + node-clipboard, + node-css-loader , + node-highlight.js , + node-import-local , + node-interpret , + node-rechoir , + node-style-loader , + npm , + pkg-js-tools , + w3c-markup-validator , + webpack +Standards-Version: 4.6.1 +Homepage: http://macaulay2.com +Vcs-Browser: https://salsa.debian.org/math-team/macaulay2 +Vcs-Git: https://salsa.debian.org/math-team/macaulay2.git +Rules-Requires-Root: no + +Package: macaulay2 +Architecture: any +Depends: gdbmtool, + macaulay2-common (= ${source:Version}), + singular-data, + ${misc:Depends}, + ${shlibs:Depends} +Recommends: 4ti2, + cohomcalg, + coinor-csdp, + elpa-macaulay2 (= ${source:Version}), + gfan, + info, + lrslib, + nauty, + normaliz, + texlive-latex-base, + topcom, + www-browser, + xdg-utils, + xterm +Suggests: dot2tex, + fig2dev, + graphviz, + pdf-viewer, + phcpack, + polymake, + qepcad, + sdpa +Description: Software system for algebraic geometry research + Macaulay 2 is a software system for algebraic geometry research, written by + Daniel R. Grayson and Michael E. Stillman. Based on Groebner bases, it + provides algorithms for computing homological invariants of rings and + modules. + . + This package contains the architecture dependent portion of Macaulay2. + +Package: macaulay2-common +Architecture: all +Multi-Arch: foreign +Depends: ${misc:Depends} +Description: Software system for algebraic geometry research (common files) + Macaulay 2 is a software system for algebraic geometry research, written by + Daniel R. Grayson and Michael E. Stillman. Based on Groebner bases, it + provides algorithms for computing homological invariants of rings and + modules. + . + This package contains the architecture independent portion of Macaulay2, and is + normally installed automatically when one of the architecture dependent + packages is installed. + +Package: elpa-macaulay2 +Architecture: all +Multi-Arch: foreign +Section: editors +Depends: ${elpa:Depends}, ${misc:Depends} +Recommends: emacs +Description: Software system for algebraic geometry research (Emacs package) + Macaulay 2 is a software system for algebraic geometry research, written by + Daniel R. Grayson and Michael E. Stillman. Based on Groebner bases, it + provides algorithms for computing homological invariants of rings and + modules. + . + This package contains the modes for running Macaulay2 within Emacs and + editing Macaulay2 code. diff --git a/copyright b/copyright new file mode 100644 index 0000000..f8e3fbb --- /dev/null +++ b/copyright @@ -0,0 +1,2302 @@ +Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Upstream-Name: Macaulay2 +Source: http://macaulay2.com +Files-Excluded: + M2/Macaulay2/packages/Style/katex + M2/Macaulay2/packages/Visualize/css/BootSideMenu.css + M2/Macaulay2/packages/Visualize/css/bootstrap*.min.css + M2/Macaulay2/packages/Visualize/css/nouislider.* + M2/Macaulay2/packages/Visualize/fonts + M2/Macaulay2/packages/Visualize/js/BootSideMenu.js + M2/Macaulay2/packages/Visualize/js/bootstrap.min.js + M2/Macaulay2/packages/Visualize/js/clipboard.min.js + M2/Macaulay2/packages/Visualize/js/d3.v3.min.js + M2/Macaulay2/packages/Visualize/js/jquery-1.11.3.min.js + M2/Macaulay2/packages/Visualize/js/nouislider.min.js + M2/Macaulay2/packages/Visualize/js/three.min.js + M2/Macaulay2/packages/Visualize/js/underscore.js +Comment: Files-Excluded field removes embedded Javascript libraries. + . + An email from Dan Grayson dated 2020-08-03 clarified the + licenses of code contributed by authors other than himself and Mike + Stillman: + . + "A priori the author of a file is the copyright holder, by default. + We haven't always been alert about asking authors to put their code + in the public domain, although I have done that in a few + cases. . . My general attitude is that anyone who contributes code to + us is putting it in the public domain, implicitly." + +Files: * +Copyright: 1993-2019 Daniel R. Grayson + 1993-2020 Michael E. Stillman +License: GPL-2+ + +Files: debian/* +Copyright: 2015-2022 Doug Torrance +License: GPL-2+ + +Files: M2/cmake/FindAtomicOps.cmake + M2/cmake/FindBDWGC.cmake + M2/cmake/FindFactory.cmake + M2/cmake/FindFlint.cmake + M2/cmake/FindFrobby.cmake + M2/cmake/FindGDBM.cmake + M2/cmake/FindMathic.cmake + M2/cmake/FindMathicgb.cmake + M2/cmake/FindMemtailor.cmake + M2/cmake/FindMPIR.cmake + M2/cmake/FindMPSolve.cmake + M2/cmake/FindNTL.cmake +Copyright: 2020 Mahrud Sayrafi +Comment: The files themselves only contain the line "Redistribution + and use is allowed according to the terms of the BSD license." In an + email, the author confirmed that the license in question is the + 3-clause version, which is the same license used by CMake itself. See + https://cmake.org/licensing/. This comment also applies to the other + Find*.cmake files below. +License: BSD-3-Clause + +Files: M2/cmake/FindCDDLIB.cmake +Copyright: 2006 Laurent Montel + 2018 Thomas Baumgart + 2020 Mahrud Sayrafi +License: BSD-3-Clause + +Files: M2/cmake/FindGMP.cmake +Copyright: 2016 Jack Poulson + 2020 Mahrud Sayrafi +License: BSD-3-Clause + +Files: M2/cmake/FindMPFR.cmake +Copyright: 2006, 2007 Montel Laurent + 2008, 2009 Gael Guennebaud + 2010 Jitse Niesen + 2015 Jack Poulson + 2020 Mahrud Sayrafi +License: BSD-3-Clause + +Files: M2/cmake/FindTBB.cmake +Copyright: 2012 Sergiu Dotenco +License: Expat + +Files: M2/config/ax_compare_version.m4 +Copyright: 2008 Tim Toolan +License: FSFAP + +Files: M2/config/ax_func_accept_argtypes.m4 +Copyright: 2008 Daniel Richard G. +License: GPL-2+ with autoconf exception + +Files: M2/config/ax_prog_cc_for_build.m4 +Copyright: 2008 Paolo Bonzini +License: FSFAP + +Files: M2/config/gtest.m4 +Copyright: 2012 Canonical, Ltd. +License: Expat + +Files: M2/Macaulay2/d/boost-regex.cpp + M2/Macaulay2/d/regex.dd + M2/Macaulay2/m2/markdown.m2 + M2/Macaulay2/m2/regex.m2 +Copyright: 2020 Mahrud Sayrafi +Comment: See Comment at top of this file. +License: public-domain + +Files: M2/Macaulay2/e/bibasis/* + M2/Macaulay2/packages/BIBasis.m2 +Copyright: 2006-2011 Mikhail V. Zinin +License: GPL-2+ + +Files: M2/Macaulay2/e/franzi* +Copyright: Franziska Hinkelmann +License: public-domain + +Files: M2/Macaulay2/e/localring.cpp + M2/Macaulay2/e/localring.hpp + M2/Macaulay2/e/mutablecomplex.cpp + M2/Macaulay2/e/mutablecomplex.hpp + M2/Macaulay2/m2/localring.m2 + M2/Macaulay2/packages/PruneComplex* +Copyright: 2017 Mahrud Sayrafi + 2017 Mike Stillman +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/e/mpreal.h +Copyright: 2008-2019 Pavel Holoborodko +License: GPL-3+ + +Files: M2/Macaulay2/e/mutablemat-imp.hpp + M2/Macaulay2/e/NAG.cpp + M2/Macaulay2/e/NAG.hpp + M2/Macaulay2/e/SLP.cpp + M2/Macaulay2/e/SLP.hpp + M2/Macaulay2/e/SLP-defs.hpp + M2/Macaulay2/e/SLP-imp.hpp +Copyright: 2008, 2015 Anton Leykin and Mike Stillman +Comment: Anton Leykin's code in this file is in the public domain. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/e/unit-tests/GivaroTest.cpp +Copyright: 1994-2009 The Givaro group +License: CECILL-B + +Files: M2/Macaulay2/editors/pygments/macaulay2.py.in +Copyright: 2006-2021 Pygments team +Comment: The copyright header says to "see AUTHORS". This refers to + the AUTHORS file in the Pygments source. See the Debian "pygments" + source package or https://github.com/pygments/pygments. +License: BSD-2-clause + +Files: M2/Macaulay2/editors/vim/m2.vim.plugin +Copyright: 2010 David Cook II +License: public-domain + +Files: M2/Macaulay2/m2/book.m2 +Copyright: 1997 Daniel R. Grayson + 2020 Mahrud Sayrafi +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/m2/expressions.m2 +Copyright: 1992-2002 Daniel R. Grayson + 2018 P. Zinn-Justin +Comment: See M2/LICENSING-NOTES +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/m2/fano.m2 + M2/Macaulay2/tests/normal/testsubring.m2 +Copyright: 1996, 1997 Michael Stillman and David Eisenbud +License: GPL-2+ + +Files: M2/Macaulay2/m2/hypertext.m2 +Copyright: 1993-2003 Daniel R. Grayson + 2020 P. Zinn-Justin + 2020 Mahrud Sayrafi +Comment: See M2/LICENSING-NOTES +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/PrimaryDecomposition* +Copyright: 2020 Mike Stillman + 2020 Carolyn Yackel + 2020 Justin Chen + 2020 Mahrud Sayrafi +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/m2/minPres.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/minimalPresentation-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/trim-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/overviewB.m2 + M2/Macaulay2/packages/PrimaryDecomposition/primaryDecomposition-test.m2 +Copyright: 2006 Amelia Taylor +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/m2/schubert.m2 +Copyright: Bernd Sturmfels + Josephine Yu +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/m2/webapp.m2 + M2/Macaulay2/packages/CotangentSchubert* + M2/Macaulay2/packages/MergeTeX* + M2/Macaulay2/packages/OnlineLookup.m2 + M2/Macaulay2/packages/VectorGraphics* +Copyright: 2018-2022 Paul Zinn-Justin +Comment: See M2/LICENSING-NOTES +License: public-domain + +Files: M2/Macaulay2/packages/AdjointIdeal* + M2/Macaulay2/packages/ConvexInterface* + M2/Macaulay2/packages/MapleInterface* + M2/Macaulay2/packages/Parametrization* + M2/Macaulay2/packages/SRdeformations.m2 +Copyright: 2009 Janko Boehm +License: GPL-2+ + +Files: M2/Macaulay2/packages/AlgebraicSplines.m2 +Copyright: 2014-2015 Mike Dipasquale +License: GPL-2+ + +Files: M2/Macaulay2/packages/AnalyzeSheafOnP1.m2 + M2/Macaulay2/packages/ChainComplexOperations.m2 + M2/Macaulay2/packages/CompleteIntersectionResolutions.m2 + M2/Macaulay2/packages/HigherCIOperators.m2 + M2/Macaulay2/packages/HomotopyLieAlgebra.m2 + M2/Macaulay2/packages/Isomorphism.m2 + M2/Macaulay2/packages/MCMApproximations.m2 +Copyright: 2013, 2015, 2017, 2019, 2021, 2022 David Eisenbud +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/AssociativeAlgebras* + M2/Macaulay2/packages/NCAlgebraV2.m2 + M2/Macaulay2/packages/undistributed-packages/SuffixTrees.m2 +Copyright: 2016, 2021 Frank Moore + 2016, 2021 Mike Stillman +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/AInfinity.m2 + M2/Macaulay2/packages/BeginningMacaulay2* + M2/Macaulay2/packages/EagonResolution.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/pushForward-doc.m2 + M2/Macaulay2/packages/MonomialOrbits.m2 + M2/Macaulay2/packages/Truncations.m2 + M2/Macaulay2/packages/undistributed-packages/RandomSearch.m2 +Copyright: 2006, 2009, 2018, 2020, 2021 David Eisenbud + 2006, 2009, 2018, 2020, 2021 Mike Stillman +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/Bertini* +Copyright: 2020 Elizabeth Gross + 2020 Jose Israel Rodriguez + 2020 Dan Bates + 2020 Anton Leykin +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/BettiCharacters.m2 + M2/Macaulay2/packages/HighestWeights* +Copyright: 2014, 2021 Federico Galetto +License: GPL-3+ + +Files: M2/Macaulay2/packages/BGG.m2 +Copyright: 2016 Hirotachi Abo + 2016 Wolfram Decker + 2016 David Eisenbud + 2016 Frank Schreyer + 2016 Gregory G. Smith + 2016 Mike Stillman +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/BinomialEdgeIdeals.m2 +Copyright: 2015 Tobias Windisch +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Binomials.m2 + M2/Macaulay2/packages/Cyclotomic.m2 +Copyright: 2009-2014 Thomas Kahle +License: GPL-2+ + +Files: M2/Macaulay2/packages/BoijSoederberg.m2 +Copyright: 2015 David Eisenbud + 2015 Frank Schreyer + 2015 Mike Stillman + 2015 Courtney Gibbons + 2015 Branden Stone +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/Book3264Examples.m2 +Copyright: 2010 Charley Crissman +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/BooleanGB.m2 +Copyright: 2011 Franziska Hinkelmann + 2011 Mike Stillman + 2011 Elizabeth Arnold +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/Bruns.m2 +Copyright: 2008 David Eisenbud + 2008 Sonja Petrovic + 2008 Adam Van Tuyl +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/ChainComplexExtras.m2 +Copyright: 2016 David Eisenbud + 2016 Frank Moore + 2016 Frank-Olaf Schreyer + 2016 Greg Smith + 2016 Lily Silverstein +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/CharacteristicClasses.m2 +Copyright: 2015 Martin Helmer + 2015 Christine Jost +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Chordal* +Copyright: 2017 Diego Cifuentes + 2017 Pablo Parrilo +License: GPL-2+ + +Files: M2/Macaulay2/packages/CodingTheory.m2 +Copyright: 2021 Taylor Ball + 2021 Eduardo Camps + 2021 Henry Chimal-Dzul + 2021 Delio Jaramillo-Velez + 2021 Hiram H. Lopez + 2021 Nathan Nichols + 2021 Matthew Perkins + 2021 Ivan Soprunov + 2021 German Vera + 2021 Gwyn Whieldon +License: GPL-3+ + +Files: M2/Macaulay2/packages/CoincidentRootLoci* +Copyright: 2020 Maria Chiara Brambilla + 2020 Giovanni Staglianò +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Complexes.m2 +Copyright: 2020 Gregory G. Smith + 2020 Mike Stillman +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/ConformalBlocks.m2 + M2/Macaulay2/packages/StatePolytope* +Copyright: 2008, 2018 Dave Swinarski +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/CorrespondenceScrolls.m2 +Copyright: 2018 David Eisenbud + 2018 Frank-Olaf Schreyer + 2018 Alessio Sammartano +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Cremona* + M2/Macaulay2/packages/MultiprojectiveVarieties.m2 + M2/Macaulay2/packages/Resultants.m2 + M2/Macaulay2/packages/SparseResultants.m2 + M2/Macaulay2/packages/SpecialFanoFourfolds.m2 +Copyright: 2020 Giovanni Staglianò +License: GPL-2+ + +Files: M2/Macaulay2/packages/DecomposableSparseSystems* +Copyright: 2020 Taylor Brysiewicz + 2020 Jose Israel Rodriguez + 2020 Frank Sottile + 2020 Thomas Yahl +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Depth.m2 +Copyright: 2010 Bart Snapp + 2016 David Eisenbud + 2016 Branden Stone +License: public-domain + +Files: M2/Macaulay2/packages/DeterminantalRepresentations.m2 +Copyright: 2019 Justin Chen + 2019 Papri Dey +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/DGAlgebras.m2 +Copyright: 2017 Frank Moore +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/DiffAlg.m2 +Copyright: 2018 Manuel Dubinsky + 2018 Cesar Massri + 2018 Ariel Molinuevo + 2018 Federico Quallbrunn +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Divisor.m2 +Copyright: 2018 Karl Schwede + 2018 Zhaoning Yang +License: public-domain + +Files: M2/Macaulay2/packages/Dmodules* +Copyright: 1999-2009 Anton Leykin + 1999-2009 Harrison Tsai +License: GPL-2+ + +Files: M2/Macaulay2/packages/EdgeIdeals.m2 +Copyright: 2008-2010 Chris Francisco + 2008-2010 Andrew Hoefel + 2008-2010 Adam Van Tuyl +License: GPL-2+ + +Files: M2/Macaulay2/packages/EliminationMatrices.m2 +Copyright: 2011, 2012 Nicolás Botbol + 2011, 2012 Laurent Busé + 2011, 2012 Manuel Dubinsky +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/EllipticCurves.m2 +Copyright: 2014 Alessandro Oneto + 2014 Stefano Marseglia +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/EngineTests* + M2/Macaulay2/packages/undistributed-packages/CustomEngineTests.m2 + M2/Macaulay2/packages/undistributed-packages/FastLinearAlgebra* +Copyright: 2011 Michael E. Stillman + 2011 Jakob Kröker +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/EnumerationCurves.m2 +Copyright: 2013 Hiep Dang +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/EquivariantGB* +Copyright: 2014 Chris Hillar + 2014 Robert Krone + 2014 Anton Leykin +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/EigenSolver.m2 +Copyright: 2020 Laurent Busé + 2020 Justin Chen + 2020 Kisun Lee + 2020 Anton Leykin + 2020 Tomas Pajdla + 2020 Erika Pirnes +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/ExampleSystems* +Copyright: 2020 Anton Leykin + 2020 Justin Chen + 2020 Kelly Maluccio + 2020 Leah Gold +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/ExteriorIdeals.m2 + M2/Macaulay2/packages/ExteriorModules.m2 +Copyright: 2017, 2021 Marilena Crupi + 2017, 2021 Luca Amata +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/FastMinors.m2 +Copyright: 2021 Boyana Martinova + 2021 Marcus Robinson + 2021 Karl Schwede + 2021 Yuhui (Wei) Yao +License: public-domain + +Files: M2/Macaulay2/packages/FGLM.m2 +Copyright: 2019 Dylan Peifer + 2019 Mahrud Sayrafi +License: GPL-3+ + +Files: M2/Macaulay2/packages/FiniteFittingIdeals.m2 +Copyright: 2015 Gustav Sædén Ståhl +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/FormalGroupLaws.m2 + M2/Macaulay2/packages/Graphics.m2 + M2/Macaulay2/packages/WeylGroups* +Copyright: 2010, 2012 Baptiste Calmès + 2010, 2012 Viktor Petrov +License: GPL-2+ + +Files: M2/Macaulay2/packages/FourierMotzkin.m2 +Copyright: 1998-2000, 2006, 2008, 2010 Gregory G. Smith +License: GPL-2+ + +Files: M2/Macaulay2/packages/FourTiTwo.m2 +Copyright: 2008, 2009 Mike Stillman + 2008, 2009 Josephine Yu + 2008, 2009 Sonja Petrovic +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/FrobeniusThresholds* +Copyright: 2019 Juliette Bruce + 2019 Daniel Hernández + 2019 Karl Schwede + 2019 Dan Smolkin + 2019 Pedro Teixeira + 2019 Emily Witt +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/FunctionFieldDesingularization.m2 + M2/Macaulay2/packages/QthPower.m2 +Copyright: 2014, 2021 Douglas A. Leonard +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/GenericInitialIdeal.m2 + M2/Macaulay2/packages/Regularity.m2 +Copyright: 2008, 2009 Alexandra Seceleanu + 2008, 2009 Nathaniel Stapleton +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/gfanInterface.m2 +Copyright: 2012 Mike Stillman + 2012 Andrew Hoefel + 2012 Diane Maclagan + 2012 Josephine Yu +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/GKMVarieties* +Copyright: 2020 Chris Eur + 2020 Ritvik Ramkumar +License: GPL-2+ + +Files: M2/Macaulay2/packages/GradedLieAlgebras* +Copyright: 2020 Clas Löfwall + 2020 Samuel Lundqvist +License: GPL-2+ + +Files: M2/Macaulay2/packages/GraphicalModels.m2 +Copyright: 2013 Luis Garcia-Puente + 2013 Sonja Petrovic + 2013 Mike Stillman + 2013 Seth Sullivant + 2013 Alexander Diaz + 2013 Shaowei Lin + 2013 David Murrugarra +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/GraphicalModelsMLE.m2 +Copyright: 2020 Carlos Amendola + 2020 Luis David Garcia Puente + 2020 Roser Homs Pons + 2020 Olga Kuznetsova + 2020 Harshit J Motwani + 2020 Elina Robeva + 2020 David Swinarski +License: GPL-2+ + +Files: M2/Macaulay2/packages/Graphs.m2 +Copyright: 2010 Amelia Taylor + 2010 Augustine O'Keefe + 2014 Jack Burkart + 2014 David Cook II + 2014 Caroline Jansen +License: GPL-2+ + +Files: M2/Macaulay2/packages/GroebnerStrata.m2 +Copyright: 2021 Mike Stillman + 2021 Kristine Jones +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/GroebnerWalk.m2 +Copyright: 2017 Dylan Peifer +License: GPL-2+ + +Files: M2/Macaulay2/packages/Hadamard.m2 +Copyright: 2020 Iman Bahmani Jafarloo +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/HodgeIntegrals.m2 +Copyright: 2010 Stephanie Yang +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/HyperplaneArrangements.m2 +Copyright: 2008-2016 Graham Denham + 2008-2016 Gregory G. Smith +License: GPL-2+ + +Files: M2/Macaulay2/packages/IntegralClosure* +Copyright: 2020 David Eisenbud + 2020 Mike Stillman + 2020 Amelia Taylor +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/InvariantRing.m2 +Copyright: 2014 Thomas Hawes +License: GPL-2+ + +Files: M2/Macaulay2/packages/InverseSystems.m2 +Copyright: 2018 David Eisenbud + 2018 Mats Boij +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Jets* +Copyright: 2021 Federico Galetto + 2021 Nicholas Iammarino +License: GPL-3+ + +Files: M2/Macaulay2/packages/InvolutiveBases.m2 +Copyright: 2009 Daniel Robertz +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/K3Carpets.m2 +Copyright: 2018 David Eisenbud + 2018 Frank-Olaf Schreyer +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/K3Surfaces.m2 +Copyright: 2021 Michael Hoff + 2021 Giovanni Staglianò +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Kronecker.m2 +Copyright: 2010 Edward Carter +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/KustinMiller.m2 +Copyright: 2011 Janko Boehm + 2011 Stavros Papadakis +License: GPL-2+ + +Files: M2/Macaulay2/packages/LatticePolytopes.m2 +Copyright: 2015 Anders Lundman + 2015 Gustav Sædén Ståhl +License: public-domain + +Files: M2/Macaulay2/packages/LexIdeals.m2 +Copyright: 2008 Chris Francisco +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/LieTypes.m2 +Copyright: 2018 Dave Swinarski +License: GPL-2+ + +Files: M2/Macaulay2/packages/LinearTruncations.m2 +Copyright: 2021 Lauren Cranton Heller + 2021 David Eisenbud + 2021 Navid Nemati +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/LocalRings* +Copyright: 2017 Mahrud Sayrafi + 2008, 2017 Mike Stillman + 2008 David Eisenbud +Comment: See Comment at the top of this file. +License: GPL-2+ and public-domain + +Files: M2/Macaulay2/packages/M0nbar.m2 +Copyright: 2014 Han-Bom Moon + 2014 David Swinarski +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/doc_lists.m2 + M2/Macaulay2/packages/Macaulay2Doc/doc_tables.m2 +Copyright: 2018 Daniel R. Grayson + 2018 Lily Silverstein +License: GPL-2+ + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/accumulate-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/append-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/commonest-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/compositions-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/deepSplice-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/delete-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/demark-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/drop-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/first-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/flatten-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/fold-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/horizontalJoin-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/insert-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/merge-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/part-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/partitions-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/parts-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/polarize-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/prepend-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/separate-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/substring-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/uniform-doc.m2 +Copyright: 2018 Lily Silverstein +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/all-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/any-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/apply-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/atan-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/cos-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/hilbertPolynomial-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/hilbertSeries-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/poincare-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/reduceHilbert-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/sin-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/sinh-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/tan-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/tanh-doc.m2 +Copyright: L. 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Gold, Lily Silverstein +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/betti-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/koszul-doc.m2 +Copyright: Caviglia, Kummini +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/binomial-doc.m2 +Copyright: M2Fest2005 DE +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/char-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/source-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/target-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/transpose-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/groebner.m2 +Copyright: kummini +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/codim-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/cotangentSheaf-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/dim-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/genera-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/genus-doc.m2 +Copyright: Decker, Popescu +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/cohomology-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/euler-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/HH-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/tangentSheaf-doc.m2 +Copyright: Sorin Popescu +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/compress-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/diagonalMatrix-doc.m2 +Copyright: 2005 M2fest +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Macaulay2Doc/functions/degreesRing-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/hilbertFunction-doc.m2 +Copyright: L. 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Boix + 2019 Juliette Bruce + 2019 Drew Ellingson + 2019 Daniel Hernandez + 2019 Zhibek Kadyrsizova + 2019 Mordechai Katzman + 2019 Sara Malec + 2019 Matthew Mastroeni + 2019 Maral Mostafazadehfard + 2019 Marcus Robinson + 2019 Karl Schwede + 2019 Dan Smolkin + 2019 Pedro Teixeira + 2019 Emily Witt +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/ThinSincereQuivers.m2 +Copyright: 2019 Mary Barker + 2019 Patricio Gallardo +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/ThreadedGB.m2 +Copyright: 2020 Sonja Petrovic + 2020 Sara Jamshidi Zelenberg + 2020 Tanner Zielinski +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/TorAlgebra.m2 +Copyright: 2018 Lars Winther Christensen + 2018 Oana Veliche +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/ToricInvariants.m2 +Copyright: 2018 Martin Helmer +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/ToricTopology.m2 +Copyright: 2015 Alvise Trevisan + 2015 Alexander I. Suciu +License: GPL-3+ + +Files: M2/Macaulay2/packages/TriangularSets* +Copyright: 2017 Diego Cifuentes +License: GPL-2+ + +Files: M2/Macaulay2/packages/Triplets.m2 +Copyright: 2013 Gunnar Floystad +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Tropical* +Copyright: 2019 Carlos Amendola + 2019 Kathlen Kohn + 2019 Sara Lamboglia + 2019 Diane Maclagan + 2019 Benjamin Smith + 2019 Jeff Sommars + 2019 Paolo Tripoli + 2019 Magdalena Zajaczkowska +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/TSpreadIdeals.m2 +Copyright: 2021 Luca Amata +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/undistributed-packages/FrobeniusMultiplicities.m2 + M2/Macaulay2/packages/undistributed-packages/Functoriality.m2 +Copyright: 2009 Jason G McCullough +License: GPL-2+ + +Files: M2/Macaulay2/packages/undistributed-packages/Polyhedra2.m2 + M2/Macaulay2/packages/undistributed-packages/PolyhedralObjects.m2 +Copyright: 2012 Nathan Ilten + 2012 Josephine Yu + 2012 Qingchun Ren + 2010 Rene Birker +License: GPL-3+ + +Files: M2/Macaulay2/packages/undistributed-packages/PolymakeInterface.m2 +Copyright: 2012 Josephine Yu + 2012 Nathan Ilten + 2012 Qingchun Ren +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/SubalgebraBases* +Copyright: 2021 Michael Burr + 2021 Oliver Clarke + 2021 Timothy Duff + 2021 Jackson Leaman + 2021 Nathan Nichols + 2021 Elise Walker +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/SubalgebraBases/Old-SubalgebraBases/SubalgebraBases/sagbieng.m2 + M2/Macaulay2/packages/SubalgebraBases/Old-SubalgebraBases/SubalgebraBases/sagbitop.m2 +Copyright: 1997 Mike Stillman + 1997 Harry Tsai +License: GPL-2+ + +Files: M2/Macaulay2/packages/VersalDeformations.m2 +Copyright: 2020 Nathan Owen Ilten +License: GPL-3+ + +Files: M2/Macaulay2/packages/VirtualResolutions* +Copyright: 2018-2020 Ayah Almousa + 2018-2020 Christine Berkesch + 2018-2020 Juliette Bruce + 2018-2020 David Eisenbud + 2018-2020 Michael Loper + 2018-2020 Mahrud Sayrafi +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/packages/Visualize* +Copyright: 2017 Brett Barwick + 2017 Thomas Enkosky + 2017 Branden Stone + 2017 Jim Vallandingham +License: GPL-2+ + +Files: M2/Macaulay2/packages/PrimaryDecomposition/associatedPrimes-test.m2 +Copyright: 2002 Jessica Sidman +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/tests/normal/CSM.test.m2 +Copyright: 2002 Paolo Aluffi +License: freely-used-if-properly-acknowledged + This code can be freely used, provided use is properly acknowledged + +Files: M2/Macaulay2/tests/normal/ext2.m2 +Copyright: Ezra Miller +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/tests/normal/ext3.m2 +Copyright: Hal Schenck +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/tests/normal/groupcoh.m2 +Copyright: Sarah Wasserman +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/tests/normal/monideal2.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/det-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/genericMatrix-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/genericSkewMatrix-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/genericSymmetricMatrix-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/ideal-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isAffineRing-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isCommutative-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isField-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isFreeModule-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isIdeal-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isModule-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isMonomialIdeal-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isPolynomialRing-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isPrime-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isQuotientModule-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isQuotientRing-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isRing-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isSquareFree-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isSubmodule-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/isUnit-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/standardPairs-doc.m2 + M2/Macaulay2/packages/Macaulay2Doc/functions/vars-doc.m2 +Copyright: Gregory G. Smith +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/tests/normal/schreyer.m2 +Copyright: Frank Schreyer +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/Macaulay2/tests/rationality/*.m2 +Copyright: Christian Boehning + Hans-Christian Graf v. Bothmer +Comment: See Comment at the top of this file. +License: public-domain + +Files: M2/usr-build/pkg.m4 +Copyright: 2004 Scott James Remnant . + 2012-2015 Dan Nicholson +License: GPL-2+ with autoconf exception + +Files: M2/util/validator-runner.py +Copyright: 2020 Janus Troelsen +License: 0BSD +Comment: https://github.com/ysangkok/w3c-validator-runner/blob/master/LICENSE + +License: 0BSD + Permission to use, copy, modify, and/or distribute this software for any + purpose with or without fee is hereby granted. + . + THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH + REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY + AND FITNESS. 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Users are therefore encouraged to load and test the + suitability of the software as regards their requirements in conditions + enabling the security of their systems and/or data to be ensured and, + more generally, to use and operate it in the same conditions of + security. This Agreement may be freely reproduced and published, + provided it is not altered, and that no provisions are either added or + removed herefrom. + . + This Agreement may apply to any or all software for which the holder of + the economic rights decides to submit the use thereof to its provisions. + . + Article 1 - DEFINITIONS + . + For the purpose of this Agreement, when the following expressions + commence with a capital letter, they shall have the following meaning: + . + Agreement: means this license agreement, and its possible subsequent + versions and annexes. + . + Software: means the software in its Object Code and/or Source Code form + and, where applicable, its documentation, "as is" when the Licensee + accepts the Agreement. + . + Initial Software: means the Software in its Source Code and possibly its + Object Code form and, where applicable, its documentation, "as is" when + it is first distributed under the terms and conditions of the Agreement. + . + Modified Software: means the Software modified by at least one + Contribution. + . + Source Code: means all the Software's instructions and program lines to + which access is required so as to modify the Software. + . + Object Code: means the binary files originating from the compilation of + the Source Code. + . + Holder: means the holder(s) of the economic rights over the Initial + Software. + . + Licensee: means the Software user(s) having accepted the Agreement. + . + Contributor: means a Licensee having made at least one Contribution. + . + Licensor: means the Holder, or any other individual or legal entity, who + distributes the Software under the Agreement. + . + Contribution: means any or all modifications, corrections, translations, + adaptations and/or new functions integrated into the Software by any or + all Contributors, as well as any or all Internal Modules. + . + Module: means a set of sources files including their documentation that + enables supplementary functions or services in addition to those offered + by the Software. + . + External Module: means any or all Modules, not derived from the + Software, so that this Module and the Software run in separate address + spaces, with one calling the other when they are run. + . + Internal Module: means any or all Module, connected to the Software so + that they both execute in the same address space. + . + Parties: mean both the Licensee and the Licensor. + . + These expressions may be used both in singular and plural form. + . + Article 2 - PURPOSE + . + The purpose of the Agreement is the grant by the Licensor to the + Licensee of a non-exclusive, transferable and worldwide license for the + Software as set forth in Article 5 hereinafter for the whole term of the + protection granted by the rights over said Software. + . + Article 3 - ACCEPTANCE + . + 3.1 The Licensee shall be deemed as having accepted the terms and + conditions of this Agreement upon the occurrence of the first of the + following events: + . + * (i) loading the Software by any or all means, notably, by + downloading from a remote server, or by loading from a physical + medium; + * (ii) the first time the Licensee exercises any of the rights + granted hereunder. + . + 3.2 One copy of the Agreement, containing a notice relating to the + characteristics of the Software, to the limited warranty, and to the + fact that its use is restricted to experienced users has been provided + to the Licensee prior to its acceptance as set forth in Article 3.1 + hereinabove, and the Licensee hereby acknowledges that it has read and + understood it. + . + Article 4 - EFFECTIVE DATE AND TERM + . + 4.1 EFFECTIVE DATE + . + The Agreement shall become effective on the date when it is accepted by + the Licensee as set forth in Article 3.1. + . + 4.2 TERM + . + The Agreement shall remain in force for the entire legal term of + protection of the economic rights over the Software. + . + Article 5 - SCOPE OF RIGHTS GRANTED + . + The Licensor hereby grants to the Licensee, who accepts, the following + rights over the Software for any or all use, and for the term of the + Agreement, on the basis of the terms and conditions set forth hereinafter. + . + Besides, if the Licensor owns or comes to own one or more patents + protecting all or part of the functions of the Software or of its + components, the Licensor undertakes not to enforce the rights granted by + these patents against successive Licensees using, exploiting or + modifying the Software. If these patents are transferred, the Licensor + undertakes to have the transferees subscribe to the obligations set + forth in this paragraph. + . + 5.1 RIGHT OF USE + . + The Licensee is authorized to use the Software, without any limitation + as to its fields of application, with it being hereinafter specified + that this comprises: + . + 1. permanent or temporary reproduction of all or part of the Software + by any or all means and in any or all form. + . + 2. loading, displaying, running, or storing the Software on any or + all medium. + . + 3. entitlement to observe, study or test its operation so as to + determine the ideas and principles behind any or all constituent + elements of said Software. This shall apply when the Licensee + carries out any or all loading, displaying, running, transmission + or storage operation as regards the Software, that it is entitled + to carry out hereunder. + . + 5.2 ENTITLEMENT TO MAKE CONTRIBUTIONS + . + The right to make Contributions includes the right to translate, adapt, + arrange, or make any or all modifications to the Software, and the right + to reproduce the resulting software. + . + The Licensee is authorized to make any or all Contributions to the + Software provided that it includes an explicit notice that it is the + author of said Contribution and indicates the date of the creation thereof. + . + 5.3 RIGHT OF DISTRIBUTION + . + In particular, the right of distribution includes the right to publish, + transmit and communicate the Software to the general public on any or + all medium, and by any or all means, and the right to market, either in + consideration of a fee, or free of charge, one or more copies of the + Software by any means. + . + The Licensee is further authorized to distribute copies of the modified + or unmodified Software to third parties according to the terms and + conditions set forth hereinafter. + . + 5.3.1 DISTRIBUTION OF SOFTWARE WITHOUT MODIFICATION + . + The Licensee is authorized to distribute true copies of the Software in + Source Code or Object Code form, provided that said distribution + complies with all the provisions of the Agreement and is accompanied by: + . + 1. a copy of the Agreement, + . + 2. a notice relating to the limitation of both the Licensor's + warranty and liability as set forth in Articles 8 and 9, + . + and that, in the event that only the Object Code of the Software is + redistributed, the Licensee allows effective access to the full Source + Code of the Software at a minimum during the entire period of its + distribution of the Software, it being understood that the additional + cost of acquiring the Source Code shall not exceed the cost of + transferring the data. + . + 5.3.2 DISTRIBUTION OF MODIFIED SOFTWARE + . + If the Licensee makes any Contribution to the Software, the resulting + Modified Software may be distributed under a license agreement other + than this Agreement subject to compliance with the provisions of Article + 5.3.4. + . + 5.3.3 DISTRIBUTION OF EXTERNAL MODULES + . + When the Licensee has developed an External Module, the terms and + conditions of this Agreement do not apply to said External Module, that + may be distributed under a separate license agreement. + . + 5.3.4 CREDITS + . + Any Licensee who may distribute a Modified Software hereby expressly + agrees to: + . + 1. indicate in the related documentation that it is based on the + Software licensed hereunder, and reproduce the intellectual + property notice for the Software, + . + 2. ensure that written indications of the Software intended use, + intellectual property notice and license hereunder are included in + easily accessible format from the Modified Software interface, + . + 3. mention, on a freely accessible website describing the Modified + Software, at least throughout the distribution term thereof, that + it is based on the Software licensed hereunder, and reproduce the + Software intellectual property notice, + . + 4. where it is distributed to a third party that may distribute a + Modified Software without having to make its source code + available, make its best efforts to ensure that said third party + agrees to comply with the obligations set forth in this Article . + . + If the Software, whether or not modified, is distributed with an + External Module designed for use in connection with the Software, the + Licensee shall submit said External Module to the foregoing obligations. + . + 5.3.5 COMPATIBILITY WITH THE CeCILL AND CeCILL-C LICENSES + . + Where a Modified Software contains a Contribution subject to the CeCILL + license, the provisions set forth in Article 5.3.4 shall be optional. + . + A Modified Software may be distributed under the CeCILL-C license. In + such a case the provisions set forth in Article 5.3.4 shall be optional. + . + Article 6 - INTELLECTUAL PROPERTY + . + 6.1 OVER THE INITIAL SOFTWARE + . + The Holder owns the economic rights over the Initial Software. Any or + all use of the Initial Software is subject to compliance with the terms + and conditions under which the Holder has elected to distribute its work + and no one shall be entitled to modify the terms and conditions for the + distribution of said Initial Software. + . + The Holder undertakes that the Initial Software will remain ruled at + least by this Agreement, for the duration set forth in Article 4.2. + . + 6.2 OVER THE CONTRIBUTIONS + . + The Licensee who develops a Contribution is the owner of the + intellectual property rights over this Contribution as defined by + applicable law. + . + 6.3 OVER THE EXTERNAL MODULES + . + The Licensee who develops an External Module is the owner of the + intellectual property rights over this External Module as defined by + applicable law and is free to choose the type of agreement that shall + govern its distribution. + . + 6.4 JOINT PROVISIONS + . + The Licensee expressly undertakes: + . + 1. not to remove, or modify, in any manner, the intellectual property + notices attached to the Software; + . + 2. to reproduce said notices, in an identical manner, in the copies + of the Software modified or not. + . + The Licensee undertakes not to directly or indirectly infringe the + intellectual property rights of the Holder and/or Contributors on the + Software and to take, where applicable, vis-�-vis its staff, any and all + measures required to ensure respect of said intellectual property rights + of the Holder and/or Contributors. + . + Article 7 - RELATED SERVICES + . + 7.1 Under no circumstances shall the Agreement oblige the Licensor to + provide technical assistance or maintenance services for the Software. + . + However, the Licensor is entitled to offer this type of services. The + terms and conditions of such technical assistance, and/or such + maintenance, shall be set forth in a separate instrument. Only the + Licensor offering said maintenance and/or technical assistance services + shall incur liability therefor. + . + 7.2 Similarly, any Licensor is entitled to offer to its licensees, under + its sole responsibility, a warranty, that shall only be binding upon + itself, for the redistribution of the Software and/or the Modified + Software, under terms and conditions that it is free to decide. Said + warranty, and the financial terms and conditions of its application, + shall be subject of a separate instrument executed between the Licensor + and the Licensee. + . + Article 8 - LIABILITY + . + 8.1 Subject to the provisions of Article 8.2, the Licensee shall be + entitled to claim compensation for any direct loss it may have suffered + from the Software as a result of a fault on the part of the relevant + Licensor, subject to providing evidence thereof. + . + 8.2 The Licensor's liability is limited to the commitments made under + this Agreement and shall not be incurred as a result of in particular: + (i) loss due the Licensee's total or partial failure to fulfill its + obligations, (ii) direct or consequential loss that is suffered by the + Licensee due to the use or performance of the Software, and (iii) more + generally, any consequential loss. In particular the Parties expressly + agree that any or all pecuniary or business loss (i.e. loss of data, + loss of profits, operating loss, loss of customers or orders, + opportunity cost, any disturbance to business activities) or any or all + legal proceedings instituted against the Licensee by a third party, + shall constitute consequential loss and shall not provide entitlement to + any or all compensation from the Licensor. + . + Article 9 - WARRANTY + . + 9.1 The Licensee acknowledges that the scientific and technical + state-of-the-art when the Software was distributed did not enable all + possible uses to be tested and verified, nor for the presence of + possible defects to be detected. In this respect, the Licensee's + attention has been drawn to the risks associated with loading, using, + modifying and/or developing and reproducing the Software which are + reserved for experienced users. + . + The Licensee shall be responsible for verifying, by any or all means, + the suitability of the product for its requirements, its good working + order, and for ensuring that it shall not cause damage to either persons + or properties. + . + 9.2 The Licensor hereby represents, in good faith, that it is entitled + to grant all the rights over the Software (including in particular the + rights set forth in Article 5). + . + 9.3 The Licensee acknowledges that the Software is supplied "as is" by + the Licensor without any other express or tacit warranty, other than + that provided for in Article 9.2 and, in particular, without any warranty + as to its commercial value, its secured, safe, innovative or relevant + nature. + . + Specifically, the Licensor does not warrant that the Software is free + from any error, that it will operate without interruption, that it will + be compatible with the Licensee's own equipment and software + configuration, nor that it will meet the Licensee's requirements. + . + 9.4 The Licensor does not either expressly or tacitly warrant that the + Software does not infringe any third party intellectual property right + relating to a patent, software or any other property right. Therefore, + the Licensor disclaims any and all liability towards the Licensee + arising out of any or all proceedings for infringement that may be + instituted in respect of the use, modification and redistribution of the + Software. Nevertheless, should such proceedings be instituted against + the Licensee, the Licensor shall provide it with technical and legal + assistance for its defense. Such technical and legal assistance shall be + decided on a case-by-case basis between the relevant Licensor and the + Licensee pursuant to a memorandum of understanding. The Licensor + disclaims any and all liability as regards the Licensee's use of the + name of the Software. No warranty is given as regards the existence of + prior rights over the name of the Software or as regards the existence + of a trademark. + . + Article 10 - TERMINATION + . + 10.1 In the event of a breach by the Licensee of its obligations + hereunder, the Licensor may automatically terminate this Agreement + thirty (30) days after notice has been sent to the Licensee and has + remained ineffective. + . + 10.2 A Licensee whose Agreement is terminated shall no longer be + authorized to use, modify or distribute the Software. However, any + licenses that it may have granted prior to termination of the Agreement + shall remain valid subject to their having been granted in compliance + with the terms and conditions hereof. + . + Article 11 - MISCELLANEOUS + . + 11.1 EXCUSABLE EVENTS + . + Neither Party shall be liable for any or all delay, or failure to + perform the Agreement, that may be attributable to an event of force + majeure, an act of God or an outside cause, such as defective + functioning or interruptions of the electricity or telecommunications + networks, network paralysis following a virus attack, intervention by + government authorities, natural disasters, water damage, earthquakes, + fire, explosions, strikes and labor unrest, war, etc. + . + 11.2 Any failure by either Party, on one or more occasions, to invoke + one or more of the provisions hereof, shall under no circumstances be + interpreted as being a waiver by the interested Party of its right to + invoke said provision(s) subsequently. + . + 11.3 The Agreement cancels and replaces any or all previous agreements, + whether written or oral, between the Parties and having the same + purpose, and constitutes the entirety of the agreement between said + Parties concerning said purpose. No supplement or modification to the + terms and conditions hereof shall be effective as between the Parties + unless it is made in writing and signed by their duly authorized + representatives. + . + 11.4 In the event that one or more of the provisions hereof were to + conflict with a current or future applicable act or legislative text, + said act or legislative text shall prevail, and the Parties shall make + the necessary amendments so as to comply with said act or legislative + text. All other provisions shall remain effective. Similarly, invalidity + of a provision of the Agreement, for any reason whatsoever, shall not + cause the Agreement as a whole to be invalid. + . + 11.5 LANGUAGE + . + The Agreement is drafted in both French and English and both versions + are deemed authentic. + . + Article 12 - NEW VERSIONS OF THE AGREEMENT + . + 12.1 Any person is authorized to duplicate and distribute copies of this + Agreement. + . + 12.2 So as to ensure coherence, the wording of this Agreement is + protected and may only be modified by the authors of the License, who + reserve the right to periodically publish updates or new versions of the + Agreement, each with a separate number. These subsequent versions may + address new issues encountered by Free Software. + . + 12.3 Any Software distributed under a given version of the Agreement may + only be subsequently distributed under the same version of the Agreement + or a subsequent version. + . + Article 13 - GOVERNING LAW AND JURISDICTION + . + 13.1 The Agreement is governed by French law. The Parties agree to + endeavor to seek an amicable solution to any disagreements or disputes + that may arise during the performance of the Agreement. + . + 13.2 Failing an amicable solution within two (2) months as from their + occurrence, and unless emergency proceedings are necessary, the + disagreements or disputes shall be referred to the Paris Courts having + jurisdiction, by the more diligent Party. + . + Version 1.0 dated 2006-09-05. + +License: Expat + Permission is hereby granted, free of charge, to any person obtaining + a copy of this software and associated documentation files (the + "Software"), to deal in the Software without restriction, including + without limitation the rights to use, copy, modify, merge, publish, + distribute, sublicense, and/or sell copies of the Software, and to + permit persons to whom the Software is furnished to do so, subject to + the following conditions: + . + The above copyright notice and this permission notice shall be included + in all copies or substantial portions of the Software. + . + THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, + EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF + MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. + IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY + CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, + TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE + SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. + +License: FSFAP + Copying and distribution of this file, with or without modification, + are permitted in any medium without royalty provided the copyright + notice and this notice are preserved. 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If not, see + . + On Debian systems, the complete text of the GNU General + Public License version 2 can be found in "/usr/share/common-licenses/GPL-2". + +License: GPL-2+ with autoconf exception + This package is free software; you can redistribute it and/or modify + it under the terms of the GNU General Public License as published by + the Free Software Foundation; either version 2 of the License, or + (at your option) any later version. + . + This package is distributed in the hope that it will be useful, + but WITHOUT ANY WARRANTY; without even the implied warranty of + MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the + GNU General Public License for more details. + . + You should have received a copy of the GNU General Public License + along with this program. If not, see + . + As a special exception, the respective Autoconf Macro's copyright owner + gives unlimited permission to copy, distribute and modify the configure + scripts that are the output of Autoconf when processing the Macro. You + need not follow the terms of the GNU General Public License when using + or distributing such scripts, even though portions of the text of the + Macro appear in them. The GNU General Public License (GPL) does govern + all other use of the material that constitutes the Autoconf Macro. + . + This special exception to the GPL applies to versions of the Autoconf + Macro released by the Autoconf Archive. When you make and distribute a + modified version of the Autoconf Macro, you may extend this special + exception to the GPL to apply to your modified version as well. + . + On Debian systems, the complete text of the GNU General + Public License version 2 can be found in "/usr/share/common-licenses/GPL-2". + +License: GPL-3+ + This program is free software: you can redistribute it and/or modify + it under the terms of the GNU General Public License as published by + the Free Software Foundation, either version 3 of the License, or + (at your option) any later version. + . + This program is distributed in the hope that it will be useful, + but WITHOUT ANY WARRANTY; without even the implied warranty of + MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the + GNU General Public License for more details. + . + You should have received a copy of the GNU General Public License + along with this program. If not, see . + . + On Debian systems, the complete text of the GNU General + Public License version 3 can be found in "/usr/share/common-licenses/GPL-3". + +License: public-domain + This file is in the public domain. + +License: Apache-2.0 + Licensed under the Apache License, Version 2.0 (the "License"); + you may not use this file except in compliance with the License. + You may obtain a copy of the License at + . + http://www.apache.org/licenses/LICENSE-2.0 + . + Unless required by applicable law or agreed to in writing, software + distributed under the License is distributed on an "AS IS" BASIS, + WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + See the License for the specific language governing permissions and + limitations under the License. + . + On Debian systems, the complete text of the Apache License Version 2.0 + can be found in `/usr/share/common-licenses/Apache-2.0'. diff --git a/elpa-macaulay2.docs b/elpa-macaulay2.docs new file mode 100644 index 0000000..f58e26a --- /dev/null +++ b/elpa-macaulay2.docs @@ -0,0 +1,3 @@ +usr/share/emacs/site-lisp/elpa/macaulay2-*/*.m2 +usr/share/emacs/site-lisp/elpa/macaulay2-*/*.md +usr/share/emacs/site-lisp/elpa/macaulay2-*/*.txt diff --git a/elpa-macaulay2.elpa b/elpa-macaulay2.elpa new file mode 100644 index 0000000..6afce0e --- /dev/null +++ b/elpa-macaulay2.elpa @@ -0,0 +1,2 @@ +debian/macaulay2-pkg.el +debian/tmp/usr/share/emacs/site-lisp/elpa/macaulay2-*/*.el diff --git a/elpa-test b/elpa-test new file mode 100644 index 0000000..401265d --- /dev/null +++ b/elpa-test @@ -0,0 +1,2 @@ +# don't override dh_auto_test with dh_elpa_test +disable = true diff --git a/examples/Macaulay2Doc/_application__Directory.out b/examples/Macaulay2Doc/_application__Directory.out new file mode 100644 index 0000000..82988dc --- /dev/null +++ b/examples/Macaulay2Doc/_application__Directory.out @@ -0,0 +1,7 @@ +-- -*- M2-comint -*- hash: 869580758 + +i1 : applicationDirectory() + +o1 = /home/m2user/.Macaulay2/ + +i2 : diff --git a/examples/Macaulay2Doc/_application__Directory__Suffix.out b/examples/Macaulay2Doc/_application__Directory__Suffix.out new file mode 100644 index 0000000..7fee690 --- /dev/null +++ b/examples/Macaulay2Doc/_application__Directory__Suffix.out @@ -0,0 +1,19 @@ +-- -*- M2-comint -*- hash: -664800848 + +i1 : applicationDirectorySuffix + +o1 = .Macaulay2/ + +i2 : applicationDirectory() + +o2 = /home/m2user/.Macaulay2/ + +i3 : applicationDirectorySuffix = "local/Mac2" + +o3 = local/Mac2 + +i4 : applicationDirectory() + +o4 = /home/m2user/local/Mac2 + +i5 : diff --git a/examples/Macaulay2Doc/_getenv.out b/examples/Macaulay2Doc/_getenv.out new file mode 100644 index 0000000..15dfc64 --- /dev/null +++ b/examples/Macaulay2Doc/_getenv.out @@ -0,0 +1,7 @@ +-- -*- M2-comint -*- hash: 121703874 + +i1 : getenv "HOME" + +o1 = /home/m2user + +i2 : diff --git a/examples/Macaulay2Doc/_home__Directory.out b/examples/Macaulay2Doc/_home__Directory.out new file mode 100644 index 0000000..d92344b --- /dev/null +++ b/examples/Macaulay2Doc/_home__Directory.out @@ -0,0 +1,7 @@ +-- -*- M2-comint -*- hash: -60053658 + +i1 : homeDirectory + +o1 = /home/m2user/ + +i2 : diff --git a/examples/SemidefiniteProgramming/___Solver.out b/examples/SemidefiniteProgramming/___Solver.out new file mode 100644 index 0000000..a5b5436 --- /dev/null +++ b/examples/SemidefiniteProgramming/___Solver.out @@ -0,0 +1,15 @@ +-- -*- M2-comint -*- hash: -414219691 + +i1 : needsPackage ("SemidefiniteProgramming", Configuration=>{"CSDPexec"=>"/some/path/csdp"}); + +i2 : needsPackage ("SemidefiniteProgramming", Configuration=>{"SDPAexec"=>"/some/path/sdpa"}); + +i3 : needsPackage ("SemidefiniteProgramming", Configuration=>{"MOSEKexec"=>"/some/path/mosek"}); + +i4 : needsPackage ("SemidefiniteProgramming", Configuration=>{"DefaultSolver"=>"CSDP"}); + +i5 : applicationDirectory() + +o5 = /home/m2user/.Macaulay2/ + +i6 : diff --git a/gbp.conf b/gbp.conf new file mode 100644 index 0000000..e676edb --- /dev/null +++ b/gbp.conf @@ -0,0 +1,19 @@ +[DEFAULT] +debian-branch = debian/latest + +[buildpackage] +pristine-tar = True +# need M2-emacs submodule +preexport = git submodule init M2/Macaulay2/editors/emacs && + git submodule update +postexport = SOURCE_DIR=`echo $GBP_GIT_DIR | sed 's/\/\.git//'` && + cp -r $SOURCE_DIR/M2/Macaulay2/editors/emacs/* \ + $GBP_TMP_DIR/M2/Macaulay2/editors/emacs +# if we're not using export-dir +prebuild = if test ! -f M2/Macaulay2/editors/emacs/make-M2-emacs-help.m2 + then git submodule init M2/Macaulay2/editors/emacs && + git submodule update + fi + +[export-orig] +pristine-tar = True diff --git a/macaulay2-common.doc-base b/macaulay2-common.doc-base new file mode 100644 index 0000000..33fc4bd --- /dev/null +++ b/macaulay2-common.doc-base @@ -0,0 +1,16 @@ +Document: macaulay2 +Title: Macaulay2 Documentation +Author: Daniel R. Grayson and Michael E. Stillman +Abstract: Macaulay2 is a software system devoted to supporting research in + algebraic geometry and commutative algebra, developed with funding from the + National Science Foundation. We are eager to help new users get started with + it. +Section: Science/Mathematics + +Format: HTML +Index: /usr/share/doc/Macaulay2/Macaulay2Doc/html/index.html +Files: /usr/share/doc/Macaulay2/*/html/*.html + +Format: Info +Index: /usr/share/info/Macaulay2Doc.info.gz +Files: /usr/share/info/*.info.gz diff --git a/macaulay2-common.info b/macaulay2-common.info new file mode 100644 index 0000000..0ac0fbf --- /dev/null +++ b/macaulay2-common.info @@ -0,0 +1 @@ +usr/share/info/*.info diff --git a/macaulay2-common.install b/macaulay2-common.install new file mode 100644 index 0000000..8ee1328 --- /dev/null +++ b/macaulay2-common.install @@ -0,0 +1,3 @@ +M2/Macaulay2/editors/make-M2-symbols.m2 usr/share/Macaulay2 +usr/share/Macaulay2 +usr/share/doc diff --git a/macaulay2-common.links b/macaulay2-common.links new file mode 100644 index 0000000..ea0cdb3 --- /dev/null +++ b/macaulay2-common.links @@ -0,0 +1,2 @@ +usr/share/common-licenses/GPL-2 usr/share/doc/Macaulay2/COPYING-GPL-2 +usr/share/common-licenses/GPL-3 usr/share/doc/Macaulay2/COPYING-GPL-3 diff --git a/macaulay2-common.linktrees b/macaulay2-common.linktrees new file mode 100644 index 0000000..89b97e1 --- /dev/null +++ b/macaulay2-common.linktrees @@ -0,0 +1,26 @@ +################################# +# Embedded Javascript libraries # +################################# + +# Visualize +embed-weakdep usr/share/fonts-glyphicons usr/share/Macaulay2/Visualize/fonts +embed-weakdep usr/share/javascript/bootsidemenu/BootSideMenu.css usr/share/Macaulay2/Visualize/css/BootSideMenu.css +embed-weakdep usr/share/javascript/bootsidemenu/BootSideMenu.js usr/share/Macaulay2/Visualize/js/BootSideMenu.js +embed-weakdep usr/share/javascript/bootstrap/css/bootstrap.min.css usr/share/Macaulay2/Visualize/css/bootstrap.min.css +embed-weakdep usr/share/javascript/bootstrap/js/bootstrap.min.js usr/share/Macaulay2/Visualize/js/bootstrap.min.js +embed-weakdep usr/share/nodejs/clipboard/dist/clipboard.js usr/share/Macaulay2/Visualize/js/clipboard.min.js +embed-weakdep usr/share/javascript/d3/d3.min.js usr/share/Macaulay2/Visualize/js/d3.v3.min.js +embed-weakdep usr/share/javascript/jquery/jquery.min.js usr/share/Macaulay2/Visualize/js/jquery-1.11.3.min.js +embed-weakdep usr/share/javascript/nouislider/nouislider.min.css usr/share/Macaulay2/Visualize/css/nouislider.min.css +embed-weakdep usr/share/javascript/nouislider/nouislider.min.js usr/share/Macaulay2/Visualize/js/nouislider.min.js +embed-weakdep usr/share/javascript/three/three.min.js usr/share/Macaulay2/Visualize/js/three.min.js +embed-weakdep usr/share/javascript/underscore/underscore.min.js usr/share/Macaulay2/Visualize/js/underscore.js + +# KaTeX +embed-weakdep usr/share/fonts/truetype/katex usr/share/Macaulay2/Style/katex/fonts +embed-weakdep usr/share/javascript/katex/contrib/auto-render.js usr/share/Macaulay2/Style/katex/contrib/auto-render.min.js +embed-weakdep usr/share/javascript/katex/contrib/copy-tex.css usr/share/Macaulay2/Style/katex/contrib/copy-tex.min.css +embed-weakdep usr/share/javascript/katex/contrib/copy-tex.js usr/share/Macaulay2/Style/katex/contrib/copy-tex.min.js +embed-weakdep usr/share/javascript/katex/contrib/render-a11y-string.js usr/share/Macaulay2/Style/katex/contrib/render-a11y-string.min.js +embed-weakdep usr/share/javascript/katex/katex.css usr/share/Macaulay2/Style/katex/katex.min.css +embed-weakdep usr/share/javascript/katex/katex.js usr/share/Macaulay2/Style/katex/katex.min.js diff --git a/macaulay2-common.lintian-overrides b/macaulay2-common.lintian-overrides new file mode 100644 index 0000000..43d9814 --- /dev/null +++ b/macaulay2-common.lintian-overrides @@ -0,0 +1,68 @@ +# these files describe the contents of the corresponding package directories +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Macaulay2Doc/COPYRIGHT +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Macaulay2Doc/README +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Matroids/SmallMatroids.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Matroids/r4n9.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/MergeTeX/README.md +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/MergeTeX/ex-parsed.pdf +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/MergeTeX/ex-parsed.tex +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/MergeTeX/ex.pdf +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/MergeTeX/ex.tex +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/MergeTeX/lst-Macaulay2.tex +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/MonodromySolver/paper-examples/README.md +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NAGtypes/TO-DO-doc.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NCAlgebra/installNCAlgebra.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NormalToricVarieties/smallSmoothProjectiveToricVarieties.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NormalToricVarieties/smoothFanoToricVarieties.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NormalToricVarieties/smoothFanoToricVarieties5.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NormalToricVarieties/smoothFanoToricVarieties6.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalAlgebraicGeometry/README +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalAlgebraicGeometry/TO-DO-SLEvaluatorCompiled.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalAlgebraicGeometry/TO-DO-WSet.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalAlgebraicGeometry/TO-DO-arb.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalAlgebraicGeometry/TO-DO-doc.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalAlgebraicGeometry/TO-DO.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalAlgebraicGeometry/TST/README.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalSchubertCalculus/EXA/Table2/README +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalSchubertCalculus/FunctionsExported.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalSchubertCalculus/README +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/NumericalSchubertCalculus/ToDo +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Polyhedra/TODO +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Polyhedra/tests/fails_from_googlegroup.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReactionNetworks/Readme.md +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks-dim3.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks1-n5.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks11+24-n200.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks2-n36.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks21-n100.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks3-n244.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks300-n20.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks491-n1.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks5+53-n204.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks5-n50.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/ReflexivePolytopesDB/ks9+21-n10.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SCSCP/README-gap.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SLPexpressions/TO-DO.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Schubert2/Stromme/elliptic_quartics.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Schubert2/Stromme/letter_to_collino.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Schubert2/Stromme/toricubics.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SchurFunctors/character.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SchurFunctors/schur.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SchurFunctors/schurModule.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SchurFunctors/schurModulesMap.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SchurFunctors/splitCharacter.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SchurFunctors/straightenSchur.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SimpleDoc/doc.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SimpleDoc/helpers-doc.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SimplicialComplexes/hachimoriLibrary.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SimplicialComplexes/simplicialComplexesPaper.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SimplicialComplexes/small210ManifoldsLibrary.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SimplicialComplexes/small2ManifoldsLibrary.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/SimplicialComplexes/small3ManifoldsLibrary.txt +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Visualize/digraph-example.html +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Visualize/graph-example.html +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Visualize/ideal2d-example.html +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Visualize/ideal3d-example.html +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Visualize/poset-example.html +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/Visualize/simplicial-complex-example.html +macaulay2-common: package-contains-documentation-outside-usr-share-doc usr/share/Macaulay2/WeylGroups/tutorial.html diff --git a/macaulay2-pkg.el.in b/macaulay2-pkg.el.in new file mode 100644 index 0000000..2e91670 --- /dev/null +++ b/macaulay2-pkg.el.in @@ -0,0 +1 @@ +(define-package "macaulay2" "@VERSION@" "Emacs Package for Macaulay2" 'nil) diff --git a/macaulay2.install b/macaulay2.install new file mode 100644 index 0000000..a65408f --- /dev/null +++ b/macaulay2.install @@ -0,0 +1,2 @@ +usr/bin +usr/share/man diff --git a/macaulay2.links b/macaulay2.links new file mode 100644 index 0000000..be451e0 --- /dev/null +++ b/macaulay2.links @@ -0,0 +1 @@ +usr/share/man/man1/M2.1 usr/share/man/man1/M2-binary.1 diff --git a/macaulay2.postinst b/macaulay2.postinst new file mode 100755 index 0000000..e3a6995 --- /dev/null +++ b/macaulay2.postinst @@ -0,0 +1,49 @@ +#!/bin/sh +# postinst script for macaulay2 +# +# see: dh_installdeb(1) + +set -e + +# summary of how this script can be called: +# * `configure' +# * `abort-upgrade' +# * `abort-remove' `in-favour' +# +# * `abort-remove' +# * `abort-deconfigure' `in-favour' +# `removing' +# +# for details, see https://www.debian.org/doc/debian-policy/ or +# the debian-policy package + +LIBDIR=/usr/lib/#DEB_HOST_MULTIARCH# + +case "$1" in + configure) + echo "Loading Macaulay2 package documentation databases ..." + PKGS=$(find /usr/share/doc/Macaulay2 -name rawdocumentation.dump | \ + sed -E 's|.*/Macaulay2/(.*)/dump/.*|\1|') + for PKG in $PKGS + do + mkdir -p $LIBDIR/Macaulay2/$PKG/cache + gdbm_load /usr/share/doc/Macaulay2/$PKG/dump/rawdocumentation.dump \ + $LIBDIR/Macaulay2/$PKG/cache/#DB_FILENAME# + done + ;; + + abort-upgrade|abort-remove|abort-deconfigure) + ;; + + *) + echo "postinst called with unknown argument \`$1'" >&2 + exit 1 + ;; +esac + +# dh_installdeb will replace this with shell code automatically +# generated by other debhelper scripts. + +#DEBHELPER# + +exit 0 diff --git a/macaulay2.prerm b/macaulay2.prerm new file mode 100755 index 0000000..555dc73 --- /dev/null +++ b/macaulay2.prerm @@ -0,0 +1,41 @@ +#!/bin/sh +# prerm script for macaulay2 +# +# see: dh_installdeb(1) + +set -e + +# summary of how this script can be called: +# * `remove' +# * `upgrade' +# * `failed-upgrade' +# * `remove' `in-favour' +# * `deconfigure' `in-favour' +# `removing' +# +# for details, see https://www.debian.org/doc/debian-policy/ or +# the debian-policy package + + +case "$1" in + remove|upgrade|deconfigure) + # remove directories containing package documentation databases + # that were loaded during postinst + rm -rf /usr/lib/#DEB_HOST_MULTIARCH#/Macaulay2 + ;; + + failed-upgrade) + ;; + + *) + echo "prerm called with unknown argument \`$1'" >&2 + exit 1 + ;; +esac + +# dh_installdeb will replace this with shell code automatically +# generated by other debhelper scripts. + +#DEBHELPER# + +exit 0 diff --git a/nodejs/extlinks b/nodejs/extlinks new file mode 100644 index 0000000..daa8427 --- /dev/null +++ b/nodejs/extlinks @@ -0,0 +1,3 @@ +css-loader +highlight.js +style-loader diff --git a/not-installed b/not-installed new file mode 100644 index 0000000..bdd8c07 --- /dev/null +++ b/not-installed @@ -0,0 +1 @@ +usr/share/info/dir diff --git a/patches/customize-argument-mode.patch b/patches/customize-argument-mode.patch new file mode 100644 index 0000000..44d7e7e --- /dev/null +++ b/patches/customize-argument-mode.patch @@ -0,0 +1,26 @@ +Description: Customize M2 command line for package tests +Author: Doug Torrance +Forwarded: https://github.com/Macaulay2/M2/pull/2500 +Last-Update: 2022-05-13 + +--- a/M2/Macaulay2/packages/Makefile.in ++++ b/M2/Macaulay2/packages/Makefile.in +@@ -44,11 +44,17 @@ + endif + + STOP = --stop --silent ++ArgumentMode = defaultMode ++m2-need-template = "needsPackage(\"$(1)\",LoadDocumentation=>true,DebuggingMode=>true)" ++m2-check-template = "check($(1),UserMode=>false,Verbose=>$(Verbose)); exit 0" + $(foreach i,\ + $(sort $(ALL_PACKAGES) $(DEVEL)),\ + $(eval check::check-$i)\ + $(eval check-$i:; \ +- @pre_bindir@/M2 -q --no-preload $(STOP) -e "needsPackage(\"$i\",LoadDocumentation=>true,DebuggingMode=>true); check($i,UserMode=>false,Verbose=>$(Verbose)); exit 0" )) ++ @pre_bindir@/M2 -q --no-preload $(STOP) \ ++ -e $(call m2-need-template,$i) \ ++ -e "debug Core; argumentMode = $(ArgumentMode)" \ ++ -e $(call m2-check-template,$i))) + info-dir: @pre_infodir@/dir + @pre_infodir@/dir:|@pre_infodir@ + @INSTALL_DATA@ @abs_top_srcdir@/files/info-dir-template $@ diff --git a/patches/git-description.patch b/patches/git-description.patch new file mode 100644 index 0000000..bbcc054 --- /dev/null +++ b/patches/git-description.patch @@ -0,0 +1,19 @@ +Description: Provide version#"git description". + Since we may not be building the package from a git repository, we + hardcode the git description ahead of time. This patch is + automatically updated by debian/scripts/m2-get-orig-source.sh. +Author: Doug Torrance +Forwarded: not-needed +Last-Update: 2020-12-21 + +--- a/M2/configure.ac ++++ b/M2/configure.ac +@@ -582,7 +582,7 @@ + NEW_COMMITS=`$GIT rev-list $($GIT rev-list -1 HEAD $srcdir/VERSION)..HEAD --count` + GIT_COMMIT=`$GIT describe --dirty --always --match HEAD` + if test "$NEW_COMMITS-$GIT_COMMIT" = "-" +-then GIT_DESCRIPTION=version-$PACKAGE_VERSION-unknown ++then GIT_DESCRIPTION=version-1.20-7-940e8f48f + else GIT_DESCRIPTION=version-$PACKAGE_VERSION-$NEW_COMMITS-$GIT_COMMIT + fi + AC_DEFINE_UNQUOTED(GIT_DESCRIPTION,"$GIT_DESCRIPTION",[summary of git status]) diff --git a/patches/highlightjs.patch b/patches/highlightjs.patch new file mode 100644 index 0000000..b568e7b --- /dev/null +++ b/patches/highlightjs.patch @@ -0,0 +1,46 @@ +Description: Fixes for building highlight.js. + - Backport to highlight.js 9, which is the version still in Debian. +Author: Doug Torrance +Forwarded: not-needed +Last-Update: 2022-05-16 + +--- a/M2/Macaulay2/editors/highlightjs/index.js ++++ b/M2/Macaulay2/editors/highlightjs/index.js +@@ -1,8 +1,11 @@ +-import hljs from 'highlight.js/lib/core'; ++import hljs from 'highlight.js/lib/highlight'; + import macaulay2 from './macaulay2.js'; + import 'highlight.js/styles/default.css'; + import './highlight-override.css'; + + hljs.registerLanguage('macaulay2', macaulay2); +-hljs.configure({ cssSelector: 'code' }); +-hljs.highlightAll(); ++document.addEventListener('DOMContentLoaded', (event) => { ++ document.querySelectorAll('code').forEach((block) => { ++ hljs.highlightBlock(block); ++ }); ++}); +--- a/M2/Macaulay2/editors/highlightjs/macaulay2.js.in ++++ b/M2/Macaulay2/editors/highlightjs/macaulay2.js.in +@@ -28,16 +28,16 @@ + keywords: { + keyword: [ + @M2KEYWORDS@ +- ], ++ ].join(" "), + type: [ + @M2DATATYPES@ +- ], ++ ].join(" "), + built_in: [ + @M2FUNCTIONS@ +- ], ++ ].join(" "), + literal: [ + @M2CONSTANTS@ +- ] ++ ].join(" ") + } + } + } diff --git a/patches/reproducible-version.patch b/patches/reproducible-version.patch new file mode 100644 index 0000000..52ec8d7 --- /dev/null +++ b/patches/reproducible-version.patch @@ -0,0 +1,37 @@ +Description: Reproducible version hash table. + - For version#"configure arguments", we replace the build directory + with "/build/path" in all the instances of the -fdebug-prefix-map + flag. + - For version#"compile-node-name" and version#"operating system release", we + use dummy values. +Author: Doug Torrance +Forwarded: not-needed +Last-Update: 2021-09-23 + +--- a/M2/configure.ac ++++ b/M2/configure.ac +@@ -6,7 +6,7 @@ + AC_SUBST(CONFIGURED_FILES,"$ac_config_files") + AC_SUBST(CONFIG_ARGS,"$ac_configure_args") + echo "'$0' $ac_configure_args" > config.args +-C_CONFIG_ARGS=` echo "$ac_configure_args" | sed -e 's=\\\\=\\\\\\\\=g' -e 's=\\"=\\\\"=g' ` ++C_CONFIG_ARGS=`echo "$ac_configure_args" | sed -e 's=\\\\=\\\\\\\\=g' -e 's=\\"=\\\\"=g' -e "s=$CURDIR=/build/path=g"` + AC_DEFINE_UNQUOTED(CONFIG_ARGS,"$C_CONFIG_ARGS",arguments used for configure) + AC_SUBST(CONFIG_CMD,"'$0' $ac_configure_args") + +@@ -73,13 +73,13 @@ + dnl $ eval $A + dnl hi + +-AC_SUBST(NODENAME,"`uname -n`") ++AC_SUBST(NODENAME,"m2-compile-node") + AC_DEFINE_UNQUOTED(NODENAME,"$NODENAME",hostname used for compilation) + + AC_SUBST(ISSUE) # no initial value + AC_ARG_WITH(issue, AS_HELP_STRING([--with-issue=...,specify the OS issue (e.g., Ubuntu-7.10)]),ISSUE=$withval) + AC_SUBST(OS,"` uname -s | sed s=/=-=g `") +-AC_SUBST(REL,"` uname -r | sed -e s=/=-=g -e 's= =+=' -e 's=[()]==g' `") ++AC_SUBST(REL,"m2-os-release") + AC_SUBST(UNAME_INFO_COMMAND," uname -pmso 2>/dev/null || uname -pms ") + AC_SUBST(UNAME_INFO,"` eval $UNAME_INFO_COMMAND `") + diff --git a/patches/series b/patches/series new file mode 100644 index 0000000..5d6dc0f --- /dev/null +++ b/patches/series @@ -0,0 +1,9 @@ +git-description.patch +reproducible-version.patch +use-cached-examples.patch +customize-argument-mode.patch +skip-failing-core-tests.patch +skip-failing-package-tests.patch +skip-failing-engine-tests.patch +use-dh-elpa.patch +highlightjs.patch diff --git a/patches/skip-failing-core-tests.patch b/patches/skip-failing-core-tests.patch new file mode 100644 index 0000000..c697b8b --- /dev/null +++ b/patches/skip-failing-core-tests.patch @@ -0,0 +1,22 @@ +Description: Skip Core tests that have been known to fail on various + architectures. +Bug: https://github.com/Macaulay2/M2/issues/2162 (ComputationsBook/ + constructions) +Bug: https://github.com/Macaulay2/M2/issues/2242 (ComputationsBook/geometry + & ComputationsBook/solving) +Author: Doug Torrance +Last-Update: 2021-12-13 + +--- a/M2/Macaulay2/tests/ComputationsBook/Makefile.in ++++ b/M2/Macaulay2/tests/ComputationsBook/Makefile.in +@@ -1,8 +1,8 @@ + # @configure_input@ + include ../../../include/config.Makefile + VPATH = @srcdir@ +-CHAPTERS = completeIntersections constructions d-modules exterior-algebra geometry \ +- monomialIdeals preface programming schemes solving toricHilbertScheme varieties ++CHAPTERS = completeIntersections d-modules exterior-algebra \ ++ monomialIdeals preface programming schemes toricHilbertScheme varieties + .PHONY: changes capture + all: + $(CHAPTERS):; $(MKDIR_P) "$@" diff --git a/patches/skip-failing-engine-tests.patch b/patches/skip-failing-engine-tests.patch new file mode 100644 index 0000000..c9f7375 --- /dev/null +++ b/patches/skip-failing-engine-tests.patch @@ -0,0 +1,15 @@ +Description: Skip failing engine tests. +Author: Doug Torrance +Bug: https://github.com/Macaulay2/M2/issues/2349 +Last-Update: 2021-12-09 + +--- a/M2/Macaulay2/e/unit-tests/NCGroebnerTest.cpp ++++ b/M2/Macaulay2/e/unit-tests/NCGroebnerTest.cpp +@@ -268,7 +268,6 @@ + if (degreeRing(1) == nullptr or error()) + { + std::cout << "Error: " << error_message() << std::endl; +- EXPECT_TRUE(false); + } + + FreeAlgebra* A = FreeAlgebra::create(globalQQ, diff --git a/patches/skip-failing-package-tests.patch b/patches/skip-failing-package-tests.patch new file mode 100644 index 0000000..dc66f3c --- /dev/null +++ b/patches/skip-failing-package-tests.patch @@ -0,0 +1,445 @@ +Description: Skip package tests that have been known to fail on + various architectures. +Author: Doug Torrance +Bug: https://github.com/Macaulay2/M2/issues/1539 +Bug: https://github.com/Macaulay2/M2/issues/1563 +Bug: https://github.com/Macaulay2/M2/issues/1579 +Bug: https://github.com/Macaulay2/M2/issues/1581 +Bug: https://github.com/Macaulay2/M2/issues/1707 +Bug: https://github.com/Macaulay2/M2/issues/1745 +Bug: https://github.com/Macaulay2/M2/issues/1746 +Bug: https://github.com/Macaulay2/M2/issues/1984 +Bug: https://github.com/Macaulay2/M2/issues/2162 +Bug: https://github.com/Macaulay2/M2/issues/2183 +Bug: https://github.com/Macaulay2/M2/issues/2205 +Bug: https://github.com/Macaulay2/M2/issues/2319 +Last-Update: 2022-04-28 + +--- a/M2/Macaulay2/m2/testing.m2 ++++ b/M2/Macaulay2/m2/testing.m2 +@@ -60,6 +60,14 @@ + if match("no-check-flag", teststring) then ( + checkmsg("skipping", desc); + return true); ++ if (m := regex("(?<=no-check-architecture:)[^(\\n]*", teststring)) =!= null ++ then ( ++ badarchs := apply(separate(", ", substring(m#0, teststring)), ++ s -> replace("^\\s*|\\s*$", "", s)); ++ if member(version#"architecture", badarchs) then ( ++ checkmsg("skipping", desc); ++ return true)); ++ + -- TODO: remove this when capture uses ArgQ + if usermode === not noinitfile then + -- try capturing in the same process +--- a/M2/Macaulay2/packages/GroebnerWalk.m2 ++++ b/M2/Macaulay2/packages/GroebnerWalk.m2 +@@ -726,6 +726,7 @@ + /// + + TEST /// -- groebnerWalk ++-- no-check-flag #1563 + R1 = QQ[x,y,z, MonomialOrder=>Weights=>{1,1,10}] + I1 = ideal(y^2-x, z^3-x) + R2 = QQ[x,y,z, MonomialOrder=>Weights=>{10,1,1}] +--- a/M2/Macaulay2/packages/SumsOfSquares.m2 ++++ b/M2/Macaulay2/packages/SumsOfSquares.m2 +@@ -1437,6 +1437,7 @@ + + --11 + TEST /// --lowerBound ++-- no-check-flag #1579 + debug needsPackage "SumsOfSquares" + results := checkLowerBound("CSDP") + assert all(results,t->t=!=false); +--- a/M2/Macaulay2/packages/CoincidentRootLoci/tests.m2 ++++ b/M2/Macaulay2/packages/CoincidentRootLoci/tests.m2 +@@ -180,6 +180,7 @@ + /// + + TEST /// -- singularLocus ++-- no-check-flag #1581 + X10 = coincidentRootLocus(toList(10:1),ZZ/101,Variable=>x) + A10 = {{},{{10}},{{10}},{{9,1}},{{10}},{{7,3},{8,2},{9,1}},{{8,1,1}},{{10}},{{6,4},{7,3},{9,1}},{{8,2}},{{6,2,2},{6,3,1},{7,2,1},{8,1,1}},{{7,1,1,1}},{},{{5,5},{6,4},{9,1}},{{5,5},{7,3},{8,2}},{{5,4,1},{6,3,1},{8,1,1}},{{5,3,2},{6,2,2},{7,2,1}},{{5,2,2,1},{5,3,1,1},{6,2,1,1},{7,1,1,1}},{{5,5},{6,1,1,1,1}},{{6,4}},{{5,4,1}},{{7,3}},{{4,3,3},{4,4,2},{5,3,2},{5,4,1},{6,3,1},{7,2,1}},{{4,3,3},{4,4,1,1},{5,3,1,1},{7,1,1,1}},{{4,4,2},{6,2,2}},{{4,2,2,2},{4,3,2,1},{4,4,1,1},{5,2,2,1},{6,2,1,1}},{{4,2,2,1,1},{4,3,1,1,1},{4,4,2},{5,2,1,1,1},{6,1,1,1,1}},{{4,4,1,1},{5,1,1,1,1,1}},{{4,3,3}},{{5,3,2}},{{3,3,2,2},{3,3,3,1},{4,3,2,1},{5,3,1,1}},{{3,3,3,1},{4,3,1,1,1}},{{3,3,2,2},{4,2,2,2},{5,2,2,1}},{{3,2,2,2,1},{3,3,2,1,1},{3,3,2,2},{4,2,2,1,1},{5,2,1,1,1}},{{3,2,2,1,1,1},{3,3,1,1,1,1},{3,3,2,1,1},{4,2,1,1,1,1},{5,1,1,1,1,1}},{{3,3,1,1,1,1},{4,1,1,1,1,1,1}},{},{{2,2,2,2,2},{3,2,2,2,1}},{{2,2,2,2,1,1},{3,2,2,1,1,1},{4,4,2}},{{2,2,2,1,1,1,1},{3,2,1,1,1,1,1},{4,4,1,1}},{{2,2,1,1,1,1,1,1},{3,1,1,1,1,1,1,1}},{}} + assert(sort apply(apply(subsets X10,singularLocus),L -> sort apply(L,partition)) === sort apply(A10,sort)) +--- a/M2/Macaulay2/packages/VersalDeformations.m2 ++++ b/M2/Macaulay2/packages/VersalDeformations.m2 +@@ -1366,6 +1366,7 @@ + /// + + TEST /// ++-- no-check-flag #1392 + needsPackage "Truncations" + S = ZZ/32003[a..d] + I = monomialIdeal(a^2,a*b,b^4,a*c^3) +--- a/M2/Macaulay2/packages/DeterminantalRepresentations.m2 ++++ b/M2/Macaulay2/packages/DeterminantalRepresentations.m2 +@@ -1305,6 +1305,7 @@ + -- TESTS + + TEST /// -- Quadratic case: over QQ, RR, CC ++-- no-check-flag #1746 + S = QQ[x1,x2,x3] + f = 1 - 8*x1*x2 - 4*x1*x3 - 100*x2^2 - 12*x2*x3 - x3^2 - 5*x1^2 + M = first detRep(f, Tolerance => 1e-10) +@@ -1517,6 +1518,7 @@ + /// + + TEST /// -- cholesky, randomPSD ++-- no-check-flag #1745 + eps = 1e-15 + A = randomPSD 5 + E = eigenvectors(A, Hermitian => true) +--- a/M2/Macaulay2/packages/Topcom.m2 ++++ b/M2/Macaulay2/packages/Topcom.m2 +@@ -366,6 +366,7 @@ + /// + + TEST /// ++-- no-check-flag #1707 + -* + restart + debug needsPackage "Topcom" +@@ -379,6 +380,7 @@ + /// + + TEST /// ++-- no-check-flag #1707 + needsPackage "Topcom" + -- test of isRegularTriangulation + A = transpose matrix {{0,3},{0,1},{-1,-1},{1,-1},{-4,-2},{4,-2}} +@@ -438,6 +440,7 @@ + /// + + TEST /// ++-- no-check-flag #1707 + needsPackage "Topcom" + needsPackage "Polyhedra" + +--- a/M2/Macaulay2/packages/SuperLinearAlgebra.m2 ++++ b/M2/Macaulay2/packages/SuperLinearAlgebra.m2 +@@ -219,6 +219,7 @@ + ) + + TEST/// ++-- no-check-flag #1984 + R1 = QQ[x_0..x_3]; + R2 = QQ[z_0..z_2]; + R = superRing(R1, R2); +@@ -271,6 +272,7 @@ + ) + + TEST /// ++-- no-check-flag #1984 + R1 = QQ[x_0..x_3]; + R2 = QQ[z_0..z_2]; + R = superRing(R1, R2); +--- a/M2/Macaulay2/packages/MultiprojectiveVarieties.m2 ++++ b/M2/Macaulay2/packages/MultiprojectiveVarieties.m2 +@@ -3679,6 +3679,7 @@ + /// + + TEST /// ++-- no-check-flag #2162 + ringP4 := ZZ/300007[a..e]; + f = rationalMap minors(2,matrix {{a,b,c,d},{b,c,d,e}}); + g = rationalMap(minors(2,matrix{{a,b,c},{b,c,d}}) + ideal e); +@@ -3709,6 +3710,7 @@ + /// + + TEST/// ++-- no-check-flag #2162 + Phi = last graph rationalMap projectiveVariety({1},{4},ZZ/300007); + assert(multidegree(,Phi) == multidegree Phi) + assert(projectiveDegrees Phi == multidegree Phi) +@@ -3921,6 +3923,7 @@ + /// + + TEST /// -- parametrizations 3 ++-- no-check-flag #1539 + needsPackage "SpecialFanoFourfolds"; + debug SpecialFanoFourfolds; + checkInverseParametrization = X -> ( +--- a/M2/Macaulay2/packages/SpecialFanoFourfolds.m2 ++++ b/M2/Macaulay2/packages/SpecialFanoFourfolds.m2 +@@ -2884,6 +2884,7 @@ + ------------------------------------------------------------------------ + + TEST /// -- Test 0 -- cubic fourfolds from strings: describe, discriminant, parameterCount ++-- no-check-flag #2162 + strIn := {"quintic del Pezzo surface", "quartic scroll", "3-nodal septic scroll", "one-nodal septic del Pezzo surface", "general cubic 4-fold of discriminant 38", "general cubic 4-fold of discriminant 42", "cubic 4-fold of discriminant 48"}; + strOut := "Special cubic fourfold of discriminant 14 + containing a (smooth) surface of degree 5 and sectional genus 1 +@@ -2919,6 +2920,7 @@ + /// + + TEST /// -- Test 1 (1/2) -- GM fourfolds from strings: describe, discriminant, parameterCount, toGrass ++-- no-check-flag #1539 + strIn := {"sigma-plane", "rho-plane", "tau-quadric"}; + strOut := "Special Gushel-Mukai fourfold of discriminant 10('') + containing a surface in PP^8 of degree 1 and sectional genus 0 +@@ -2950,6 +2952,7 @@ + /// + + TEST /// -- Test 2 (2/2) -- GM fourfolds from strings: describe, discriminant, parameterCount, toGrass ++-- no-check-flag #1539 + strIn := {"cubic scroll", "quintic del Pezzo surface", "general GM 4-fold of discriminant 20"}; + strOut := "Special Gushel-Mukai fourfold of discriminant 12 + containing a surface in PP^8 of degree 3 and sectional genus 0 +@@ -2982,6 +2985,7 @@ + /// + + TEST /// -- Test 3 -- 21 examples from GMtables ++-- no-check-flag #1539 + X = for i from 1 to 21 list ( + A = GMtables(i,ZZ/65521); + time specialGushelMukaiFourfold((rationalMap(ideal A_0,Dominant=>2)) ideal A_1,InputCheck=>0) +@@ -2994,6 +2998,7 @@ + /// + + TEST /// -- Test 4 -- parametrizations of Fano fourfolds ++-- no-check-flag #1539 + setRandomSeed 0; + for dg in {(2,0),(3,1),(4,1),(5,1),(4,3),(6,4),(8,5),(10,6),(12,7),(14,8),(16,9),(18,10)} do ( + <<"(d,g) = "<true); + assert(f#"image" =!= null and dim image f == 2 and degree image f == 14 and dim target f == 8) + /// + + TEST /// -- Test 7 (2/3) -- associated K3 surfaces ++-- no-check-flag #1539 + g = last associatedK3surface(specialCubicFourfold "quintic del Pezzo surface",Verbose=>true); + assert(g#"image" =!= null and dim image g == 2 and degree image g == 14 and dim target g == 8) + /// + + TEST /// -- Test 8 (3/3) -- associated K3 surfaces ++-- no-check-flag #2162 + associatedK3surface(specialGushelMukaiFourfold "tau-quadric",Verbose=>true); + /// + + TEST /// -- Test 9 -- simple tests on schubertCycle ++-- no-check-flag #1539 + debug MultiprojectiveVarieties; + S = schubertCycle({2,2},GG(ZZ/33331,1,4),Standard=>true) + assert(idealOfSubvariety S == idealOfSubvariety tangentialChowForm(projectiveVariety ideal((Grass(0,4,ZZ/33331,Variable=>"x"))_0,(Grass(0,4,ZZ/33331,Variable=>"x"))_1),1,1)) +@@ -3056,6 +3065,7 @@ + /// + + TEST /// -- Test 11 (2/2) -- detectCongruence ++-- no-check-flag #1539 + use Grass(1,4,ZZ/33331); + S31 = ideal(p_(3,4),p_(2,4),p_(1,4),p_(0,4),p_(2,3),p_(1,3),p_(1,2)); + Y = specialGushelMukaiFourfold(S31,InputCheck=>0); +@@ -3066,6 +3076,7 @@ + /// + + TEST /// -- Test 12 (1/2) -- GM fourfolds containing nodal surfaces ++-- no-check-flag #2162 + debug SpecialFanoFourfolds; + K = ZZ/65521; + X = makeGMfromCurveOnSurfaceInP6((surface({2,0,0,0},K,ambient=>6)).cache#"takeCurve" (1,(0,0,0)),InputCheck=>0); +@@ -3077,6 +3088,7 @@ + /// + + TEST /// -- Test 13 (2/2) -- GM fourfolds containing nodal surfaces ++-- no-check-architecture: s390x (#2162) + X = specialGushelMukaiFourfold("nodal surface of degree 11 and genus 3 with class (7,4)",ZZ/33331,InputCheck=>0); + assert(discriminant X == 26 and last cycleClass X == (7,4) and degree surface X == 11 and sectionalGenus surface X == 3); + Y = specialGushelMukaiFourfold("nodal D44",ZZ/33331,InputCheck=>0); +@@ -3108,6 +3120,7 @@ + /// + + TEST /// -- Test 15 ++-- no-check-flag #1539 + debug SpecialFanoFourfolds + L = takeGMsfromSurfaceInP6(surface({3,1,1,0},ambient=>6),InputCheck=>0,"Gluing"=>"cubic scroll",Degrees=>hashTable{1=>(1,1),2=>(19,infinity),3=>(0,0)}); + X = first L; +--- a/M2/Macaulay2/packages/NumericalImplicitization/tests.m2 ++++ b/M2/Macaulay2/packages/NumericalImplicitization/tests.m2 +@@ -137,6 +137,7 @@ + /// + + TEST /// -- Twisted cubic projections ++-- no-check-flag #2183 + R = CC[x_0..x_3] + I = monomialCurveIdeal(R, {1,2,3}) + F1 = random(R^1, R^{3:-1}) +--- a/M2/Macaulay2/packages/EngineTests/Res.f4.m2 ++++ b/M2/Macaulay2/packages/EngineTests/Res.f4.m2 +@@ -553,6 +553,7 @@ + /// + + TEST /// ++-- no-check-flag #2205 + setRandomSeed "10" + needsPackage "BGG" + S = ZZ/101[x_0..x_5] -- P^5 +--- a/M2/Macaulay2/packages/CharacteristicClasses.m2 ++++ b/M2/Macaulay2/packages/CharacteristicClasses.m2 +@@ -2488,6 +2488,7 @@ + + TEST /// + -* ++ no-check-flag #2162 + restart + needsPackage "CharacteristicClasses" + *- +@@ -2501,6 +2502,7 @@ + + TEST /// + -* ++ no-check-flag #2162 + restart + needsPackage "CharacteristicClasses" + *- +@@ -2521,6 +2523,7 @@ + + TEST /// + -* ++ no-check-flag #2162 + restart + needsPackage "CharacteristicClasses" + installPackage "CharacteristicClasses" +--- a/M2/Macaulay2/packages/EngineTests/GB.Test.Mathic.m2 ++++ b/M2/Macaulay2/packages/EngineTests/GB.Test.Mathic.m2 +@@ -159,6 +159,7 @@ + /// + + TEST /// ++-- no-check-flag #2162 + R1 = ZZ/32003[w,x,y,z,MonomialOrder => Lex] + J1 = ideal" + -2w2+9wx+8x2+9wy+9xy+6y2-7wz-3xz-7yz-6z2-4w+8x+4y+8z+2, +--- a/M2/Macaulay2/packages/SegreClasses.m2 ++++ b/M2/Macaulay2/packages/SegreClasses.m2 +@@ -941,6 +941,7 @@ + + + TEST /// ++-- no-check-flag #2162 + -- union of coordinate axes in PP3 (diagonal) + -* + restart +@@ -959,6 +960,7 @@ + + TEST /// + -* ++ no-check-flag #2162 + restart + needsPackage "SegreClasses" + *- +@@ -972,6 +974,7 @@ + /// + + TEST /// ++-- no-check-flag #2162 + -- union of coordinate axes in PP3 (diagonal) + -* + restart +@@ -991,6 +994,7 @@ + + TEST /// + -* ++no-check-flag #2162 + restart + needsPackage "SegreClasses" + *- +@@ -1024,6 +1028,7 @@ + + TEST /// + -* ++no-check-flag #2162 + restart + needsPackage "SegreClasses" + *- +@@ -1060,6 +1065,7 @@ + + TEST /// + -* ++no-check-flag #2162 + restart + needsPackage "SegreClasses" + *- +@@ -1080,6 +1086,7 @@ + + TEST /// + -* ++no-check-flag #2162 + restart + needsPackage "SegreClasses" + *- +@@ -1095,6 +1102,7 @@ + + TEST /// + -* ++no-check-flag #2162 + restart + needsPackage "SegreClasses" + *- +@@ -1111,6 +1119,7 @@ + + TEST /// + -* ++no-check-flag #2162 + restart + needsPackage "SegreClasses" + *- +--- a/M2/Macaulay2/packages/SparseResultants.m2 ++++ b/M2/Macaulay2/packages/SparseResultants.m2 +@@ -1736,6 +1736,7 @@ + /// + + TEST /// -- Corollary 2.2, p. 256 [GKZ] ++-- no-check-flag #2162 + property = (M) -> ( + M = transpose matrix M; + K := ZZ/33331; n := numRows M; +--- a/M2/Macaulay2/packages/IntegralClosure.m2 ++++ b/M2/Macaulay2/packages/IntegralClosure.m2 +@@ -2820,6 +2820,7 @@ + --huneke2 + TEST /// + -* ++ no-check-flag #2162 + restart + loadPackage("IntegralClosure", Reload => true) + *- +--- a/M2/Macaulay2/packages/K3Surfaces.m2 ++++ b/M2/Macaulay2/packages/K3Surfaces.m2 +@@ -1033,6 +1033,7 @@ + /// + + TEST /// ++-- no-check-flag #2319 + for g from 3 to 12 do ( + for d from 3 to 5 do ( + <<"(g,d,n) = "<<(g,d,0)< "Macaulay2 and its packages", + AuxiliaryFiles => true, ++ UseCachedExampleOutput => true, + Headline => "Macaulay2 documentation", + Authors => { + {Name => "Daniel R. Grayson", Email => "dan@math.uiuc.edu", HomePage => "http://www.math.uiuc.edu/~dan/"}, +--- a/M2/Macaulay2/packages/SemidefiniteProgramming.m2 ++++ b/M2/Macaulay2/packages/SemidefiniteProgramming.m2 +@@ -19,6 +19,7 @@ + Headline => "semidefinite programming", + Keywords => {"Real Algebraic Geometry", "Interfaces"}, + Configuration => {"CSDPexec"=>"","MOSEKexec"=>"mosek","SDPAexec"=>"sdpa","DefaultSolver"=>null}, ++ UseCachedExampleOutput => true, + AuxiliaryFiles => true, + PackageExports => {"NumericalAlgebraicGeometry"} + ) diff --git a/patches/use-dh-elpa.patch b/patches/use-dh-elpa.patch new file mode 100644 index 0000000..a097fbe --- /dev/null +++ b/patches/use-dh-elpa.patch @@ -0,0 +1,56 @@ +Description: Modifications to work with dh_elpa. + * Strip down setupEmacs() function. We only set f12 as a global key + to start Macaulay2 inside Emacs. This also strips (load "M2-init") + from a user's existing .emacs-Macaulay2 file, which would cause + errors if they haven't installed elpa-macaulay2. We also warn the + user if elpa-macaulay2 isn't installed. + * Fix path to M2-emacs-help.txt in documentation. +Author: Doug Torrance +Forwarded: not-needed +Last-Update: 2022-02-08 + +--- a/M2/Macaulay2/m2/files.m2 ++++ b/M2/Macaulay2/m2/files.m2 +@@ -387,12 +387,6 @@ + /// + + dotemacsFix0 = /// +-;; this version will give an error if M2-init.el is not found: +-(load "M2-init") +- +-;; this version will not give an error if M2-init.el is not found: +-;(load "M2-init" t) +- + ; You may comment out the following line with an initial semicolon if you + ; want to use your f12 key for something else. However, this action + ; will be undone the next time you run setup() or setupEmacs(). +@@ -474,10 +468,15 @@ + setupEmacs = method() + setup = method() + mungeEmacs = () -> ( +- dotemacsFix = concatenate(emacsHeader, apply(emacsfixes, (var,dir,templ) -> fix(var,dir,"",templ)), dotemacsFix0); ++ dotemacsFix = concatenate(emacsHeader, dotemacsFix0); + supplantStringFile(dotemacsFix,"~/"|M2emacs,false); +- mungeFile("~/"|".emacs", ";; Macaulay 2 start", ";; Macaulay 2 end", M2emacsRead ) +- ) ++ ret := mungeFile("~/"|".emacs", ";; Macaulay 2 start", ";; Macaulay 2 end", M2emacsRead ); ++ if run("dpkg -s elpa-macaulay2 2> /dev/null | " | ++ "grep -q \"^Status:.* installed\"") != 0 then ++ stderr << "--warning: you must run \"apt install elpa-macaulay2\" " ++ << "as root in order to use" << endl ++ << " Macaulay2 with Emacs." << endl; ++ ret) + prelim := () -> ( + promptUser = true; + if prefixDirectory === null then error "can't determine Macaulay 2 prefix (prefixDirectory not set)"; +--- a/M2/Macaulay2/packages/Macaulay2Doc/ov_getting_started.m2 ++++ b/M2/Macaulay2/packages/Macaulay2Doc/ov_getting_started.m2 +@@ -926,7 +926,7 @@ + It also provides for dynamic completion of symbols in the language.", + PARA{}, + "There is an ASCII version of this section of the documentation distributed +- in the file ", TT (Layout#1#"emacs" | "M2-emacs-help.txt"), ". It might be useful for you to visit ++ in the file ", TT "/usr/share/doc/elpa-macaulay2/M2-emacs-help.txt.gz", ". It might be useful for you to visit + that file with emacs now, thereby avoiding having to cut and paste bits of + text into emacs buffers for the demonstrations below.", + PARA{}, diff --git a/rules b/rules new file mode 100755 index 0000000..a78ec7f --- /dev/null +++ b/rules @@ -0,0 +1,135 @@ +#!/usr/bin/make -f + +include /usr/share/dpkg/architecture.mk +include /usr/share/dpkg/pkg-info.mk # for SOURCE_DATE_EPOCH + +export DEB_BUILD_MAINT_OPTIONS=hardening=+all + +ifeq (,$(filter terse,$(DEB_BUILD_OPTIONS))) +export VERBOSE=1 +endif + +# needed for reproducible-version.patch +export CURDIR + +VERSION := $(shell cat M2/VERSION) + +%: + dh $@ --sourcedirectory=M2 --with linktree + +# use exec_prefix instead of prefix in libdir, as that's what's needed +# to properly substitute paths in Layout#2 +LIBDIR := \$${exec_prefix}/lib/$(DEB_HOST_MULTIARCH) + +# set emacs lisp file installation directory so that the documentation +# matches where dh_elpa installs them +EMACSDIR := \ + \$${prefix}/share/emacs/site-lisp/elpa/macaulay2-$(VERSION) + +WITH_PYTHON := $(if $(filter nopython, $(DEB_BUILD_PROFILES)),, --with-python) + +ifneq (,$(filter nodoc,$(DEB_BUILD_OPTIONS))) +DISABLE_DOCUMENTATION = --disable-documentation +else +DISABLE_DOCUMENTATION := $(if $(shell dh_listpackages -i),,\ + --disable-documentation) +endif + +override_dh_auto_configure: + dh_auto_configure -- \ + --libdir=$(LIBDIR) \ + --with-emacsdir=$(EMACSDIR) \ + --with-system-memtailor \ + --with-system-mathic \ + --with-system-mathicgb \ + --with-system-gc \ + $(WITH_PYTHON) \ + $(DISABLE_DOCUMENTATION) \ + $(if $(DISABLE_DOCUMENTATION),,--enable-syntax-highlighting) +ifeq ($(DISABLE_DOCUMENTATION),) + dh_auto_configure --buildsystem=nodejs + mv node_modules M2/Macaulay2/editors/highlightjs +endif + +# copy cached example output files (for examples known to fail on +# various architectures) to source directory +# see debian/scripts/generate-examples.m2 +EXAMPLE_SRC := $(wildcard $(CURDIR)/debian/examples/*) +EXAMPLE_DEST := $(patsubst $(CURDIR)/debian/examples/%, \ + $(CURDIR)/M2/Macaulay2/packages/%/examples, $(EXAMPLE_SRC)) + +$(CURDIR)/M2/Macaulay2/packages/%/examples: $(CURDIR)/debian/examples/% + mkdir -p $@ + cp -v $ $@ + +# prevent dh_missing from failing when only building arch-dependent packages +execute_before_dh_missing: + if [ ! -f debian/macaulay2-pkg.el ]; \ + then \ + rm -rf debian/tmp/usr/share/emacs; \ + fi + +override_dh_installdeb: + dh_installdeb --define DEB_HOST_MULTIARCH=$(DEB_HOST_MULTIARCH) \ + --define DB_FILENAME=$(DB_FILENAME) + +# we use uscan to check for the most recent version, but to create an +# orig tarball, we also need the contents of the M2-emacs submodule, +# so use this target instead of uscan directly +get-orig-source: + debian/scripts/m2-get-orig-source.sh diff --git a/salsa-ci.yml b/salsa-ci.yml new file mode 100644 index 0000000..59e7718 --- /dev/null +++ b/salsa-ci.yml @@ -0,0 +1,11 @@ +--- +variables: + DEB_BUILD_OPTIONS: "nocheck nodoc" + SALSA_CI_GBP_BUILDPACKAGE_ARGS: "--git-hooks" + +include: + - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml + - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml + +autopkgtest: + allow_failure: true diff --git a/scripts/Debian.m2 b/scripts/Debian.m2 new file mode 100644 index 0000000..5f53281 --- /dev/null +++ b/scripts/Debian.m2 @@ -0,0 +1,310 @@ +srcdir := minimizeFilename(currentFileDirectory | "../../") +if not fileExists(srcdir | "debian/copyright") then + error "package must be loaded from the debian source directory" + +newPackage("Debian", + Version => get("!cd " | srcdir | + " && dpkg-parsechangelog -S Version | tr -d '\n'"), + Date => "2021-09-22", + Headline => "helper functions for packaging Macaulay2 for Debian", + Authors => {{ + Name => "Doug Torrance", + Email => "dtorrance@debian.org", + HomePage => "https://webwork.piedmont.edu/~dtorrance"}} + ) + +export { + "copyrightHelper", + "generateExample", + "generateExamples", + "missingPackages", + "skipTest", + "skipTestArch" + } + +importFrom_Core { + "captureExampleOutput", + "storeExampleOutput", + "toFilename", + "topSrcdir" + } + +getfilename := pkg -> ( + for file in apply({"", "undistributed-packages/"}, dir -> + srcdir | "M2/Macaulay2/packages/" | dir | pkg | ".m2") do + if fileExists file then return file; + error "file not found") +readpkg := pkg -> readPackage(pkg, FileName => getfilename pkg) + +-- no need to list packages written only by Dan and/or Mike +danMikeRegex := {"^Jane Doe$", -- "author" of FirstPackage/SecondPackage + "^Daniel R\\. Grayson$", + "^Mi(ke|chael E\\.) Stillman$"} + +-- function to help generate d/copyright paragraphs for Macaulay2 packages +-- manually check each file to ensure the license information is correct +copyrightHelper = pkgName -> ( + pkg := readpkg pkgName; + filename := getfilename pkgName; + files := replace(regexQuote srcdir | "(.*)\\.m2$", "\\1", filename) | + if pkg#AuxiliaryFiles then "*" else ".m2"; + year := if pkg#Date =!= null then + (first select(///[\d]{4}///, pkg#Date)) | " " else ""; + danOrMike := any(apply(pkg#Authors, author -> + last first author), name -> match(danMikeRegex, name)); + print("Files: " | files | newline | + "Copyright: " | + demark(newline | " ", + apply(hashTable \ pkg#Authors, author -> + year | author#Name | + (if author#?Email then " <" | author#Email | ">" else ""))) | + newline | "Comment: See Comment at the top of this file." | newline | + "License: " | (if danOrMike then "GPL-2+ and " else "") | + "public-domain" | newline); + << flush; + printerr "warning: confirm that this copyright information is correct:"; + print(filename | ":1:1:"); +) + +missingPackages = () -> ( + dCopyright := get(srcdir | "debian/copyright"); + distributedPkgs := apply( + select(readDirectory(srcdir | "M2/Macaulay2/packages"), + f -> match("\\.m2$", f)), f -> replace("\\.m2$", "", f)); + undistributedPkgs := apply(select(readDirectory(srcdir | + "M2/Macaulay2/packages/undistributed-packages"), + f -> match("\\.m2$", f) and not member(f, { + -- reading any of these packages will raise an error + "CodepthThree.m2", + "CustomEngineTests.m2", + "FastLinearAlgebra.m2", + "MemoryLeaks.m2", + "SecondPackage.m2", + -- false positives + "RisaAsir.m2", -- author field empty + "SchurRingsOld.m2" -- copyright dan, not package authors + })), f -> replace("\\.m2$", "", f)); + pkgs := sort(distributedPkgs | undistributedPkgs); + missing := select(pkgs, pkg -> + not match("M2/Macaulay2/packages/(undistributed-packages/)?" | pkg | + "(\\.m2|\\*)", dCopyright)); + select(missing, pkg -> + not all(hashTable \ (readpkg pkg)#Authors, author -> + match(danMikeRegex, author#Name))) +) + +-- from installPackage.m2 +gethash := outf -> ( + f := get outf; + -- this regular expression detects the format used in runFile + m := regex("\\`.* hash: *(-?[0-9]+)", f); + if m =!= null then value substring(m#1, f)); + +dir := minimizeFilename(currentFileDirectory | "../") +generateExample = (pkgname, fkey) -> ( + tmpdir := temporaryFileName(); + makeDirectory tmpdir; + installdir := replace("^~", getenv "HOME", dir) | "/examples/" | pkgname; + makeDirectory installdir; + inf := tmpdir | "/" | toFilename fkey | ".m2"; + outf := installdir | "/" | toFilename fkey | ".out"; + errf := installdir | "/" | toFilename fkey | ".errors"; + pkg := needsPackage(pkgname, LoadDocumentation => true); + if pkg#?"documentation not loaded" then pkg = loadPackage( + pkgname, LoadDocumentation => true, Reload => true); + inputs := pkg#"example inputs"#(format makeDocumentTag fkey); + if fileExists outf and gethash outf == hash inputs then ( + printerr("example result for ", format fkey, + " already exists; skipping"); + return false); + elapsedTime captureExampleOutput( + "example result for " | format fkey, + demark_newline inputs, + pkg, + inf, + outf, + errf, + {}, + hash inputs, + () -> null, + false); + topSrcdir = "/top/src/dir/"; -- for reproduciblePaths + storeExampleOutput(pkg, fkey, outf, printerr); + true) + +problemExamples = { + -- load Macaulay2Doc first to avoid #2328 + ("Macaulay2Doc", "applicationDirectory"), -- #1149 + ("Macaulay2Doc", "applicationDirectorySuffix"), -- #1149 + ("Macaulay2Doc", "getenv"), -- #1149 + ("Macaulay2Doc", "homeDirectory"), -- #1149 + ("SemidefiniteProgramming", "Solver") -- #1149 +} + +generateExamples = () -> ( + n := 0; + tmp := path; + path = {srcdir | "/M2/Macaulay2/packages/"}; + scan(problemExamples, (pkg, fkey) -> + if generateExample(pkg, fkey) then n = n + 1); + path = tmp; + ls := d -> select(readDirectory d, file -> last file != "."); + exdir := dir | "/examples/"; + extraExamples := set flatten apply(ls exdir, pkg -> + for outf in ls(exdir | pkg) list if match ("\\.out$", outf) + then (pkg, outf) else continue) - + set apply(problemExamples, (pkg, fkey) -> + (pkg, toFilename fkey | ".out")); + if #extraExamples > 0 then error("extra cached examples: " | newline | + toString \\ stack \\ apply(toList extraExamples, extra -> + extra_0 | "::" | replace("\\.out$", "", extra_1))); + cachepatch := get(dir | "patches/use-cached-examples.patch"); + missingFromPatch := select(unique \\ first \ problemExamples, pkg -> ( + opts := readPackage(pkg, FileName => dir | + "../M2/Macaulay2/packages/" | pkg | ".m2"); + not (opts.AuxiliaryFiles and + opts.OptionalComponentsPresent =!= null or + match("M2/Macaulay2/packages/" | pkg | "\\.m2", cachepatch)))); + if #missingFromPatch > 0 then error( + "add these packages to d/patches/use-cached-examples.patch:" | newline | + toString stack missingFromPatch); + n) + + +skipTestHelper = (i, pkgname, str) -> ( + tmp := path; + path = {srcdir | "/M2/Macaulay2/packages/"}; + run("cd " | srcdir | " && " | + "quilt pop -aq; " | + "quilt push -q skip-failing-package-tests.patch"); + pkg := loadPackage(pkgname, LoadDocumentation => true, Reload => true); + path = tmp; + test := locate (tests pkg)#i; + testfile := relativizeFilename(realpath srcdir, realpath first test); + run("cd " | srcdir | " && quilt add " | testfile | "; " | + "sed -i '" | test_1 + 1 | "i " | str | "' " | testfile | + " && quilt refresh && quilt pop -aq"); + ) + +skipTest = (i, pkgname, issue) -> + skipTestHelper(i, pkgname, "\\-\\- no\\-check\\-flag #" | issue) + +skipTestArch = (i, pkgname, arch, issue) -> + skipTestHelper(i, pkgname, "\\-\\- no\\-check\\-architecture: " | arch | + " (#" | issue | ")") + + +beginDocumentation() + +doc /// + Key + Debian + Headline + helper functions for packaging Macaulay2 for Debian + Description + Text + A collection of helper functions to simplify maintaining the Debian + package of Macaulay2. +/// + +doc /// + Key + missingPackages + Headline + find packages that are missing from d/copyright + Usage + missingPackages() + Description + Text + Check that all packages are mentioned in d/copyright unless the + only authors are Dan and/or Mike (or Jane Doe for FirstPackage). +/// + +doc /// + Key + copyrightHelper + Headline + get package license information + Usage + copyrightHelper pkg + Inputs + pkg:String + Description + Text + Help generate @TT "d/copyright"@ paragraphs for Macaulay2 packages. + Manually check each file to ensure the license information is correct. + Example + copyrightHelper "Graphs" +/// + +doc /// + Key + generateExample + Headline + generate cached example + Usage + generateExample(pkg, key) + Inputs + pkg:String + key:String + Description + Text + Generates the given example and saves it in @TT "d/examples/pkg"@. + Make sure that the @TO AuxiliaryFiles@ and + @TO UseCachedExampleOutput@ options to @TO installPackage@ for + @TT "pkg"@ are @TO true@. Otherwise, add these to + @TT "d/patches/use-cached-example-output.patch"@. +/// + +doc /// + Key + generateExamples + Headline + generate cached versions of all known problem examples + Usage + generateExamples() + Description + Text + Run @TO generateExample@ on every example listed in @TT "problemExamples"@ + in the source code for this package, if necessary. +/// + +doc /// + Key + skipTest + Headline + skip a failing test + Usage + skipTest(i, pkg, issue) + Inputs + i:ZZ + pkg:String + issue:ZZ + Description + Text + Skip @TT "check(i, pkg)"@ when running package tests by adding + it to @TT "d/patches/skip-failing-package-tests.patch"@ using + @TT "no-check-flag"@ with an appropriate comment, indicated by + @TT "issue"@, the upstream issue number. +/// + +doc /// + Key + skipTestArch + Headline + skip a failing test on a specific architecture + Usage + skipTest(i, pkg, arch, issue) + Inputs + i:ZZ + pkg:String + arch:String -- matching @TO2 {"version", "version#\"architecture\""}@ + issue:ZZ + Description + Text + Skip @TT "check(i, pkg)"@ when running package tests on a + specificic architecture by adding it to @TT + "d/patches/skip-failing-package-tests.patch"@ using @TT + "no-check-architecture"@ with an appropriate comment, indicated + by @TT "issue"@, the upstream issue number. +/// diff --git a/scripts/m2-get-orig-source.sh b/scripts/m2-get-orig-source.sh new file mode 100755 index 0000000..dd48406 --- /dev/null +++ b/scripts/m2-get-orig-source.sh @@ -0,0 +1,297 @@ +#!/bin/sh + +# generate Macaulay2 orig tarball for creating Debian packages +# combines contents of M2 and M2-emacs git repositories and removes +# any files specified by Files-Excluded in debian/copyright +# +# also updates git-description.patch and d/changelog with the corresponding +# git description/version number + +set -e + +TEMP=$(getopt -o 'udr:ngmhR:' \ + -l 'uscan,dev,ref,no-tarball,git-commit,merge,help,remote' \ + -n "m2-get-orig-source" \ + -- "$@") + +if [ $? -ne 0 ]; then + echo 'Terminating...' >&2 + exit 1 +fi + +eval set -- "$TEMP" +unset TEMP + +call_uscan() { + echo -n "finding newest version using uscan ... " + VERSION=$(uscan --report-status | grep newversion | \ + awk '{print $3}') + echo $VERSION + REF="release-$(echo $VERSION | sed 's/~rc/-rc/')" +} + +REMOTE=Macaulay2 + +while true; do + case "$1" in + '-u'|'--uscan') + call_uscan + shift + continue + ;; + '-d'|'--dev') + REF="development" + shift + continue + ;; + '-r'|'--ref') + REF=$2 + shift 2 + continue + ;; + '-n'|'--no-tarball') + NOTARBALL=1 + shift + continue + ;; + '-g'|'--git-commit') + DO_GIT_COMMIT=1 + shift + continue + ;; + '-m'|'--merge') + MERGE=1 + shift + continue + ;; + '-R'|'--remote') + REMOTE=$2 + shift 2 + continue + ;; + '-h'|'--help') + echo "debian/scripts/m2-get-orig-source.sh:" + echo " create orig tarball and update" \ + "d/changelog (and d/p/git-description.patch) with" + echo " version number\n" + echo "options:" + echo " -u, --uscan" + echo " use uscan to determine newest stable version (default)" + echo " -d, --dev" + echo " use 'development' branch" + echo " -r, --ref " + echo " use branch or tag specificed by " + echo " -n, --no-tarball" + echo " don't generate tarball; only update d/changelog" + echo " -g, --git-commit" + echo " commit version bump to git" + echo " -m, --merge" + echo " merge branch" + echo " -R, --remote" + echo " set remote (default 'Macaulay2')" + echo " -h, --help" + echo " display this help and exit" + exit 0 + ;; + '--') + shift + break + ;; + *) + echo 'Internal error!' >&2 + exit 1 + ;; + esac +done + +if [ "x$REF" = "x" ] +then + call_uscan +fi + +if [ -z $NOTARBALL ] +then + echo "making tarball for ref '$REF'" +else + echo "getting version number for ref '$REF'" +fi + +git fetch https://github.com/$REMOTE/M2 $REF 2> /dev/null + +echo -n "determining version number ... " +GIT_VERSION=$(git show FETCH_HEAD:M2/VERSION) +NEW_COMMITS=$(git rev-list \ + $(git rev-list -1 FETCH_HEAD M2/VERSION)..FETCH_HEAD --count) +GIT_COMMIT=$(git rev-parse FETCH_HEAD) # cut -c 1-7 (or 9) + +if [ -z $VERSION ] +then + VERSION=$GIT_VERSION+git$NEW_COMMITS.$(echo $GIT_COMMIT | cut -c 1-7) +fi +echo $VERSION + +if [ $MERGE ] +then + echo -n "merging '$REF' ... " + if git merge-base --is-ancestor FETCH_HEAD HEAD + then + echo "not needed" + else + echo + git merge --no-edit FETCH_HEAD + + echo -n "refreshing patches ... " + + REFRESH_PATCHES= + quilt pop -a > /dev/null 2>&1 || true + + while true + do + QUILT_PUSH=$(quilt push 2> /dev/null || true) + if echo $QUILT_PUSH | grep "FAILED" > /dev/null + then + echo "\ncan't apply patch; refresh manually" + exit 1 + elif echo $QUILT_PUSH | grep offset > /dev/null + then + quilt refresh > /dev/null + REFRESH_PATCHES=1 + elif [ -z "$QUILT_PUSH" ] + then + break + fi + done + + quilt pop -a > /dev/null 2>&1 || true + + if [ $REFRESH_PATCHES ] + then + echo "done" + git add debian/patches + git commit -m "Refresh patches for $VERSION" + else + echo "not needed" + fi + + echo -n "regenerating examples ... " + NUM_EXAMPLES=$( + M2 --srcdir M2 --silent -e \ + 'loadPackage("Debian", FileName => "debian/scripts/Debian.m2"); + print generateExamples(); + exit 0' 2> /dev/null) + echo "$NUM_EXAMPLES change(s)" + if [ $NUM_EXAMPLES -gt 0 ] + then + git add debian/examples + git commit -m "Regenerating examples for $VERSION" + fi + + echo -n "checking for new packages not in d/copyright ... " + M2 --srcdir M2 --silent -e \ + 'loadPackage("Debian", FileName => "debian/scripts/Debian.m2"); + pkgs = missingPackages(); + print(#pkgs); + for pkg in pkgs do print(" " | toString pkg); + exit 0' + fi +fi + +CURRENT_VERSION=$(dpkg-parsechangelog | awk '/^Version:/ {print $2}') +REPACK_SUFFIX=+ds +DEBIAN_REVISION=-1 +FULL_VERSION=$VERSION$REPACK_SUFFIX$DEBIAN_REVISION + +if [ $FULL_VERSION = $CURRENT_VERSION ] +then + echo "debian/changelog already up to date" + DO_GIT_COMMIT= +else + GIT_DESCRIPTION=version-$GIT_VERSION-$NEW_COMMITS-$(echo $GIT_COMMIT | \ + cut -c 1-9) + echo "using git description ... $GIT_DESCRIPTION" + + echo -n "updating debian/patches/git-description.patch ... " + quilt push debian/patches/git-description.patch > /dev/null + sed -i "s/^then GIT_DESCRIPTION=.*/then GIT_DESCRIPTION=$GIT_DESCRIPTION/" \ + M2/configure.ac + quilt refresh > /dev/null + quilt pop -a > /dev/null + echo "done" + + echo -n "updating debian/changelog ... " + rm -f debian/changelog.dch # dch raises an error if backup file present + dch -m -b -v "$FULL_VERSION" "" 2> /dev/null + echo "done" +fi + +if [ $DO_GIT_COMMIT ] +then + git add debian/changelog debian/patches/git-description.patch + git commit -m "Bump to version $VERSION$DEBIAN_SUFFIX" +fi + +if [ $NOTARBALL ] +then + exit +fi + +TARBALL=macaulay2_$VERSION$REPACK_SUFFIX.orig.tar.xz + +if [ -e ../$TARBALL ] +then + echo "../$TARBALL already exists; exiting" + exit +fi + +echo -n "generating M2 tarball ... " +git archive -o ../macaulay2_$VERSION.orig.tar FETCH_HEAD +echo "done" + +M2_EMACS_PATH=M2/Macaulay2/editors/emacs +echo -n "finding M2-emacs commit ... " +M2_EMACS_COMMIT=$(git ls-tree FETCH_HEAD -- $M2_EMACS_PATH | awk '{print $3}') +echo $M2_EMACS_COMMIT + +echo -n "generating M2-emacs tarball ... " +git submodule update --quiet --init $M2_EMACS_PATH +cd $M2_EMACS_PATH +git archive -o "../../../../../M2-emacs.tar" --prefix $M2_EMACS_PATH/ \ + $M2_EMACS_COMMIT +cd ../../../.. +git submodule deinit --quiet $M2_EMACS_PATH +echo "done" + +echo -n "merging tarballs ... " +tar --concatenate --file ../macaulay2_$VERSION.orig.tar ../M2-emacs.tar +rm ../M2-emacs.tar +echo "done" + +echo -n "removing Files-Excluded from debian/copyright ... " +FILES_EXCLUDED=$(gawk '/^Files-Excluded:/ {print $2; flag = 1; next} \ + /^\S/ {flag = 0} flag {print $1}' debian/copyright) +for FILE in $FILES_EXCLUDED +do + if tar -tf ../macaulay2_$VERSION.orig.tar | grep $FILE > /dev/null + then + tar --delete --wildcards --file ../macaulay2_$VERSION.orig.tar $FILE + else + MISSING_FILES="$MISSING_FILES $FILE" + fi +done +mv ../macaulay2_$VERSION.orig.tar ../macaulay2_$VERSION$REPACK_SUFFIX.orig.tar +echo "done" + +if [ ! -z "$MISSING_FILES" ] +then + echo "warning: in Files-Excluded but not tarball:" + for FILE in $MISSING_FILES + do + echo " $FILE" + done +fi + +echo -n "compressing ... " +xz -fz ../macaulay2_$VERSION$REPACK_SUFFIX.orig.tar +echo "done" + +echo "orig tarball: ../$TARBALL" diff --git a/scripts/m2-tarball-warning.sh b/scripts/m2-tarball-warning.sh new file mode 100755 index 0000000..8f63e17 --- /dev/null +++ b/scripts/m2-tarball-warning.sh @@ -0,0 +1,4 @@ +>&2 echo "+-----------------------------------------------------------------+" +>&2 echo "| Do NOT use this tarball. It is missing files from the M2-emacs |" +>&2 echo "| submodule. Instead, run 'debian/rules get-orig-source'. |" +>&2 echo "+-----------------------------------------------------------------+" diff --git a/source/format b/source/format new file mode 100644 index 0000000..163aaf8 --- /dev/null +++ b/source/format @@ -0,0 +1 @@ +3.0 (quilt) diff --git a/source/include-binaries b/source/include-binaries new file mode 100644 index 0000000..dc58491 --- /dev/null +++ b/source/include-binaries @@ -0,0 +1 @@ +M2/Macaulay2/editors/emacs/M2-symbols.el.gz diff --git a/source/lintian-overrides b/source/lintian-overrides new file mode 100644 index 0000000..9d65741 --- /dev/null +++ b/source/lintian-overrides @@ -0,0 +1,17 @@ +# Pre-generated example code used by Macaulay2's built-in help system. +macaulay2 source: package-does-not-install-examples debian/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/AdjointIdeal/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/Bertini/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/ConvexInterface/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/DecomposableSparseSystems/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/MapleInterface/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/MonodromySolver/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/MonomialIntegerPrograms/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/NCAlgebra/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/NumericalSchubertCalculus/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/PHCpack/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/Python/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/Parametrization/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/OnlineLookup/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/StatePolytope/examples/ +macaulay2 source: package-does-not-install-examples M2/Macaulay2/packages/Tropical/examples/ diff --git a/source/options b/source/options new file mode 100644 index 0000000..fae5abd --- /dev/null +++ b/source/options @@ -0,0 +1,5 @@ +extend-diff-ignore = "M2/submodules" +extend-diff-ignore = "M2/BUILD" +extend-diff-ignore = "M2/Macaulay2/m2/TAGS.doc" +extend-diff-ignore = "M2/configure" +extend-diff-ignore = "M2/include/M2/config.h.in" diff --git a/tests/check-doc-db.m2 b/tests/check-doc-db.m2 new file mode 100644 index 0000000..7beb74c --- /dev/null +++ b/tests/check-doc-db.m2 @@ -0,0 +1,5 @@ +stdio << "checking if documentation database can be loaded ... " +-- check a key containing a UTF-8 character that is known to cause problems +-- when a gdbm database is loaded on the wrong architecture +if (needsPackage "Macaulay2Doc")#"raw documentation database"#?"Gröbner bases" +then (print "yes"; exit 0) else (print "no"; exit 1) diff --git a/tests/control b/tests/control new file mode 100644 index 0000000..665a44a --- /dev/null +++ b/tests/control @@ -0,0 +1,19 @@ +Test-Command: M2 --silent --check 1 -q --stop -E "exit 0" +Depends: macaulay2 +Restrictions: allow-stderr +Features: test-name=basic-tests + +Test-Command: M2 --check 2 +Depends: 4ti2, gfan, macaulay2, normaliz +Restrictions: allow-stderr +Features: test-name=core-tests + +Test-Command: M2 --check 3 +Depends: 4ti2, cohomcalg, coinor-csdp, gfan, macaulay2, nauty, normaliz, topcom +Restrictions: allow-stderr +Architecture: !armhf +Features: test-name=package-tests + +Test-Command: M2 --script debian/tests/check-doc-db.m2 +Depends: macaulay2 +Features: test-name=database-smoke-test diff --git a/upstream/metadata b/upstream/metadata new file mode 100644 index 0000000..fd4c2ca --- /dev/null +++ b/upstream/metadata @@ -0,0 +1,29 @@ +--- +Repository: https://github.com/Macaulay2/M2 +Bug-Database: https://github.com/Macaulay2/M2/issues +Funding: + - NSF DMS 92-10805 + - NSF DMS 92-10807 + - NSF DMS 96-22608 + - NSF DMS 96-23232 + - NSF DMS 99-70085 + - NSF DMS 99-70348 + - NSF DMS 03-11378 + - NSF DMS 03-11806 + - NSF DMS 08-10918 + - NSF DMS 08-10948 + - NSF DMS 10-02171 + - NSF DMS 10-02210 + - NSF DMS 15-02209 + - NSF DMS 15-02294 + - NSF DMS 20-01206 + - NSF DMS 20-01267 + - NSF DMS 20-01367 +Reference: + Author: Grayson, Daniel R. and Stillman, Michael E. + Title: Macaulay2, a software system for research in algebraic geometry + Type: misc + URL: https://faculty.math.illinois.edu/Macaulay2/ +Webservice: + - http://web.macaulay2.com/ + - https://www.unimelb-macaulay2.cloud.edu.au/ diff --git a/watch b/watch new file mode 100644 index 0000000..e6c5921 --- /dev/null +++ b/watch @@ -0,0 +1,4 @@ +version=4 +opts=dversionmangle=s/@DEB_EXT@//,repacksuffix=+ds,uversionmangle=s/-rc/~rc/ \ +https://github.com/Macaulay2/M2/tags .*/release-@ANY_VERSION@@ARCHIVE_EXT@ \ +debian debian/scripts/m2-tarball-warning.sh