dev-perl/PDL: add 2.87.0

* Drop USE=threads. Tests fail to compile with USE=-threads with:
  ```
  Basic/SourceFilter/../../blib/arch/auto/PDL/Core/Core.so: undefined symbol: pdl_pthread_free at /usr/lib64/perl5/5.38/x86_64-linux/DynaLoader.pm line 206.
  ```

  and configure loudly warns too:
  ```
        pthread disabled in perldl.conf
PDL will be built without POSIX thread support.
        ==> *NOTE*: PDL threads are unrelated to perl threads (usethreads=y)!
        ==> Enabling perl threads will not help!
  ```

  Just drop it. I don't see the value in it here. See net-misc/curl's
  bd4d42f83c774c36bf879a5b7ec89d373546743e for the general rationale in killing
  USE=threads.

* Drop now-obsolete LTO filtering as it was fixed in the last release after
  Eli reported it upstream, yay!

Bug: https://bugs.gentoo.org/856406
Signed-off-by: Sam James <sam@gentoo.org>

3 files changed, 167 insertions, 0 deletions

diff --git a/dev-perl/PDL/Manifest b/dev-perl/PDL/Manifest
index 720e78ada332..64e2a2275716 100644
--- a/dev-perl/PDL/Manifest
+++ b/dev-perl/PDL/Manifest
@@ -1 +1,2 @@
 DIST PDL-2.063.tar.gz 2813482 BLAKE2B eff1737c2d27a51b911f8dd32095bb3016cddf52a93242ddad9fad3e179cd499d84b17ef1fbed4e11bdc759823032636cc32994eea2b8c91c6adda7cb1f15ef9 SHA512 dfb776103fa98da990cc30939e218b392c7c25c8c645230a71c7e881cf5325c97f855fe46e9bc093c7517883f78457f67eee14012fa5b39790b8dfcfa1ec08c9
+DIST PDL-2.087.tar.gz 2980457 BLAKE2B 8a29b78e49bff5f682e460abf452f725b811ec0929bf8419050d62c868b51007a2d234c171b6a4435fa0c0f9e10f41e15dfc7507f9eabac7fc00f0d44a28ea36 SHA512 3c046cff3cba25d14b062041b3abc195a2995473b3e3e97428db0a06d5b9630079f7d9d12288aa1f2f95f9c562ee3079a7f17703abe947fb8bab5f0a5282e609
diff --git a/dev-perl/PDL/PDL-2.87.0.ebuild b/dev-perl/PDL/PDL-2.87.0.ebuild
new file mode 100644
index 000000000000..879802e954cd
--- /dev/null
+++ b/dev-perl/PDL/PDL-2.87.0.ebuild
@@ -0,0 +1,140 @@
+# Copyright 1999-2024 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+DIST_AUTHOR=ETJ
+DIST_VERSION=2.087
+DIST_EXAMPLES=( "Example/*" )
+
+FORTRAN_NEEDED=fortran
+
+inherit perl-module fortran-2
+
+DESCRIPTION="Perl Data Language for scientific computing"
+
+LICENSE="|| ( Artistic GPL-1+ ) public-domain PerlDL"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE="+badval doc fortran gd gsl hdf netpbm pdl2 pgplot test"
+
+RDEPEND="
+	sys-libs/ncurses:=
+	app-arch/sharutils
+	dev-perl/Astro-FITS-Header
+	dev-perl/Convert-UU
+	>=virtual/perl-Data-Dumper-2.121.0
+	>=dev-perl/File-Map-0.570.0
+	>=virtual/perl-Filter-Simple-0.880.0
+	dev-perl/Filter
+	dev-perl/File-Which
+	>=dev-perl/Inline-0.830.0
+	>=dev-perl/Inline-C-0.620.0
+	>=virtual/perl-Scalar-List-Utils-1.330.0
+	virtual/perl-Math-Complex
+	dev-perl/Module-Compile
+	>=dev-perl/OpenGL-0.700.0
+	dev-perl/OpenGL-GLUT
+	>=dev-perl/TermReadKey-2.340.0
+	|| ( dev-perl/Term-ReadLine-Perl dev-perl/Term-ReadLine-Gnu )
+	>=virtual/perl-Data-Dumper-2.121.0
+	dev-perl/Pod-Parser
+	virtual/perl-File-Spec
+	virtual/perl-File-Temp
+	virtual/perl-Filter-Simple
+	virtual/perl-Storable
+	>=virtual/perl-Text-Balanced-2.50.0
+	fortran? ( >=dev-perl/ExtUtils-F77-1.260.0 )
+	gd? ( media-libs/gd )
+	gsl? ( sci-libs/gsl )
+	hdf? (
+		sci-libs/hdf
+		dev-perl/Alien-HDF4
+	)
+	netpbm? (
+		media-libs/netpbm
+		media-video/ffmpeg
+	)
+	pdl2? (
+		>=dev-perl/Devel-REPL-1.3.11
+		|| ( dev-perl/Term-ReadLine-Perl dev-perl/Term-ReadLine-Gnu )
+	)
+	pgplot? ( dev-perl/PGPLOT )
+"
+DEPEND="
+	${RDEPEND}
+"
+
+BDEPEND="
+	${RDEPEND}
+	>=virtual/perl-Carp-1.200.0
+	>=dev-perl/Devel-CheckLib-1.10.0
+	>=dev-perl/ExtUtils-Depends-0.402.0
+	>=virtual/perl-ExtUtils-MakeMaker-7.120.0
+	>=virtual/perl-ExtUtils-ParseXS-3.10.0
+	virtual/perl-File-Path
+	fortran? ( >=dev-perl/ExtUtils-F77-1.130.0 )
+	test? (
+		dev-perl/Test-Exception
+		dev-perl/Test-Warn
+		dev-perl/Test-Deep
+	)
+"
+
+mydoc="BUGS DEPENDENCIES DEVELOPMENT Known_problems MANIFEST* Release_Notes"
+
+PATCHES=(
+	# Respect user choice for fortran compiler+flags, add pic
+	"${FILESDIR}"/${PN}-2.87.0-fortran.patch
+)
+
+pkg_setup() {
+	perl_set_version
+	use fortran && fortran-2_pkg_setup
+}
+
+src_prepare() {
+	perl-module_src_prepare
+	find . -name Makefile.PL -exec \
+		sed -i -e "s|/usr|${EPREFIX}/usr|g" {} \; || die
+}
+
+src_configure() {
+	sed -i \
+		-e '/USE_POGL/s/=>.*/=> 1,/' \
+		-e "/WITH_3D/s/=>.*/=> 1,/" \
+		-e "/HTML_DOCS/s/=>.*/=> $(use doc && echo 1 || echo 0),/" \
+		-e "/WITH_BADVAL/s/=>.*/=> $(use badval && echo 1|| echo 0),/" \
+		-e "/WITH_DEVEL_REPL/s/=>.*/=> $(use pdl2 && echo 1 || echo 0),/" \
+		-e "/WITH_GSL/s/=>.*/=> $(use gsl && echo 1 || echo 0),/" \
+		-e "/WITH_GD/s/=>.*/=> $(use gd && echo 1 || echo 0),/" \
+		-e "/WITH_HDF/s/=>.*/=> $(use hdf && echo 1 || echo 0),/" \
+		-e "/WITH_MINUIT/s/=>.*/=> $(use fortran && echo 1|| echo 0),/" \
+		-e "/WITH_PGPLOT/s/=>.*/=> $(use pgplot && echo 1 || echo 0),/" \
+		-e "/WITH_POSIX_THREADS/s/=>.*/=> 1,/" \
+		-e "/WITH_PROJ/s/=>.*/=> $(echo 0),/" \
+		-e "/WITH_SLATEC/s/=>.*/=> $(use fortran && echo 1|| echo 0),/" \
+		perldl.conf || die
+	perl-module_src_configure
+}
+
+src_test() {
+	MAKEOPTS+=" -j1" perl-module_src_test
+}
+
+src_install() {
+	perl-module_src_install
+	cp Doc/scantree.pl "${D}"/${VENDOR_ARCH}/PDL/Doc || die
+}
+
+pkg_postinst() {
+	perl "${VENDOR_ARCH}/PDL/Doc/scantree.pl" || die
+	elog "Building perldl.db done. You can recreate this at any time"
+	elog "by running:"
+	elog "perl ${VENDOR_ARCH}/PDL/Doc/scantree.pl"
+}
+
+pkg_prerm() {
+	rm -rf "${EROOT}"/var/lib/pdl/html
+	rm -f  "${EROOT}"/var/lib/pdl/{pdldoc.db,Index.pod}
+}
diff --git a/dev-perl/PDL/files/PDL-2.87.0-fortran.patch b/dev-perl/PDL/files/PDL-2.87.0-fortran.patch
new file mode 100644
index 000000000000..96a676e970eb
--- /dev/null
+++ b/dev-perl/PDL/files/PDL-2.87.0-fortran.patch
@@ -0,0 +1,26 @@
+diff --git a/Libtmp/Minuit/Makefile.PL b/Libtmp/Minuit/Makefile.PL
+index bd2c933..2268225 100644
+--- a/Libtmp/Minuit/Makefile.PL
++++ b/Libtmp/Minuit/Makefile.PL
+@@ -125,7 +125,7 @@ undef &MY::postamble; # suppress warning
+ 	$orig .= "FFLAGS = $hack_64bit $mycflags \$(OPTIMIZE)\n";
+ 	$orig .= join "\n",map {
+ 	    ("minuitlib/$_\$(OBJ_EXT): minuitlib/$_.f
+-	$mycompiler -c \$(FFLAGS) -o minuitlib/$_\$(OBJ_EXT) minuitlib/$_.f
++	\$(FC) \$(FFLAGS) -fPIC -c -o minuitlib/$_\$(OBJ_EXT) $mycflags minuitlib/$_.f
+ " )} @minuitfiles;
+ 	return $orig;
+ };
+diff --git a/Libtmp/Slatec/Makefile.PL b/Libtmp/Slatec/Makefile.PL
+index 443d53b..b4675f7 100644
+--- a/Libtmp/Slatec/Makefile.PL
++++ b/Libtmp/Slatec/Makefile.PL
+@@ -85,7 +85,7 @@ undef &MY::postamble; # suppress warning
+ 	$orig =~ s/:\s*slatec\.pd/: slatec.pd/;
+ 	$orig .= "FFLAGS = $hack_64bit $mycflags \$(OPTIMIZE)\n";
+ 	join "\n", $orig, map "$_\$(OBJ_EXT): $_.f
+-	$mycompiler -c \$(FFLAGS) -o $_\$(OBJ_EXT) $_.f", @slatecfiles;
++	\$(FC) \$(FFLAGS) -c -fPIC -o $_\$(OBJ_EXT) $mycflags $_.f", @slatecfiles;
+ };
+ 
+ # Remove i386 option for OS X recent versions for better build, dual arch does not work anyway