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authorMarkus Dittrich <markusle@gentoo.org>2008-10-11 11:19:37 +0000
committerMarkus Dittrich <markusle@gentoo.org>2008-10-11 11:19:37 +0000
commit603cd6b699aa66f7201c308d6f62bfddbacae4fa (patch)
treedeb6ee45e0cdbe682924722795ae44f8bd313f65 /sci-chemistry
parentStable on sparc, bug #240102 (diff)
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Added missing numpy dependency and fixed LDFLAGS issue (see bug #241178).
Package-Manager: portage-2.2_rc11/cvs/Linux 2.6.26-SENTINEL-2 i686
Diffstat (limited to 'sci-chemistry')
-rw-r--r--sci-chemistry/pdb2pqr/ChangeLog6
-rw-r--r--sci-chemistry/pdb2pqr/Manifest5
-rw-r--r--sci-chemistry/pdb2pqr/files/pdb2pqr-1.3.0-ldflags.patch12
-rw-r--r--sci-chemistry/pdb2pqr/pdb2pqr-1.3.0.ebuild6
4 files changed, 24 insertions, 5 deletions
diff --git a/sci-chemistry/pdb2pqr/ChangeLog b/sci-chemistry/pdb2pqr/ChangeLog
index 698875659358..cbfff3560836 100644
--- a/sci-chemistry/pdb2pqr/ChangeLog
+++ b/sci-chemistry/pdb2pqr/ChangeLog
@@ -1,6 +1,10 @@
# ChangeLog for sci-chemistry/pdb2pqr
# Copyright 1999-2008 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pdb2pqr/ChangeLog,v 1.12 2008/06/19 13:02:12 markusle Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pdb2pqr/ChangeLog,v 1.13 2008/10/11 11:19:36 markusle Exp $
+
+ 11 Oct 2008; Markus Dittrich <markusle@gentoo.org>
+ +files/pdb2pqr-1.3.0-ldflags.patch, pdb2pqr-1.3.0.ebuild:
+ Added missing numpy dependency and fixed LDFLAGS issue (see bug #241178).
19 Jun 2008; Markus Dittrich <markusle@gentoo.org>
+files/pdb2pqr-1.3.0-gcc4.3.patch, pdb2pqr-1.3.0.ebuild:
diff --git a/sci-chemistry/pdb2pqr/Manifest b/sci-chemistry/pdb2pqr/Manifest
index 4a2008710c78..9b4263bf6596 100644
--- a/sci-chemistry/pdb2pqr/Manifest
+++ b/sci-chemistry/pdb2pqr/Manifest
@@ -1,6 +1,7 @@
AUX pdb2pqr-1.1.2-fpic-gentoo.patch 668 RMD160 e076ebcfe1e0fd39ca7b2219b6d9938b6f4870c8 SHA1 38018f5494b21296dfabe02c61824d0af6d6ce36 SHA256 6455be2583ded00bea43f49789cde72cdd240858f187db6d59ed67c87163af45
AUX pdb2pqr-1.1.2-gcc4-gentoo.patch 1104 RMD160 87d7c92e4f24be4f205379acafdc9c41b8e99a9b SHA1 346ed354808f2d902a2d4076e9c41690a83995f5 SHA256 164ae1a21de69ea97f5439a15004d1441fc7d11cbd79cf1c5ab777363b1e3019
AUX pdb2pqr-1.3.0-gcc4.3.patch 349 RMD160 a7e241b288738faaee678609c61968dba990b9a3 SHA1 95e0dcb30e926f0bab2068bff550427a1a3a623e SHA256 4e65916b3370bc3c4690ca9424629a928f9753879939f0ebb881304331fab946
+AUX pdb2pqr-1.3.0-ldflags.patch 803 RMD160 ecc52d97bae89e1a961531eb5e4c87d456e87919 SHA1 ba777c53835045fd4538f3e1104a18d12df8d935 SHA256 8d2cf1f0d206e4162193877dd577ff0835f8e390d779ddfa4b73d30734dede77
AUX pdb2pqr-gcc4-gentoo.patch 627 RMD160 293cd6faa4c9d9a20ca8a708187652c79f106927 SHA1 bad480b23ad7d5e65b3e9c3e249538a180083609 SHA256 afcfb33b59d4feb18f35ebcafea3d759bcb8ba7211dca2b8694df2c9f179363f
AUX pdb2pqr-propka-gentoo.patch 383 RMD160 aba20c68558d3131b9f04b4188c70e42611f013e SHA1 4bfd930bdfd719d22d8f8576949eb68dd35e0036 SHA256 5f75dfd2a72861b46685568ea6c55be0ed055ab5d72d231e328f7f482252101a
DIST pdb2pqr-1.1.2.tar.gz 653600 RMD160 40510384a6b03213d6c857a270d508d4bbefa884 SHA1 89ae9b50e64fc3bbd2a868af01da708fb3f45395 SHA256 ea45ec40b420044e5c7a11744a5db867c544b93d25a8bccf27ebac43cd7d6f94
@@ -8,6 +9,6 @@ DIST pdb2pqr-1.2.1.tar.gz 2090993 RMD160 647aa616703208f81396917b805be1daf3adf18
DIST pdb2pqr-1.3.0.tar.gz 2641989 RMD160 469b38457a10e93ce96c7ea4e580cb4656ba3218 SHA1 e2095a7130ff6114d15466b009cc8ed335d8ffd1 SHA256 7e8a733aacdb76ec8f920b6827ebbc86712044a10c50363535978bc22b7fd413
EBUILD pdb2pqr-1.1.2.ebuild 1848 RMD160 e56dd0be66205cee302fc5c2a8c0caca8adb17ab SHA1 07cc0856bfb50c1648ba4dd1b6c2cb9103943d6d SHA256 995a2a2940b97a7daf18c8a487f5381c2019285b57fe03982969d6406974f1a2
EBUILD pdb2pqr-1.2.1.ebuild 1717 RMD160 a47593b7d6a5a206ed34544719ccc603f9cf5196 SHA1 db42c2869b3bb57f68a51a8efed5871db71a9079 SHA256 8c97db05b9e2bb337d4d8f19eb74119b1bf0edf9882089493ccefd2727ac4c7a
-EBUILD pdb2pqr-1.3.0.ebuild 1904 RMD160 4e4651aab2e32d5c63e5646e64e7ca8b13a9076a SHA1 005366ea17064d38b4bf3094a474c14759835f4d SHA256 ae20708a4f1c21b0a807cd29baf258fb699dfea9b4c793e7ddc9d6881a69257a
-MISC ChangeLog 1924 RMD160 e739cdb86160f6ccc3707fe5371c238cecee1809 SHA1 940dec9ac7e86165d868c3f805fd26ee090b6779 SHA256 8fc78ea4cfec2baabebe60bcae6aeff8e0a607d2e0354f4b58257aa8ebf123be
+EBUILD pdb2pqr-1.3.0.ebuild 1964 RMD160 f8de4ff39d5a84a8234a1a4d43925c8206ac92dc SHA1 98029836ca97f69f6e9566a00583e36f38b3ab18 SHA256 afac4aa248f78fdca198c01e05f3c7bf3bd32228be669e518778423a67d2d4b3
+MISC ChangeLog 2114 RMD160 c8418ec82956b98ff62b69160ff5a3d3842aa1cf SHA1 114adab15d6a0167474748a027e587f81eb7f342 SHA256 760aa2d0dac5d83c4a94e03ccbde3ad69250df3833e7e3ba61973bcbfd99e2d8
MISC metadata.xml 166 RMD160 4452298fd03e7c9395d1182bfe69d60a14144af6 SHA1 cb0b513473c0348f4f6f6cd9a132e4884155fddb SHA256 84c92b49702daf95eace8d2765215cbd8650da4ef776f9f700b5ce3785dec852
diff --git a/sci-chemistry/pdb2pqr/files/pdb2pqr-1.3.0-ldflags.patch b/sci-chemistry/pdb2pqr/files/pdb2pqr-1.3.0-ldflags.patch
new file mode 100644
index 000000000000..57f02f264ba8
--- /dev/null
+++ b/sci-chemistry/pdb2pqr/files/pdb2pqr-1.3.0-ldflags.patch
@@ -0,0 +1,12 @@
+diff -Naur pdb2pqr-1.3.0/propka/Makefile.in pdb2pqr-1.3.0.new/propka/Makefile.in
+--- pdb2pqr-1.3.0/propka/Makefile.in 2007-10-11 18:26:48.000000000 -0400
++++ pdb2pqr-1.3.0.new/propka/Makefile.in 2008-10-11 07:10:51.000000000 -0400
+@@ -169,7 +169,7 @@
+ -test -z "$(noinst_PROGRAMS)" || rm -f $(noinst_PROGRAMS)
+ _propkalib.so$(EXEEXT): $(_propkalib_so_OBJECTS) $(_propkalib_so_DEPENDENCIES)
+ @rm -f _propkalib.so$(EXEEXT)
+- $(_propkalib_so_LINK) $(_propkalib_so_LDFLAGS) $(_propkalib_so_OBJECTS) $(_propkalib_so_LDADD) $(LIBS)
++ $(_propkalib_so_LINK) $(_propkalib_so_LDFLAGS) $(LDFLAGS) $(_propkalib_so_OBJECTS) $(_propkalib_so_LDADD) $(LIBS)
+ propka$(EXEEXT): $(propka_OBJECTS) $(propka_DEPENDENCIES)
+ @rm -f propka$(EXEEXT)
+ $(F77LINK) $(propka_LDFLAGS) $(propka_OBJECTS) $(propka_LDADD) $(LIBS)
diff --git a/sci-chemistry/pdb2pqr/pdb2pqr-1.3.0.ebuild b/sci-chemistry/pdb2pqr/pdb2pqr-1.3.0.ebuild
index 425b8c037469..799ebef3129b 100644
--- a/sci-chemistry/pdb2pqr/pdb2pqr-1.3.0.ebuild
+++ b/sci-chemistry/pdb2pqr/pdb2pqr-1.3.0.ebuild
@@ -1,6 +1,6 @@
# Copyright 1999-2008 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pdb2pqr/pdb2pqr-1.3.0.ebuild,v 1.2 2008/06/19 13:02:12 markusle Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pdb2pqr/pdb2pqr-1.3.0.ebuild,v 1.3 2008/10/11 11:19:36 markusle Exp $
inherit eutils fortran multilib flag-o-matic distutils
@@ -13,7 +13,8 @@ SLOT="0"
IUSE=""
KEYWORDS="~amd64 ~x86"
-DEPEND="dev-lang/python"
+DEPEND="dev-lang/python
+ dev-python/numpy"
FORTRAN="g77 gfortran"
@@ -21,6 +22,7 @@ src_unpack() {
unpack ${A}
cd "${S}"
epatch "${FILESDIR}"/${P}-gcc4.3.patch
+ epatch "${FILESDIR}"/${P}-ldflags.patch
}
src_compile() {