[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2022-03-06 Thread Andreas Sturmlechner 
commit: ef367b170487b064ce7cbc74d4140985a471bcf2
Author: Andreas Sturmlechner  gentoo  org>
AuthorDate: Sun Mar  6 16:38:59 2022 +
Commit: Andreas Sturmlechner  gentoo  org>
CommitDate: Sun Mar  6 16:39:46 2022 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ef367b17

sci-chemistry/tm-align: Drop 20150914 (r0)

Closes: https://bugs.gentoo.org/834302
Package-Manager: Portage-3.0.30, Repoman-3.0.3
Signed-off-by: Andreas Sturmlechner  gentoo.org>

 sci-chemistry/tm-align/tm-align-20150914.ebuild | 26 -
 1 file changed, 26 deletions(-)

diff --git a/sci-chemistry/tm-align/tm-align-20150914.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914.ebuild
deleted file mode 100644
index 54a8bacf58f8..
--- a/sci-chemistry/tm-align/tm-align-20150914.ebuild
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit cmake-utils flag-o-matic fortran-2
-
-DESCRIPTION="Quick & Accurate Structural Alignment"
-HOMEPAGE="http://zhanglab.ccmb.med.umich.edu/TM-align/;
-SRC_URI="http://zhanglab.ccmb.med.umich.edu/TM-align/TMtools${PV}.tar.gz;
-
-LICENSE="tm-align"
-SLOT="0"
-KEYWORDS="amd64 ~ppc ppc64 x86 ~amd64-linux ~x86-linux"
-IUSE="custom-cflags static"
-
-S="${WORKDIR}"
-
-src_prepare() {
-   cp "${FILESDIR}"/CMakeLists.txt . || die
-   cmake-utils_src_prepare
-
-   use static && append-fflags -static && append-ldflags -static
-   # recommended by upstream
-   use custom-cflags || replace-flags -O* -O3 && append-fflags -ffast-math
-}

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2022-03-06 Thread Agostino Sarubbo 
commit: 2b0e8054e50fa2948bdb7ef737c4310b497031f3
Author: Agostino Sarubbo  gentoo  org>
AuthorDate: Sun Mar  6 08:53:41 2022 +
Commit: Agostino Sarubbo  gentoo  org>
CommitDate: Sun Mar  6 08:54:13 2022 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=2b0e8054

sci-chemistry/tm-align: x86 stable wrt bug #834302

Package-Manager: Portage-3.0.30, Repoman-3.0.3
RepoMan-Options: --include-arches="x86"
Signed-off-by: Agostino Sarubbo  gentoo.org>

 sci-chemistry/tm-align/tm-align-20150914-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
index 26f21bdc0ba3..0aa8d1461db7 100644
--- a/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
+++ b/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
@@ -12,7 +12,7 @@ S="${WORKDIR}"
 
 LICENSE="tm-align"
 SLOT="0"
-KEYWORDS="amd64 ~ppc ppc64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ~ppc ppc64 x86 ~amd64-linux ~x86-linux"
 IUSE="custom-cflags"
 
 src_prepare() {

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2022-03-06 Thread Agostino Sarubbo 
commit: 70ef12e551e6d7ff251e5d498cd3d50b80a9485e
Author: Agostino Sarubbo  gentoo  org>
AuthorDate: Sun Mar  6 08:51:49 2022 +
Commit: Agostino Sarubbo  gentoo  org>
CommitDate: Sun Mar  6 08:51:49 2022 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=70ef12e5

sci-chemistry/tm-align: ppc64 stable wrt bug #834302

Package-Manager: Portage-3.0.30, Repoman-3.0.3
RepoMan-Options: --include-arches="ppc64"
Signed-off-by: Agostino Sarubbo  gentoo.org>

 sci-chemistry/tm-align/tm-align-20150914-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
index 8af397ca4f1c..26f21bdc0ba3 100644
--- a/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
+++ b/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
@@ -12,7 +12,7 @@ S="${WORKDIR}"
 
 LICENSE="tm-align"
 SLOT="0"
-KEYWORDS="amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ~ppc ppc64 ~x86 ~amd64-linux ~x86-linux"
 IUSE="custom-cflags"
 
 src_prepare() {

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2022-03-06 Thread Agostino Sarubbo 
commit: 646c01198169d22c8246d93d5cab3a0018d4f0cd
Author: Agostino Sarubbo  gentoo  org>
AuthorDate: Sun Mar  6 08:49:46 2022 +
Commit: Agostino Sarubbo  gentoo  org>
CommitDate: Sun Mar  6 08:49:46 2022 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=646c0119

sci-chemistry/tm-align: amd64 stable wrt bug #834302

Package-Manager: Portage-3.0.30, Repoman-3.0.3
RepoMan-Options: --include-arches="amd64"
Signed-off-by: Agostino Sarubbo  gentoo.org>

 sci-chemistry/tm-align/tm-align-20150914-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
index 23c016c77a05..8af397ca4f1c 100644
--- a/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
+++ b/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
@@ -12,7 +12,7 @@ S="${WORKDIR}"
 
 LICENSE="tm-align"
 SLOT="0"
-KEYWORDS="~amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux"
 IUSE="custom-cflags"
 
 src_prepare() {

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2022-02-27 Thread Sam James 
commit: 1489c366aee882be497075a8e99c4218f34d6c15
Author: Sam James  gentoo  org>
AuthorDate: Sun Feb 27 22:52:01 2022 +
Commit: Sam James  gentoo  org>
CommitDate: Sun Feb 27 22:52:01 2022 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1489c366

sci-chemistry/tm-align: update EAPI 6 -> 8

Bug: https://bugs.gentoo.org/834302
Signed-off-by: Sam James  gentoo.org>

 sci-chemistry/tm-align/tm-align-20150914-r1.ebuild | 24 ++
 1 file changed, 24 insertions(+)

diff --git a/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
new file mode 100644
index ..23c016c77a05
--- /dev/null
+++ b/sci-chemistry/tm-align/tm-align-20150914-r1.ebuild
@@ -0,0 +1,24 @@
+# Copyright 1999-2022 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+inherit cmake flag-o-matic fortran-2
+
+DESCRIPTION="Quick & Accurate Structural Alignment"
+HOMEPAGE="https://zhanggroup.org/TM-align/;
+SRC_URI="http://zhanglab.ccmb.med.umich.edu/TM-align/TMtools${PV}.tar.gz;
+S="${WORKDIR}"
+
+LICENSE="tm-align"
+SLOT="0"
+KEYWORDS="~amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="custom-cflags"
+
+src_prepare() {
+   cp "${FILESDIR}"/CMakeLists.txt . || die
+   cmake_src_prepare
+
+   # Recommended by upstream
+   use custom-cflags || replace-flags -O* -O3 && append-fflags -ffast-math
+}

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2018-10-26 Thread Andreas Sturmlechner 
commit: ad0b411a126b5f942def05267959dde2caef12e6
Author: Andreas Sturmlechner  gentoo  org>
AuthorDate: Fri Oct 26 20:26:44 2018 +
Commit: Andreas Sturmlechner  gentoo  org>
CommitDate: Fri Oct 26 20:34:34 2018 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ad0b411a

sci-chemistry/tm-align: Drop old

Signed-off-by: Andreas Sturmlechner  gentoo.org>
Package-Manager: Portage-2.3.51, Repoman-2.3.11

 sci-chemistry/tm-align/Manifest |  1 -
 sci-chemistry/tm-align/tm-align-20140601.ebuild | 26 -
 2 files changed, 27 deletions(-)

diff --git a/sci-chemistry/tm-align/Manifest b/sci-chemistry/tm-align/Manifest
index eff94a12ff6..b5d84e11a3f 100644
--- a/sci-chemistry/tm-align/Manifest
+++ b/sci-chemistry/tm-align/Manifest
@@ -1,2 +1 @@
-DIST TMtools20140601.tar.gz 934391 BLAKE2B 
4dfe18501bfd26b0c12f734175b908f65e97cea9cf2c620c100aa2f68f10fb288c8973c71c9fc6364a635f0275d3a04d7eaffdd5833345dda57e7a318e7c4e5f
 SHA512 
99b90425ff051c836e19225601ddfb1576bec9c8f233aafeba96075f924a3c0892b5b1cfef36254ff5ef468a6dbf64f7fcc9a3ce24a0d869b3c1eb87c0149765
 DIST TMtools20150914.tar.gz 982948 BLAKE2B 
788f43040c1262c7e9eae2b47b0035d320a30fe7194e340d682b78e5961b82e46eef2b0a43d1ae458b9d5da6570f9c0ec0aca51b6ec3e25f0447fd43d629f592
 SHA512 
5fda29f6437ac9b0216a037496a01502de07e5a36736815833cb09217158a959370e750b75c55a54a49c733e4bd28be53b2dcbb25d71e2897273a4280ed3b530

diff --git a/sci-chemistry/tm-align/tm-align-20140601.ebuild 
b/sci-chemistry/tm-align/tm-align-20140601.ebuild
deleted file mode 100644
index a0010e5ebfc..000
--- a/sci-chemistry/tm-align/tm-align-20140601.ebuild
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit cmake-utils flag-o-matic fortran-2
-
-DESCRIPTION="Quick & Accurate Structural Alignment"
-HOMEPAGE="http://zhanglab.ccmb.med.umich.edu/TM-align/;
-SRC_URI="http://zhanglab.ccmb.med.umich.edu/TM-align/TMtools${PV}.tar.gz;
-
-LICENSE="tm-align"
-SLOT="0"
-KEYWORDS="amd64 ppc ppc64 x86 ~amd64-linux ~x86-linux"
-IUSE="static custom-cflags"
-
-S="${WORKDIR}"
-
-src_prepare() {
-   cmake-utils_src_prepare
-
-   cp "${FILESDIR}"/CMakeLists.txt . || die
-   use static && append-fflags -static && append-ldflags -static
-   # recommended by upstream
-   use custom-cflags || replace-flags -O* -O3 && append-fflags -ffast-math
-}

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2018-10-26 Thread Thomas Deutschmann 
commit: fb13b085ab41c98339fab0452e758fbbf34bcc44
Author: Thomas Deutschmann  gentoo  org>
AuthorDate: Fri Oct 26 18:41:39 2018 +
Commit: Thomas Deutschmann  gentoo  org>
CommitDate: Fri Oct 26 18:50:14 2018 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=fb13b085

sci-chemistry/tm-align: x86 stable (bug #668654)

Package-Manager: Portage-2.3.51, Repoman-2.3.11
Signed-off-by: Thomas Deutschmann  gentoo.org>

 sci-chemistry/tm-align/tm-align-20150914.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-chemistry/tm-align/tm-align-20150914.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914.ebuild
index 1f5eb78ed13..26eb0fd6597 100644
--- a/sci-chemistry/tm-align/tm-align-20150914.ebuild
+++ b/sci-chemistry/tm-align/tm-align-20150914.ebuild
@@ -11,7 +11,7 @@ 
SRC_URI="http://zhanglab.ccmb.med.umich.edu/TM-align/TMtools${PV}.tar.gz;
 
 LICENSE="tm-align"
 SLOT="0"
-KEYWORDS="amd64 ppc ppc64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ppc ppc64 x86 ~amd64-linux ~x86-linux"
 IUSE="custom-cflags static"
 
 S="${WORKDIR}"

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2018-10-25 Thread Mikle Kolyada 
commit: 37a64f0de83bf97e7bd0e842f187d785abfb8e6e
Author: Mikle Kolyada  gentoo  org>
AuthorDate: Thu Oct 25 18:20:36 2018 +
Commit: Mikle Kolyada  gentoo  org>
CommitDate: Thu Oct 25 18:21:20 2018 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=37a64f0d

sci-chemistry/tm-align: amd64 stable wrt bug #668654

Signed-off-by: Mikle Kolyada  gentoo.org>
Package-Manager: Portage-2.3.49, Repoman-2.3.11

 sci-chemistry/tm-align/tm-align-20150914.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-chemistry/tm-align/tm-align-20150914.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914.ebuild
index a19b8da0b4c..1f5eb78ed13 100644
--- a/sci-chemistry/tm-align/tm-align-20150914.ebuild
+++ b/sci-chemistry/tm-align/tm-align-20150914.ebuild
@@ -11,7 +11,7 @@ 
SRC_URI="http://zhanglab.ccmb.med.umich.edu/TM-align/TMtools${PV}.tar.gz;
 
 LICENSE="tm-align"
 SLOT="0"
-KEYWORDS="~amd64 ppc ppc64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ppc ppc64 ~x86 ~amd64-linux ~x86-linux"
 IUSE="custom-cflags static"
 
 S="${WORKDIR}"

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2018-10-15 Thread Sergei Trofimovich 
commit: 61e1c60d003403fb2b05ddbbb0357101b17e6a14
Author: Sergei Trofimovich  gentoo  org>
AuthorDate: Mon Oct 15 19:05:32 2018 +
Commit: Sergei Trofimovich  gentoo  org>
CommitDate: Mon Oct 15 19:05:38 2018 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=61e1c60d

sci-chemistry/tm-align: stable 20150914 for ppc/ppc64, bug #668654

Signed-off-by: Sergei Trofimovich  gentoo.org>
Package-Manager: Portage-2.3.51, Repoman-2.3.11
RepoMan-Options: --include-arches="ppc ppc64"

 sci-chemistry/tm-align/tm-align-20150914.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-chemistry/tm-align/tm-align-20150914.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914.ebuild
index f84b13e9e8f..a19b8da0b4c 100644
--- a/sci-chemistry/tm-align/tm-align-20150914.ebuild
+++ b/sci-chemistry/tm-align/tm-align-20150914.ebuild
@@ -11,7 +11,7 @@ 
SRC_URI="http://zhanglab.ccmb.med.umich.edu/TM-align/TMtools${PV}.tar.gz;
 
 LICENSE="tm-align"
 SLOT="0"
-KEYWORDS="~amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="~amd64 ppc ppc64 ~x86 ~amd64-linux ~x86-linux"
 IUSE="custom-cflags static"
 
 S="${WORKDIR}"

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2018-10-14 Thread Andreas Sturmlechner 
commit: c57483ec6b4288705e780c7e023ccb9d23e73e6c
Author: Andreas Sturmlechner  gentoo  org>
AuthorDate: Sun Oct 14 19:39:43 2018 +
Commit: Andreas Sturmlechner  gentoo  org>
CommitDate: Sun Oct 14 19:39:43 2018 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c57483ec

sci-chemistry/tm-align: EAPI-6 bump

Signed-off-by: Andreas Sturmlechner  gentoo.org>
Package-Manager: Portage-2.3.51, Repoman-2.3.11

 sci-chemistry/tm-align/tm-align-20150914.ebuild | 8 
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/sci-chemistry/tm-align/tm-align-20150914.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914.ebuild
index 6732f611eaa..f84b13e9e8f 100644
--- a/sci-chemistry/tm-align/tm-align-20150914.ebuild
+++ b/sci-chemistry/tm-align/tm-align-20150914.ebuild
@@ -1,7 +1,7 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=5
+EAPI=6
 
 inherit cmake-utils flag-o-matic fortran-2
 
@@ -12,14 +12,14 @@ 
SRC_URI="http://zhanglab.ccmb.med.umich.edu/TM-align/TMtools${PV}.tar.gz;
 LICENSE="tm-align"
 SLOT="0"
 KEYWORDS="~amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux"
-IUSE="static custom-cflags"
+IUSE="custom-cflags static"
 
 S="${WORKDIR}"
 
 src_prepare() {
+   cp "${FILESDIR}"/CMakeLists.txt . || die
cmake-utils_src_prepare
 
-   cp "${FILESDIR}"/CMakeLists.txt . || die
use static && append-fflags -static && append-ldflags -static
# recommended by upstream
use custom-cflags || replace-flags -O* -O3 && append-fflags -ffast-math

[gentoo-commits] repo/gentoo:master commit in: sci-chemistry/tm-align/

2015-12-25 Thread Justin Lecher 
commit: 4b18842e8fc7e7ff91d89ef48e0adfa7faa7c1c5
Author: Justin Lecher  gentoo  org>
AuthorDate: Fri Dec 25 10:00:01 2015 +
Commit: Justin Lecher  gentoo  org>
CommitDate: Fri Dec 25 10:00:01 2015 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=4b18842e

sci-chemistry/tm-align: Version Bump

Package-Manager: portage-2.2.26
Signed-off-by: Justin Lecher  gentoo.org>

 sci-chemistry/tm-align/Manifest |  1 +
 sci-chemistry/tm-align/tm-align-20150914.ebuild | 25 +
 2 files changed, 26 insertions(+)

diff --git a/sci-chemistry/tm-align/Manifest b/sci-chemistry/tm-align/Manifest
index d9e8dc8..93b1493 100644
--- a/sci-chemistry/tm-align/Manifest
+++ b/sci-chemistry/tm-align/Manifest
@@ -1 +1,2 @@
 DIST TMtools20140601.tar.gz 934391 SHA256 
5032f7ab1824c8b2191b4a3667e1405feb6ccf7c900f57632aa506fff8ec1bf5 SHA512 
99b90425ff051c836e19225601ddfb1576bec9c8f233aafeba96075f924a3c0892b5b1cfef36254ff5ef468a6dbf64f7fcc9a3ce24a0d869b3c1eb87c0149765
 WHIRLPOOL 
5ba7d9cb71e3055dff62851c68e127314b9ca70c4bbc39aeba35e5a4b02dc0cffeacb52c6369c90875d8062603c830acf604cfc339bdecfeb3dd6c10015e20de
+DIST TMtools20150914.tar.gz 982948 SHA256 
de318e77ac5d7b9bf095bdc1c0d03d5536d6d7099ec2b6a2c201136da9274da4 SHA512 
5fda29f6437ac9b0216a037496a01502de07e5a36736815833cb09217158a959370e750b75c55a54a49c733e4bd28be53b2dcbb25d71e2897273a4280ed3b530
 WHIRLPOOL 
d366aa0d62d11b4af6137f87168c6156257c9e91c76c165ad256115016e571c94dce4235f015b5c0adecc4a8104ea432f53de2bd135332596235c56b9830b19f

diff --git a/sci-chemistry/tm-align/tm-align-20150914.ebuild 
b/sci-chemistry/tm-align/tm-align-20150914.ebuild
new file mode 100644
index 000..e711c75
--- /dev/null
+++ b/sci-chemistry/tm-align/tm-align-20150914.ebuild
@@ -0,0 +1,25 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit cmake-utils flag-o-matic fortran-2
+
+DESCRIPTION="Quick & Accurate Structural Alignment"
+HOMEPAGE="http://zhanglab.ccmb.med.umich.edu/TM-align/;
+SRC_URI="http://zhanglab.ccmb.med.umich.edu/TM-align/TMtools${PV}.tar.gz;
+
+LICENSE="tm-align"
+SLOT="0"
+KEYWORDS="~amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="static custom-cflags"
+
+S="${WORKDIR}"
+
+src_prepare() {
+   cp "${FILESDIR}"/CMakeLists.txt . || die
+   use static && append-fflags -static && append-ldflags -static
+   # recommended by upstream
+   use custom-cflags || replace-flags -O* -O3 && append-fflags -ffast-math
+}