1 |
commit: e97b1a4d5fa82dd7d9e03ad46cc4aca4c1d52eb8 |
2 |
Author: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org> |
3 |
AuthorDate: Tue Aug 31 09:23:41 2021 +0000 |
4 |
Commit: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org> |
5 |
CommitDate: Tue Aug 31 09:23:41 2021 +0000 |
6 |
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=e97b1a4d |
7 |
|
8 |
sci-chemistry/talosn: remove last-rited pack |
9 |
|
10 |
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org> |
11 |
|
12 |
profiles/package.mask | 9 --- |
13 |
sci-chemistry/talosn/metadata.xml | 8 --- |
14 |
.../talosn/talosn-4.12.2015.147.15.40.ebuild | 68 ---------------------- |
15 |
3 files changed, 85 deletions(-) |
16 |
|
17 |
diff --git a/profiles/package.mask b/profiles/package.mask |
18 |
index 789da8f84..d39812beb 100644 |
19 |
--- a/profiles/package.mask |
20 |
+++ b/profiles/package.mask |
21 |
@@ -29,12 +29,3 @@ |
22 |
## app-misc/some-package |
23 |
|
24 |
#--- END OF EXAMPLES --- |
25 |
- |
26 |
-# Andrew Ammerlaan <andrewammerlaan@g.o> (02 Aug 2021) |
27 |
-# These packages depend on ncbi-tools which is being removed from ::gentoo: |
28 |
-# Last release 10 years ago, EOL upstream, no other distro packages this |
29 |
-# anymore, tons of bugs. Revdeps are unmaintained too and out of date. |
30 |
-# Bug #798015, removal in 30 days. |
31 |
-# Perhaps these packages work with the newer ncbi-tools++? If anyone is actively |
32 |
-# using these packages please open a bug report |
33 |
-sci-chemistry/talosn |
34 |
|
35 |
diff --git a/sci-chemistry/talosn/metadata.xml b/sci-chemistry/talosn/metadata.xml |
36 |
deleted file mode 100644 |
37 |
index da36ecbfc..000000000 |
38 |
--- a/sci-chemistry/talosn/metadata.xml |
39 |
+++ /dev/null |
40 |
@@ -1,8 +0,0 @@ |
41 |
-<?xml version="1.0" encoding="UTF-8"?> |
42 |
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
43 |
-<pkgmetadata> |
44 |
- <maintainer type="project"> |
45 |
- <email>sci-chemistry@g.o</email> |
46 |
- <name>Gentoo Chemistry Project</name> |
47 |
- </maintainer> |
48 |
-</pkgmetadata> |
49 |
|
50 |
diff --git a/sci-chemistry/talosn/talosn-4.12.2015.147.15.40.ebuild b/sci-chemistry/talosn/talosn-4.12.2015.147.15.40.ebuild |
51 |
deleted file mode 100644 |
52 |
index 1fbcea875..000000000 |
53 |
--- a/sci-chemistry/talosn/talosn-4.12.2015.147.15.40.ebuild |
54 |
+++ /dev/null |
55 |
@@ -1,68 +0,0 @@ |
56 |
-# Copyright 1999-2021 Gentoo Authors |
57 |
-# Distributed under the terms of the GNU General Public License v2 |
58 |
- |
59 |
-EAPI=7 |
60 |
- |
61 |
-inherit java-pkg-opt-2 |
62 |
- |
63 |
-DESCRIPTION="Prediction of Protein bb and sc Torsion Angles from NMR Chemical Shifts" |
64 |
-HOMEPAGE="https://spin.niddk.nih.gov/bax/software/TALOS-N/" |
65 |
-SRC_URI="https://spin.niddk.nih.gov/bax/software/TALOS-N/talosn.tZ -> ${P}.tgz" |
66 |
- |
67 |
-SLOT="0" |
68 |
-LICENSE="all-rights-reserved" |
69 |
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" |
70 |
-IUSE="examples" |
71 |
- |
72 |
-DEPEND=">=virtual/jre-1.5:*" |
73 |
-RDEPEND="${DEPEND} |
74 |
- app-shells/tcsh |
75 |
- sci-biology/ncbi-tools" |
76 |
- |
77 |
-S="${WORKDIR}" |
78 |
- |
79 |
-QA_PREBUILT="/opt/.*" |
80 |
- |
81 |
-src_prepare() { |
82 |
- default |
83 |
- local s64 |
84 |
- use amd64 || s64="_x64" |
85 |
- rm -f bin/TALOSN.{linux,mac,static.*,winxp,linux9${s64}} || die |
86 |
- |
87 |
- sed \ |
88 |
- -e '/setenv TALOSN_DIR/d' \ |
89 |
- -e "/set BLAST/s:=.*:= \"${EPREFIX}/usr/bin/blastpgp\":g" \ |
90 |
- -e '/set NR_DBNAME/s:=.*:= ${BLASTDB}:g' \ |
91 |
- -i talosn_ss || die |
92 |
-} |
93 |
- |
94 |
-src_install() { |
95 |
- local TALOSN="/opt/${PN}" |
96 |
- exeinto ${TALOSN}/bin |
97 |
- doexe bin/* |
98 |
- |
99 |
- exeinto ${TALOSN}/com |
100 |
- doexe com/* |
101 |
- |
102 |
- exeinto /opt/bin |
103 |
- doexe talosn{,_ss} |
104 |
- |
105 |
- insinto ${TALOSN} |
106 |
- doins -r tab |
107 |
- |
108 |
- java-pkg_jarinto ${TALOSN} |
109 |
- java-pkg_dojar rama.jar |
110 |
- |
111 |
- java-pkg_dolauncher jrama --jar rama.jar -into /opt/ |
112 |
- |
113 |
- if use examples; then |
114 |
- insinto /usr/share/${PN} |
115 |
- doins -r demo |
116 |
- fi |
117 |
- |
118 |
- cat >> "${T}"/40talosn <<- EOF |
119 |
- TALOSN_DIR="${EPREFIX}/${TALOSN}" |
120 |
- #BLASTDB= |
121 |
- EOF |
122 |
- doenvd "${T}"/40talosn |
123 |
-} |