| 1 |
commit: 3a228937d5822bfdefd17539f8089eac13f427ef |
| 2 |
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
| 3 |
AuthorDate: Tue Jul 12 16:16:10 2016 +0000 |
| 4 |
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
| 5 |
CommitDate: Tue Jul 12 16:16:10 2016 +0000 |
| 6 |
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=3a228937 |
| 7 |
|
| 8 |
sci-biology/conrad: document more issues with the ebuild |
| 9 |
|
| 10 |
Package-Manager: portage-2.2.28 |
| 11 |
|
| 12 |
sci-biology/conrad/conrad-1.ebuild | 7 +++++-- |
| 13 |
1 file changed, 5 insertions(+), 2 deletions(-) |
| 14 |
|
| 15 |
diff --git a/sci-biology/conrad/conrad-1.ebuild b/sci-biology/conrad/conrad-1.ebuild |
| 16 |
index f9e19a1..983be76 100644 |
| 17 |
--- a/sci-biology/conrad/conrad-1.ebuild |
| 18 |
+++ b/sci-biology/conrad/conrad-1.ebuild |
| 19 |
@@ -6,7 +6,7 @@ EAPI=5 |
| 20 |
|
| 21 |
inherit java-pkg-2 java-ant-2 |
| 22 |
|
| 23 |
-DESCRIPTION="Gene predictor using ab initio and ad hoc evidence (RNA-Seq, BLAST) on gDNA" |
| 24 |
+DESCRIPTION="Ab initio- and ad hoc evidence-based (RNA-Seq, BLAST) gene/ORF predictor" |
| 25 |
HOMEPAGE="http://www.broadinstitute.org/annotation/conrad |
| 26 |
http://sourceforge.net/projects/conradcrf" |
| 27 |
SRC_URI="http://www.broadinstitute.org/annotation/conrad/conradSrcV1.zip" |
| 28 |
@@ -16,17 +16,20 @@ SLOT="0" |
| 29 |
KEYWORDS="" |
| 30 |
IUSE="" |
| 31 |
|
| 32 |
+# upstream binaries do not work with oracle-java-8 |
| 33 |
RDEPEND=" |
| 34 |
>=virtual/jre-1.5:* |
| 35 |
+ <=virtual/jre-1.7:* |
| 36 |
dev-java/commons-logging |
| 37 |
>=dev-java/commons-lang-2.1:* |
| 38 |
dev-java/colt |
| 39 |
dev-java/dom4j |
| 40 |
" |
| 41 |
# spring # see bug #97004 |
| 42 |
- # LBFGS |
| 43 |
+ # dev-java/LBFGS # LBFGS is a numericla library we use internally for the solver |
| 44 |
DEPEND="${RDEPEND} |
| 45 |
>=virtual/jdk-1.5:* |
| 46 |
+ <=virtual/jdk-1.7:* |
| 47 |
dev-java/ant-core |
| 48 |
>=dev-java/jfreechart-1.0.3 |
| 49 |
>=dev-java/jcommon-1.0.6 |
Archives