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12/17: gnu: Add java-biojava-phylo-4.0.
From: |
Ricardo Wurmus |
Subject: |
12/17: gnu: Add java-biojava-phylo-4.0. |
Date: |
Sat, 3 Mar 2018 15:28:37 -0500 (EST) |
rekado pushed a commit to branch master
in repository guix.
commit 5528f9e8f09f4a63b40647d61ec100c4c5326b3b
Author: Ricardo Wurmus <address@hidden>
Date: Thu Mar 1 19:41:44 2018 +0100
gnu: Add java-biojava-phylo-4.0.
* gnu/packages/bioinformatics.scm (java-biojava-phylo-4.0): New variable.
---
gnu/packages/bioinformatics.scm | 36 ++++++++++++++++++++++++++++++++++++
1 file changed, 36 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 2f5413b..37647a9 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -12270,3 +12270,39 @@ contains
(sha256
(base32
"13675f6y9aqi7bi2lk3s1z7a22ynccjiqwa8izh7p97xi9wsfmd8"))))))
+
+(define-public java-biojava-phylo-4.0
+ (package (inherit java-biojava-core-4.0)
+ (name "java-biojava-phylo")
+ (build-system ant-build-system)
+ (arguments
+ `(#:jdk ,icedtea-8
+ #:jar-name "biojava-phylo.jar"
+ #:source-dir "biojava-phylo/src/main/java/"
+ #:test-dir "biojava-phylo/src/test"
+ #:phases
+ (modify-phases %standard-phases
+ (add-before 'build 'copy-resources
+ (lambda _
+ (copy-recursively "biojava-phylo/src/main/resources"
+ "build/classes")
+ #t))
+ (add-before 'check 'copy-test-resources
+ (lambda _
+ (copy-recursively "biojava-phylo/src/test/resources"
+ "build/test-classes")
+ #t)))))
+ (propagated-inputs
+ `(("java-log4j-api" ,java-log4j-api)
+ ("java-log4j-core" ,java-log4j-core)
+ ("java-slf4j-api" ,java-slf4j-api)
+ ("java-slf4j-simple" ,java-slf4j-simple)
+ ("java-biojava-core" ,java-biojava-core-4.0)
+ ("java-forester" ,java-forester-1.005)))
+ (native-inputs
+ `(("java-junit" ,java-junit)
+ ("java-hamcrest-core" ,java-hamcrest-core)))
+ (home-page "http://biojava.org")
+ (synopsis "Biojava interface to the forester phylogenomics library")
+ (description "The phylo module provides a biojava interface layer to the
+forester phylogenomics library for constructing phylogenetic trees.")))
- 05/17: gnu: Add java-biojava-core., (continued)
- 05/17: gnu: Add java-biojava-core., Ricardo Wurmus, 2018/03/03
- 06/17: gnu: Add java-openchart2., Ricardo Wurmus, 2018/03/03
- 04/17: gnu: Add java-jdistlib., Ricardo Wurmus, 2018/03/03
- 09/17: gnu: Add java-biojava-phylo., Ricardo Wurmus, 2018/03/03
- 08/17: gnu: Add java-forester-1.005., Ricardo Wurmus, 2018/03/03
- 01/17: gnu: Add java-la4j., Ricardo Wurmus, 2018/03/03
- 14/17: gnu: Add java-htsjdk-latest., Ricardo Wurmus, 2018/03/03
- 07/17: gnu: Add java-forester., Ricardo Wurmus, 2018/03/03
- 11/17: gnu: Add java-biojava-core-4.0., Ricardo Wurmus, 2018/03/03
- 10/17: gnu: Add java-biojava-alignment., Ricardo Wurmus, 2018/03/03
- 12/17: gnu: Add java-biojava-phylo-4.0.,
Ricardo Wurmus <=
- 13/17: gnu: Add java-biojava-alignment-4.0., Ricardo Wurmus, 2018/03/03
- 16/17: gnu: Add java-picard-2.10.3., Ricardo Wurmus, 2018/03/03
- 15/17: gnu: Add java-htsjdk-2.10.1., Ricardo Wurmus, 2018/03/03
- 17/17: gnu: Add dropseq-tools., Ricardo Wurmus, 2018/03/03