diff options
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 36 |
1 files changed, 36 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index b5c557bb95..4c4eedba2b 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1087,6 +1087,42 @@ any particular back-end implementation, and supports use of multiple back-ends simultaneously.") (license license:public-domain))) +(define-public ngs-java + (package (inherit ngs-sdk) + (name "ngs-java") + (arguments + `(,@(substitute-keyword-arguments + `(#:modules ((guix build gnu-build-system) + (guix build utils) + (srfi srfi-1) + (srfi srfi-26)) + ,@(package-arguments ngs-sdk)) + ((#:phases phases) + `(alist-cons-after + 'enter-dir 'fix-java-symlink-installation + (lambda _ + ;; Only replace the version suffix, not the version number in + ;; the directory name. Reported here: + ;; https://github.com/ncbi/ngs/pull/4 + (substitute* "Makefile.java" + (((string-append "\\$\\(subst " + "(\\$\\(VERSION[^\\)]*\\))," + "(\\$\\([^\\)]+\\))," + "(\\$\\([^\\)]+\\)|\\$\\@)" + "\\)") + _ pattern replacement target) + (string-append "$(patsubst " + "%" pattern "," + "%" replacement "," + target ")")))) + (alist-replace + 'enter-dir (lambda _ (chdir "ngs-java") #t) + ,phases)))))) + (inputs + `(("jdk" ,icedtea6 "jdk") + ("ngs-sdk" ,ngs-sdk))) + (synopsis "Java bindings for NGS SDK"))) + (define-public seqan (package (name "seqan") |