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authorEfraim Flashner2021-01-17 12:30:27 +0200
committerEfraim Flashner2021-01-17 12:30:53 +0200
commitfa6fd8f305a3a74cbdf2741a7195dd1c9a534ad1 (patch)
treef52f94ac6392c779ee293cd8dfc975f7ce38eb45
parent8ceb607527db5132b6106325b848f38502cecd5d (diff)
downloadguix-bioinformatics-fa6fd8f305a3a74cbdf2741a7195dd1c9a534ad1.tar.gz
gn: update bio-ruby
-rw-r--r--gn/packages/ruby.scm47
1 files changed, 24 insertions, 23 deletions
diff --git a/gn/packages/ruby.scm b/gn/packages/ruby.scm
index d0ab953..4aec059 100644
--- a/gn/packages/ruby.scm
+++ b/gn/packages/ruby.scm
@@ -95,30 +95,31 @@ a focus on simplicity and productivity.")
(home-page "https://ruby-lang.org")
(license license:ruby)))
-(define-public bio-vcf ; guix ready with tests
+(define-public bio-vcf ; guix ready, minus tests not passing
(package
- (name "bio-vcf")
- (version "0.9.2")
- (source
- (origin
- (method url-fetch)
- (uri (rubygems-uri "bio-vcf" version))
- (sha256
- (base32
- "1007bn0w8l11q867lxsyqnk0vgvv12skvk9gyglv7g44knr5vh4j"))))
- (build-system ruby-build-system)
- (arguments
- `(#:tests? #f ; There are no tests.
- ))
- (synopsis
- "Smart lazy multi-threaded parser for VCF format with useful
-filtering and output rewriting (JSON, RDF etc.)")
- (description
- "Smart lazy multi-threaded parser for VCF format with useful
-filtering and output rewriting (JSON, RDF etc.)")
- (home-page
- "http://github.com/pjotrp/bioruby-vcf")
- (license expat)))
+ (name "bio-vcf")
+ (version "0.9.4")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (rubygems-uri "bio-vcf" version))
+ (sha256
+ (base32
+ "1xpll1pnpr5jxjdyydfw79ydz6l6lfhy6fg2gys8s3my9vwaf3ld"))))
+ (build-system ruby-build-system)
+ (native-inputs
+ `(("ruby-cucumber" ,ruby-cucumber)
+ ("ruby-rake" ,ruby-rake)))
+ (synopsis "Smart VCF parser DSL")
+ (description
+ "Bio-vcf provides a @acronym{DSL, domain specific language} for processing
+the VCF format. Record named fields can be queried with regular expressions.
+Bio-vcf is a new generation VCF parser, filter and converter. Bio-vcf is not
+only very fast for genome-wide (WGS) data, it also comes with a filtering,
+evaluation and rewrite language and can output any type of textual data,
+including VCF header and contents in RDF and JSON.")
+ (home-page "http://github.com/vcflib/bio-vcf")
+ (license license:expat)))
(define-public bio-table ; guix ready with tests
(package