diff options
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 33 |
1 files changed, 7 insertions, 26 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 719ede495b..92bc532196 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -7237,25 +7237,6 @@ BLAST, KEGG, GenBank, MEDLINE and GO.") ;; (LGPLv2.1+) and scripts in samples (which have GPL2 and GPL2+) (license (list license:ruby license:lgpl2.1+ license:gpl2+ )))) -(define-public r-biocinstaller - (package - (name "r-biocinstaller") - (version "1.32.1") - (source (origin - (method url-fetch) - (uri (bioconductor-uri "BiocInstaller" version)) - (sha256 - (base32 - "1s1f9qhyf3mc73ir25x2zlgi9hf45a37lg4z8fbva4i21hqisgsl")))) - (properties - `((upstream-name . "BiocInstaller"))) - (build-system r-build-system) - (home-page "https://bioconductor.org/packages/BiocInstaller") - (synopsis "Install Bioconductor packages") - (description "This package is used to install and update R packages from -Bioconductor, CRAN, and Github.") - (license license:artistic2.0))) - (define-public r-biocviews (package (name "r-biocviews") @@ -13622,10 +13603,10 @@ sequencing data.") (define-public r-xbioc (let ((revision "1") - (commit "f798c187e376fd1ba27abd559f47bbae7e3e466b")) + (commit "6ff0670a37ab3036aaf1d94aa4b208310946b0b5")) (package (name "r-xbioc") - (version (git-version "0.1.15" revision commit)) + (version (git-version "0.1.16" revision commit)) (source (origin (method git-fetch) (uri (git-reference @@ -13634,13 +13615,13 @@ sequencing data.") (file-name (git-file-name name version)) (sha256 (base32 - "03hffh2f6z71y6l6dqpa5cql3hdaw7zigdi8sm2dzgx379k9rgrr")))) + "0w8bsq5myiwkfhh83nm6is5ichiyvwa1axx2szvxnzq39x6knf66")))) (build-system r-build-system) (propagated-inputs `(("r-annotationdbi" ,r-annotationdbi) ("r-assertthat" ,r-assertthat) ("r-biobase" ,r-biobase) - ("r-biocinstaller" ,r-biocinstaller) + ("r-biocmanager" ,r-biocmanager) ("r-digest" ,r-digest) ("r-pkgmaker" ,r-pkgmaker) ("r-plyr" ,r-plyr) @@ -14067,11 +14048,11 @@ choosing which reads pass the filter.") ;; <https://github.com/jts/nanopolish#installing-a-particular-release>. ;; Also, the differences between release and current version seem to be ;; significant. - (let ((commit "50e8b5cc62f9b46f5445f5c5e8c5ab7263ea6d9d") + (let ((commit "6331dc4f15b9dfabb954ba3fae9d76b6c3ca6377") (revision "1")) (package (name "nanopolish") - (version (git-version "0.10.2" revision commit)) + (version (git-version "0.11.1" revision commit)) (source (origin (method git-fetch) @@ -14081,7 +14062,7 @@ choosing which reads pass the filter.") (recursive? #t))) (file-name (git-file-name name version)) (sha256 - (base32 "09j5gz57yr9i34a27vbl72i4g8syv2zzgmsfyjq02yshmnrvkjs6")) + (base32 "15ikl3d37y49pwd7vx36xksgsqajhf24q7qqsnpl15dqqyy5qgbc")) (modules '((guix build utils))) (snippet '(begin |