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03/14: gnu: r-bsgenome-hsapiens-1000genomes-hs37d5: Move to (gnu package
From: |
guix-commits |
Subject: |
03/14: gnu: r-bsgenome-hsapiens-1000genomes-hs37d5: Move to (gnu packages bioconductor). |
Date: |
Wed, 6 Mar 2019 15:45:57 -0500 (EST) |
rekado pushed a commit to branch master
in repository guix.
commit 40a650571155933794523279adc435fd7d84fd2a
Author: Ricardo Wurmus <address@hidden>
Date: Wed Mar 6 21:19:21 2019 +0100
gnu: r-bsgenome-hsapiens-1000genomes-hs37d5: Move to (gnu packages
bioconductor).
* gnu/packages/bioinformatics.scm (r-bsgenome-hsapiens-1000genomes-hs37d5):
Move from here...
* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-1000genomes-hs37d5):
...to here.
---
gnu/packages/bioconductor.scm | 31 +++++++++++++++++++++++++++++++
gnu/packages/bioinformatics.scm | 31 -------------------------------
2 files changed, 31 insertions(+), 31 deletions(-)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 316be1c..c1c987e 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -100,6 +100,37 @@ RepeatMasker (RM mask), and (4) the mask of repeats from
Tandem Repeats
Finder (TRF mask). Only the AGAPS and AMB masks are \"active\" by default.")
(license license:artistic2.0)))
+(define-public r-bsgenome-hsapiens-1000genomes-hs37d5
+ (package
+ (name "r-bsgenome-hsapiens-1000genomes-hs37d5")
+ (version "0.99.1")
+ (source (origin
+ (method url-fetch)
+ ;; We cannot use bioconductor-uri here because this tarball is
+ ;; located under "data/annotation/" instead of "bioc/".
+ (uri (string-append "https://www.bioconductor.org/packages/"
+ "release/data/annotation/src/contrib/"
+ "BSgenome.Hsapiens.1000genomes.hs37d5_"
+ version ".tar.gz"))
+ (sha256
+ (base32
+ "1cg0g5fqmsvwyw2p9hp2yy4ilk21jkbbrnpgqvb5c36ihjwvc7sr"))))
+ (properties
+ `((upstream-name . "BSgenome.Hsapiens.1000genomes.hs37d5")))
+ (build-system r-build-system)
+ ;; As this package provides little more than a very large data file it
+ ;; doesn't make sense to build substitutes.
+ (arguments `(#:substitutable? #f))
+ (propagated-inputs
+ `(("r-bsgenome" ,r-bsgenome)))
+ (home-page
+
"https://www.bioconductor.org/packages/BSgenome.Hsapiens.1000genomes.hs37d5/")
+ (synopsis "Full genome sequences for Homo sapiens")
+ (description
+ "This package provides full genome sequences for Homo sapiens from
+1000genomes phase2 reference genome sequence (hs37d5), based on NCBI GRCh37.")
+ (license license:artistic2.0)))
+
(define-public r-bsgenome-hsapiens-ucsc-hg19-masked
(package
(name "r-bsgenome-hsapiens-ucsc-hg19-masked")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 82f45b3..1e0abb3 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7859,37 +7859,6 @@ dependencies between GO terms can be implemented and
applied.")
genome data packages and support for efficient SNP representation.")
(license license:artistic2.0)))
-(define-public r-bsgenome-hsapiens-1000genomes-hs37d5
- (package
- (name "r-bsgenome-hsapiens-1000genomes-hs37d5")
- (version "0.99.1")
- (source (origin
- (method url-fetch)
- ;; We cannot use bioconductor-uri here because this tarball is
- ;; located under "data/annotation/" instead of "bioc/".
- (uri (string-append "https://www.bioconductor.org/packages/"
- "release/data/annotation/src/contrib/"
- "BSgenome.Hsapiens.1000genomes.hs37d5_"
- version ".tar.gz"))
- (sha256
- (base32
- "1cg0g5fqmsvwyw2p9hp2yy4ilk21jkbbrnpgqvb5c36ihjwvc7sr"))))
- (properties
- `((upstream-name . "BSgenome.Hsapiens.1000genomes.hs37d5")))
- (build-system r-build-system)
- ;; As this package provides little more than a very large data file it
- ;; doesn't make sense to build substitutes.
- (arguments `(#:substitutable? #f))
- (propagated-inputs
- `(("r-bsgenome" ,r-bsgenome)))
- (home-page
-
"https://www.bioconductor.org/packages/BSgenome.Hsapiens.1000genomes.hs37d5/")
- (synopsis "Full genome sequences for Homo sapiens")
- (description
- "This package provides full genome sequences for Homo sapiens from
-1000genomes phase2 reference genome sequence (hs37d5), based on NCBI GRCh37.")
- (license license:artistic2.0)))
-
(define-public r-impute
(package
(name "r-impute")
- branch master updated (9f8698a -> 8035819), guix-commits, 2019/03/06
- 03/14: gnu: r-bsgenome-hsapiens-1000genomes-hs37d5: Move to (gnu packages bioconductor).,
guix-commits <=
- 02/14: gnu: r-txdb-hsapiens-ucsc-hg19-knowngene: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 01/14: gnu: r-geneplotter: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 04/14: gnu: r-bsgenome-hsapiens-ucsc-hg19: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 05/14: gnu: r-bsgenome-mmusculus-ucsc-mm9: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 09/14: gnu: r-bsgenome-dmelanogaster-ucsc-dm3: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 10/14: gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 12/14: gnu: r-org-dm-eg-db: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 13/14: gnu: r-org-hs-eg-db: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 14/14: gnu: r-org-mm-eg-db: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06
- 07/14: gnu: r-bsgenome-celegans-ucsc-ce6: Move to (gnu packages bioconductor)., guix-commits, 2019/03/06