summaryrefslogtreecommitdiff
path: root/gnu/packages/bioinformatics.scm
diff options
context:
space:
mode:
authorRicardo Wurmus <rekado@elephly.net>2020-12-07 16:44:23 +0100
committerRicardo Wurmus <rekado@elephly.net>2020-12-09 12:12:48 +0100
commit4617cc7fd509cc73703e5b273c634f995bb69a5d (patch)
treec081999937b6c7e533600ce5805cbfaa94673af6 /gnu/packages/bioinformatics.scm
parent7601015fc9d51a2f2ecdd676bcae51ed7121d30d (diff)
gnu: r-rhtslib: Propagate zlib.
* gnu/packages/bioinformatics.scm (r-rhtslib)[inputs]: Move zlib from here... [propagated-inputs]: ...to here. (r-variantannotation, r-rsamtools, r-bamsignals, r-rhdf5, r-methylkit)[inputs]: Remove zlib. * gnu/packages/bioconductor.scm (r-diffbind, r-quasr, r-cytolib, r-ncdfflow, r-flowworkspace, r-seqbias)[inputs]: Remove zlib.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
-rw-r--r--gnu/packages/bioinformatics.scm13
1 files changed, 1 insertions, 12 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 9cf5c0acab..9edf75a82c 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7980,8 +7980,6 @@ CAGE.")
"1sl0l6v05lfglj281nszma0h5k234md7rn2pdah8vs2d4iq3kimw"))))
(properties
`((upstream-name . "VariantAnnotation")))
- (inputs
- `(("zlib" ,zlib)))
(propagated-inputs
`(("r-annotationdbi" ,r-annotationdbi)
("r-biobase" ,r-biobase)
@@ -8260,8 +8258,6 @@ biological sequences or sets of sequences.")
(substitute* "NAMESPACE"
(("import\\(zlibbioc\\)") ""))
#t)))))
- (inputs
- `(("zlib" ,zlib)))
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-biocparallel" ,r-biocparallel)
@@ -8794,9 +8790,8 @@ secondary structure and comparative analysis in R.")
(arguments '(#:configure-flags '("--no-staged-install")))
(propagated-inputs
`(("curl" ,curl)
+ ("zlib" ,zlib) ; packages using rhtslib need to link with zlib
("r-zlibbioc" ,r-zlibbioc)))
- (inputs
- `(("zlib" ,zlib)))
(native-inputs
`(("pkg-config" ,pkg-config)
("r-knitr" ,r-knitr)))
@@ -8827,8 +8822,6 @@ of other R packages who wish to make use of HTSlib.")
("r-rcpp" ,r-rcpp)
("r-rhtslib" ,r-rhtslib)
("r-zlibbioc" ,r-zlibbioc)))
- (inputs
- `(("zlib" ,zlib)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/bamsignals")
@@ -9127,8 +9120,6 @@ HDF5 datasets.")
(propagated-inputs
`(("r-rhdf5filters" ,r-rhdf5filters)
("r-rhdf5lib" ,r-rhdf5lib)))
- (inputs
- `(("zlib" ,zlib)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/rhdf5")
@@ -9616,8 +9607,6 @@ number detection tools.")
("r-zlibbioc" ,r-zlibbioc)))
(native-inputs
`(("r-knitr" ,r-knitr))) ; for vignettes
- (inputs
- `(("zlib" ,zlib)))
(home-page "https://github.com/al2na/methylKit")
(synopsis
"DNA methylation analysis from high-throughput bisulfite sequencing results")