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authorpjotrp2017-09-21 14:36:08 +0000
committerpjotrp2017-09-21 14:36:08 +0000
commit0a239e32c6db1b95843eb9e120eaa6bb3b4c862d (patch)
tree46c4ba53c287cfe88ce105045e1690036d6eadce /gn/packages
parent4b06881660a1884f662da67f75e55de3d4467a94 (diff)
downloadguix-bioinformatics-0a239e32c6db1b95843eb9e120eaa6bb3b4c862d.tar.gz
python-rserve added
Diffstat (limited to 'gn/packages')
-rw-r--r--gn/packages/book_evolutionary_genomics.scm18
-rw-r--r--gn/packages/python.scm32
2 files changed, 44 insertions, 6 deletions
diff --git a/gn/packages/book_evolutionary_genomics.scm b/gn/packages/book_evolutionary_genomics.scm
index dca4350..e3bb84a 100644
--- a/gn/packages/book_evolutionary_genomics.scm
+++ b/gn/packages/book_evolutionary_genomics.scm
@@ -33,7 +33,7 @@
#:use-module (gn packages bioinformatics)
#:use-module (gn packages javascript)
- ; #:use-module (gn packages python)
+ #:use-module (gn packages python)
; #:use-module (gn packages statistics)
#:use-module (srfi srfi-1))
@@ -90,10 +90,7 @@
(base32
"1dncwiyhy1s1pimb6f2dzs3ivahah5id3chw4r10j92754bxmrn2"))))
(propagated-inputs
- `(
- ; ("python" ,python)
- ("r" ,r)
- ))
+ `(("r" ,r)))
(inputs `(("zlib" ,zlib)
("openssl" ,openssl)))
@@ -101,7 +98,14 @@
(home-page "https://github.com/s-u/Rserve")
(synopsis "Fast, flexible and powerful server providing access to R from many languages and systems http://RForge.net/Rserve")
(description
- ".")
+ "Rserve acts as a socket server (TCP/IP or local sockets) which
+allows binary requests to be sent to R. Every connection has a
+separate workspace and working directory. Client-side implementations
+are available for popular languages such as C/C++ and Java, allowing
+any application to use facilities of R without the need of linking to
+R code. Rserve supports remote connection, user authentication and
+file transfer. A simple R client is included in this package as
+well.")
(license license:gpl2)))
(define-public book-evolutionary-genomics
@@ -121,6 +125,8 @@
("source" ,source)))
(propagated-inputs
`(("python" ,python)
+ ("python-biopython" ,python-biopython)
+ ("python-rserve" ,python-rserve)
("r" ,r)
("r-gener" ,r-gener)
("r-biostrings" ,r-biostrings)
diff --git a/gn/packages/python.scm b/gn/packages/python.scm
index a045724..9bdb1ca 100644
--- a/gn/packages/python.scm
+++ b/gn/packages/python.scm
@@ -148,6 +148,38 @@ powerful language for representing information.")
`(#:python ,python-2
#:tests? #f))))) ; 3 tests fail, also outside Guix
+(define-public python-rserve
+ (package
+ (name "python-rserve")
+ (version "0.91")
+ (source
+ (origin
+ (method url-fetch)
+ ; https://pypi.python.org/packages/27/e8/b23e0e3d38dadc721947bc9f4b6f1b3e5e1e6c26ac67d8ad88376c5555a0/pyRserve-0.9.1.tar.gz#md5=6da1978f908dd7bdc2d22ee5c29238c0
+ (uri (string-append
+ "https://pypi.python.org/packages/27/e8/b23e0e3d38dadc721947bc9f4b6f1b3e5e1e6c26ac67d8ad88376c5555a0/pyRserve-0.9.1.tar.gz"))
+ (sha256
+ (base32
+ "162dg7d0ni035b75qskrjdzd1yyxwnvybcv115aiapcvyfw2vbsm"))))
+ (build-system python-build-system)
+ (propagated-inputs
+ `(
+ ("python-numpy" ,python-numpy)
+ ))
+ (inputs
+ `(("python-setuptools" ,python-setuptools)
+ ("python-pytest" ,python-pytest)
+ ))
+ (home-page "https://pypi.python.org/pypi/pyRserve")
+ (synopsis
+ "RServe.")
+ (description
+ ".")
+ (license license:expat)))
+
+(define-public python2-rserve
+ (package-with-python2 python-rserve))
+
(define-public python-avro ; guix ready - used by CWL
(package
(name "python-avro")