(address . guix-patches@gnu.org)
968dbc69-60f7-1d7d-a2f2-9e5b2e2deea1@mdc-berlin.de
* gnu/packages/cran.scm (r-ctrialsgov, r-jsonify, r-nodbi, r-ctrdata):
New variables.
[patch] gnu: Add r-ctrialsgov, r-jsonify, r-nodbi, r-ctrdata.
- Done
Details
- 2 participants
- M?d?lin Ionel Patra?cu
- Ricardo Wurmus
- Owner
- unassigned
- Submitted by
- M?d?lin Ionel Patra?cu
- Severity
- normal
M
M
[PATCH 3/4] gnu: Add r-nodbi.
(address . 62441@debbugs.gnu.org)
20230325174555.837323-3-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/cran.scm (r-nodbi): New variable.
---
gnu/packages/cran.scm | 27 +++++++++++++++++++++++++++
1 file changed, 27 insertions(+)
Toggle diff (40 lines)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 034dd0869a..9b314bae43 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -12275,6 +12275,33 @@ (define-public r-sjmisc
tidyverse workflow.")
(license license:gpl3)))
+(define-public r-nodbi
+ (package
+ (name "r-nodbi")
+ (version "0.9.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "nodbi" version))
+ (sha256
+ (base32 "1hn0wy2ry9l3wwqrshmf82cxigkm16wycwprv458bcvb5k6ayy5m"))))
+ (properties `((upstream-name . "nodbi")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-dbi
+ r-jqr
+ r-jsonify
+ r-jsonlite
+ r-stringi
+ r-uuid))
+ (home-page "https://docs.ropensci.org/nodbi/")
+ (synopsis "NoSQL database connector")
+ (description
+ "The nodbi package aims to simplified document database access and
+manipulation, by providing a common API across supported NoSQL databases
+Elasticsearch, CouchDB, MongoDB as well as SQLite/JSON1, PostgreSQL, and DuckDB.")
+ (license license:expat)))
+
(define-public r-nortest
(package
(name "r-nortest")
--
2.39.2
M
[PATCH 1/4] gnu: Add r-ctrialsgov.
(address . 62441@debbugs.gnu.org)
20230325174555.837323-1-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/cran.scm (r-ctrialsgov): New variable.
---
gnu/packages/cran.scm | 37 +++++++++++++++++++++++++++++++++++++
1 file changed, 37 insertions(+)
Toggle diff (52 lines)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index a36c845479..a3590fe9cd 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -396,6 +396,43 @@ (define-public r-cplm
comparison tool involving zero-inflated and highly skewed distributions.")
(license license:gpl2+)))
+(define-public r-ctrialsgov
+ (package
+ (name "r-ctrialsgov")
+ (version "0.2.5")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "ctrialsgov" version))
+ (sha256
+ (base32 "0hdh1fdfaja8amf7fkvk1c6yif703132bvacq0j9pk5jr97czgpw"))))
+ (properties `((upstream-name . "ctrialsgov")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-dbi
+ r-dplyr
+ r-ggplot2
+ r-htmlwidgets
+ r-lubridate
+ r-matrix
+ r-plotly
+ r-purrr
+ r-rlang
+ r-stringi
+ r-tibble))
+ (native-inputs (list r-knitr))
+ (home-page "https://cran.r-project.org/package=ctrialsgov")
+ (synopsis
+ "Query data from U.S. National Library of Medicine's Clinical trials database")
+ (description
+ "The ctrialsgov package implements a series of tools which create and query
+database from the United States National Library of Medicine's Clinical trials
+database @url{https://clinicaltrials.gov/}. Functions provide access a variety
+of techniques for searching the data using range queries, categorical filtering,
+and by searching for full-text keywords. Minimal graphical tools are also
+provided for interactively exploring the constructed data.")
+ (license license:expat)))
+
(define-public r-curry
(package
(name "r-curry")
base-commit: de84b24613afa4020f3f0553dad8e39a78d1f92c
--
2.39.2
M
[PATCH 2/4] gnu: Add r-jsonify.
(address . 62441@debbugs.gnu.org)
20230325174555.837323-2-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/cran.scm (r-jsonify): New variable.
---
gnu/packages/cran.scm | 21 +++++++++++++++++++++
1 file changed, 21 insertions(+)
Toggle diff (34 lines)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index a3590fe9cd..034dd0869a 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -3309,6 +3309,27 @@ (define-public r-jsonlite
in systems and applications.")
(license license:expat)))
+(define-public r-jsonify
+ (package
+ (name "r-jsonify")
+ (version "1.2.2")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "jsonify" version))
+ (sha256
+ (base32 "0bxgyj5b1hnijq5315g050giixy4k5mjz2zdx8yil0igb5ifji9p"))))
+ (properties `((upstream-name . "jsonify")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-rapidjsonr r-rcpp))
+ (native-inputs (list r-knitr))
+ (home-page "https://cran.r-project.org/package=jsonify")
+ (synopsis "Convert between R objects and Javascript object notation (JSON)")
+ (description
+ "The jsonify package helps with the conversions between R objects and
+@acronym{JSON, Javascript Object Notation} using the rapidjsonr library.")
+ (license license:expat)))
+
(define-public r-servr
(package
(name "r-servr")
--
2.39.2
M
[PATCH 4/4] gnu: Add r-ctrdata.
(address . 62441@debbugs.gnu.org)
20230325174555.837323-4-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/cran.scm (r-ctrdata): New variable.
---
gnu/packages/cran.scm | 46 +++++++++++++++++++++++++++++++++++++++++++
1 file changed, 46 insertions(+)
Toggle diff (66 lines)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 9b314bae43..6e70dd134a 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -97,6 +97,7 @@ (define-module (gnu packages cran)
#:use-module (gnu packages pcre)
#:use-module (gnu packages pdf)
#:use-module (gnu packages perl)
+ #:use-module (gnu packages php)
#:use-module (gnu packages pkg-config)
#:use-module (gnu packages pulseaudio) ;libsndfile
#:use-module (gnu packages protobuf)
@@ -396,6 +397,51 @@ (define-public r-cplm
comparison tool involving zero-inflated and highly skewed distributions.")
(license license:gpl2+)))
+(define-public r-ctrdata
+ (package
+ (name "r-ctrdata")
+ (version "1.11.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "ctrdata" version))
+ (sha256
+ (base32 "076v3bll8s6m61wcbwgrgrm34g0wa7gsc90mbwxwap1xfxyzjjsg"))))
+ (properties `((upstream-name . "ctrdata")))
+ (build-system r-build-system)
+ (inputs
+ (list coreutils
+ perl
+ php
+ sed))
+ (propagated-inputs
+ (list r-clipr
+ r-curl
+ r-dplyr
+ r-httr
+ r-jsonlite
+ r-lubridate
+ r-nodbi
+ r-rvest
+ r-stringi
+ r-xml2))
+ (native-inputs (list r-r-rsp))
+ (home-page "https://cran.r-project.org/package=ctrdata")
+ (synopsis "Retrieve and analyze clinical trials in public registers")
+ (description
+ "This package provides a system for querying, retrieving and analyzing
+protocol- and results-related information on clinical trials from three public
+registers, the @acronym{EUCTR, European Union Clinical Trials Register} @url{
+https://www.clinicaltrialsregister.eu/}, @acronym{CTGOV, ClinicalTrials.gov}
+@url{https://clinicaltrials.gov/} and the @acronym{ISRCTN, International Clinical
+Trials Registry Platform} @url{https://www.isrctn.com/}. Trial information is
+downloaded, converted and stored in a database. Functions are included to
+identify deduplicated records, to easily find and extract variables (fields) of
+interest even from complex nesting as used by the registers, and to update
+previous queries. The package can be used for meta-analysis and trend-analysis
+of the design and conduct as well as for results of clinical trials.")
+ (license license:expat)))
+
(define-public r-ctrialsgov
(package
(name "r-ctrialsgov")
--
2.39.2
R
Re: [bug#62441] [PATCH 1/4] gnu: Add r-ctrialsgov.
(name . M?d?lin Ionel Patra?cu)(address . madalinionel.patrascu@mdc-berlin.de)(address . 62441-done@debbugs.gnu.org)
875yanh2ef.fsf@elephly.net
M?d?lin Ionel Patra?cu <madalinionel.patrascu@mdc-berlin.de> writes:
Toggle quote (2 lines)
> * gnu/packages/cran.scm (r-ctrialsgov): New variable.
We worked on the same patches at the same time. I pushed this series
yesterday. Thanks!
--
Ricardo
Closed
?