GNU bug report logs - #66917
gnu: Add r-ewastools and r-mblm.

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Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):

From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Subject: gnu: Add r-ewastools and r-mblm.
Date: Fri, 3 Nov 2023 15:53:25 +0100

* gnu/packages/bioinformatics.scm (r-ewastools): New variable.

* gnu/packages/cran.scm (r-mblm): New variable.

Message #8 received at 66917 <at> debbugs.gnu.org (full text, mbox):

From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <66917 <at> debbugs.gnu.org>
Subject: [PATCH 2/2] gnu: Add r-ewastools.
Date: Fri, 3 Nov 2023 15:55:57 +0100

* gnu/packages/bioinformatics.scm (r-ewastools): New variable.

Change-Id: I4117dbee188c7d9547fe63b2b89ec9258bbda60b
---
 gnu/packages/bioinformatics.scm | 32 ++++++++++++++++++++++++++++++++
 1 file changed, 32 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index a47e84bc33..11ca777fa2 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -876,6 +876,38 @@ (define-public r-conqur
 simultaneously considered.")
       (license license:gpl3))))
 
+(define-public r-ewastools
+  (let ((commit "f7646cacd73266708479b3fea5d625054d179f95")
+        (revision "1"))
+    (package
+      (name "r-ewastools")
+      (version (git-version "1.7.2" revision commit))
+      (source
+       (origin
+         (method git-fetch)
+         (uri (git-reference
+               (url "https://github.com/hhhh5/ewastools/")
+               (commit commit)))
+         (file-name (git-file-name name version))
+         (sha256
+          (base32 "0irarlnxfnasa755adxsn67rxsy01zwhjhw18g4cag08cqiyyw41"))))
+      (properties `((upstream-name . "ewastools")))
+      (build-system r-build-system)
+      (propagated-inputs
+       (list r-data-table
+             r-igraph
+             r-illuminaio
+             r-mblm
+             r-quadprog))
+      (native-inputs (list r-knitr))
+      (home-page "https://github.com/hhhh5/ewastools/")
+      (synopsis
+       "Quality control toolset for the Illumina Infinium DNA methylation")
+      (description
+       "Collection of useful functions for working with DNA methylation
+micro-array data.")
+      (license license:unlicense))))
+
 (define-public r-numbat
   (let ((commit "4ab7752e7d267a3f443756675728521a9b0a7295")
         (revision "1"))
-- 
2.41.0

Message #11 received at 66917 <at> debbugs.gnu.org (full text, mbox):

From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <66917 <at> debbugs.gnu.org>
Subject: [PATCH 1/2] gnu: Add r-mblm.
Date: Fri, 3 Nov 2023 15:55:56 +0100

* gnu/packages/cran.scm (r-mblm): New variable.

Change-Id: Iddfa9bc03a4e5782623253cb70d1ae888545e2ec
---
 gnu/packages/cran.scm | 21 +++++++++++++++++++++
 1 file changed, 21 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index f2a035555b..ec7200749a 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -3149,6 +3149,27 @@ (define-public r-matrix-utils
 objects.")
     (license license:gpl3)))
 
+(define-public r-mblm
+  (package
+    (name "r-mblm")
+    (version "0.12.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "mblm" version))
+       (sha256
+        (base32 "1fipb3bryaimr30lcxsxrn0ymv24z39swca7s4z7p9xcfg3ban1b"))))
+    (properties `((upstream-name . "mblm")))
+    (build-system r-build-system)
+    (home-page "https://www.r-project.org")
+    (synopsis "Median-based linear models")
+    (description
+     "This package provides linear models based on Theil-Sen single median and
+Siegel repeated medians.  They are very robust (29 or 50 percent breakdown point,
+respectively), and if no outliers are present, the estimators are very similar
+to OLS.")
+    (license license:gpl2+)))
+
 (define-public r-mboost
   (package
    (name "r-mboost")

base-commit: a0a377fdd6c873aeb6340afeddcd23b4ead7657d
-- 
2.41.0

Message #16 received at 66917-done <at> debbugs.gnu.org (full text, mbox):

From: Ricardo Wurmus <rekado <at> elephly.net>
To: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
Cc: 66917-done <at> debbugs.gnu.org
Subject: Re: [bug#66917] [PATCH 1/2] gnu: Add r-mblm.
Date: Sat, 04 Nov 2023 17:05:21 +0100

Mădălin Ionel Patrașcu <madalinionel.patrascu <at> mdc-berlin.de> writes:

> * gnu/packages/cran.scm (r-mblm): New variable.

I applied this series with minor changes.  Thanks!

-- 
Ricardo

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