GNU bug report logs - #62187
[PATCH 1/2] gnu: Add r-premessa.

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: Ricardo Wurmus <rekado <at> elephly.net>
Cc: tracker <at> debbugs.gnu.org
Subject: bug#62187: closed ([PATCH 1/2] gnu: Add r-premessa.)
Date: Tue, 14 Mar 2023 18:14:01 +0000

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Your message dated Tue, 14 Mar 2023 19:13:18 +0100
with message-id <875yb342wc.fsf <at> elephly.net>
and subject line [PATCH 1/2] gnu: Add r-premessa.
has caused the debbugs.gnu.org bug report #62187,
regarding [PATCH 1/2] gnu: Add r-premessa.
to be marked as done.

(If you believe you have received this mail in error, please contact
help-debbugs <at> gnu.org.)


-- 
62187: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=62187
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Contact help-debbugs <at> gnu.org with problems

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From: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Cc: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
Subject: [PATCH 1/2] gnu: Add r-premessa.
Date: Tue, 14 Mar 2023 15:01:29 +0000

* gnu/packages/bioinformatics.scm (r-premessa): New variable.
---
 gnu/packages/bioinformatics.scm | 37 +++++++++++++++++++++++++++++++++
 1 file changed, 37 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 06f9eb8ee3..7025ccd93d 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8803,6 +8803,43 @@ (define-public r-pando
 regions for each transcription factor.")
     (license license:expat)))
 
+(define-public r-premessa
+  (let ((commit "68b42bb984637d0f3ad6a0ecc83e9278994afc85")
+        (revision "1"))
+    (package
+      (name "r-premessa")
+      (version (git-version "0.3.4" revision commit))
+      (source (origin
+                (method git-fetch)
+                (uri (git-reference
+                      (url "https://github.com/ParkerICI/premessa")
+                      (commit commit)))
+                (file-name (git-file-name name version))
+                (sha256
+                 (base32
+                  "1l0q431zk0lvg22130nx84gdqi7cpl05yah4am63lbx6m4c769pb"))))
+      (properties `((upstream-name . "premessa")))
+      (build-system r-build-system)
+      (propagated-inputs (list r-data-table
+                               r-flowcore
+                               r-ggplot2
+                               r-gridextra
+                               r-hexbin
+                               r-jsonlite
+                               r-reshape
+                               r-rhandsontable
+                               r-shiny
+                               r-shinyjqui))
+      (native-inputs (list esbuild))
+      (home-page "https://github.com/ParkerICI/premessa")
+      (synopsis
+       "This package is for pre-processing of flow and mass cytometry data")
+      (description
+       "This is an R package for pre-processing of flow and mass cytometry data.
+This package includes panel editing or renaming for FCS files, bead-based
+normalization and debarcoding.")
+      (license license:gpl3))))
+
 (define-public r-presto
   (let ((commit "052085db9c88aa70a28d11cc58ebc807999bf0ad")
         (revision "0"))
-- 
2.34.1

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: 62187-done <at> debbugs.gnu.org
Subject: [PATCH 1/2] gnu: Add r-premessa.
Date: Tue, 14 Mar 2023 19:13:18 +0100

Pushed with commit 204c51cac44809dc352c86bb33332fc75e2b0056.
I had to replace the bundled d3.min.js with a variant built from source.

Note that this is why the importer added esbuild (a JS compiler/bundler)
to the native inputs.

-- 
Ricardo

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