Subject: [PATCH 2/2] gnu: Add gdcm.

From: Antero Mejr <[email-masked]>
Date: Wed, 15 Jun 2022 15:39:53 +0000

Here's the updated GDCM patch, which is a dependency.

* gnu/packages/bioinformatics.scm (gdcm): 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 87df6c3515..2c9f3b4a6f 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -23,6 +23,7 @@
 ;;; Copyright © 2021 Hong Li <[email-masked]>
 ;;; Copyright © 2021, 2022 Simon Tournier <[email-masked]>
 ;;; Copyright © 2021 Felix Gruber <[email-masked]>
+;;; Copyright © 2022 Antero Mejr <[email-masked]>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -15745,3 +15746,39 @@ (define-public wfmash
 module capable of computing base-level alignments for very large sequences.")
     (home-page "https://github.com/ekg/wfmash")
     (license license:expat)))
+
+(define-public gdcm
+  (package
+    (name "gdcm")
+    (version "2.8.9")
+    (source (origin
+              (method git-fetch)
+              (uri (git-reference
+                    (url "https://github.com/malaterre/gdcm")
+                    (commit (string-append "v" version))
+                    (recursive? #t)))
+              (file-name (git-file-name name version))
+              (sha256
+               (base32
+                "0v8ggym2kz26rwyvsyy3mg7j5jbvd1pz5cwchh29iyclagf0l9ry"))))
+    (build-system cmake-build-system)
+    (arguments
+     (list
+      #:configure-flags
+      #~(list "-DGDCM_BUILD_TESTING=true"
+              (string-append "-DCMAKE_CTEST_ARGUMENTS=-E;"
+                             "'TestFileMetaInformation"
+                             "|TestElement2"
+                             "|TestSCUValidation"
+                             "|TestEcho"
+                             "|TestFind'"))))
+    (home-page "http://gdcm.sourceforge.net/wiki/index.php/Main_Page")
+    (synopsis "Grassroots DICOM library")
+    (description
+     "Grassroots DICOM (GDCM) is an implementation of the DICOM
+standard designed to be open source so that researchers may access clinical
+data directly. GDCM includes a file format definition and a network
+communications protocol, both of which should be extended to provide a full set
+of tools for a researcher or small medical imaging vendor to interface with an
+existing medical database.")
+    (license license:bsd-2)))
-- 
2.36.1