Subject: bug#55989: closed (Re: bug#55989: [PATCH 1/2] gnu: Add python-pydicom.)

From: [email-masked] (GNU bug Tracking System)
Date: Sun, 08 Jan 2023 15:07:02 +0000

Your bug report

#55989: [PATCH 1/2] gnu: Add python-pydicom.

which was filed against the guix-patches package, has been closed.

The explanation is attached below, along with your original report.
If you require more details, please reply to [email-masked].

-- 
55989: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=55989
GNU Bug Tracking System
Contact [email-masked] with problems

Subject: Re: bug#55989: [PATCH 1/2] gnu: Add python-pydicom.
From: Ludovic Courtès <[email-masked]>
To: Antero Mejr <[email-masked]>
Cc: [email-masked]
Date: Sun, 08 Jan 2023 16:06:31 +0100
List-Id: <debbugs-submit.debbugs.gnu.org>

Hi,

Antero Mejr <[email-masked]> skribis:

> Here's the updated GDCM patch, which is a dependency.
>
> * gnu/packages/bioinformatics.scm (gdcm): New variable.

I had to adjust the hash of the GDCM source (a typo?), but after that I
applied both the GDCM and pydicom patches.

Thanks, and apologies for the delay!

Ludo’.

Subject: [PATCH 1/2] gnu: Add python-pydicom.
From: Antero Mejr <[email-masked]>
To: [email-masked]
Date: Wed, 15 Jun 2022 01:27:13 +0000
List-Id: <debbugs-submit.debbugs.gnu.org>

* gnu/packages/python-science.scm (python-pydicom): New variable.
---
 gnu/packages/python-science.scm | 37 +++++++++++++++++++++++++++++++++
 1 file changed, 37 insertions(+)

diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm
index 0684826a6c..08359515d5 100644
--- a/gnu/packages/python-science.scm
+++ b/gnu/packages/python-science.scm
@@ -20,6 +20,7 @@
 ;;; Copyright © 2022 Paul A. Patience <[email-masked]>
 ;;; Copyright © 2022 Wiktor Żelazny <[email-masked]>
 ;;; Copyright © 2022 Eric Bavier <[email-masked]>
+;;; Copyright © 2022 Antero Mejr <[email-masked]>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -46,6 +47,7 @@ (define-module (gnu packages python-science)
   #:use-module (gnu packages cpp)
   #:use-module (gnu packages databases)
   #:use-module (gnu packages gcc)
+  #:use-module (gnu packages image)
   #:use-module (gnu packages image-processing)
   #:use-module (gnu packages machine-learning)
   #:use-module (gnu packages maths)
@@ -1367,3 +1369,38 @@ (define-public python-gpy
 Python, from the Sheffield machine learning group.  GPy implements a range of
 machine learning algorithms based on GPs.")
     (license license:bsd-3)))
+
+(define-public python-pydicom
+  (package
+    (name "python-pydicom")
+    (version "2.3.0")
+    (source (origin
+              (method git-fetch)
+              (uri (git-reference
+                    (url "https://github.com/pydicom/pydicom")
+                    (commit (string-append "v" version))))
+              (file-name (git-file-name name version))
+              (sha256
+               (base32
+                "18l26s53yf5j9yh2zwq83n74qq4f2iq0cfblamsw4y9k35l1c108"))))
+    (build-system python-build-system)
+    (arguments
+     (list
+      ;; 181 failed, 2235 pass. Pulls test datasets off the web, no-go for Guix
+      #:tests? #f
+      #:phases
+      #~(modify-phases %standard-phases
+         (replace 'check
+           (lambda* (#:key tests? #:allow-other-keys)
+             (when tests?
+               (chdir "pydicom/tests")
+               (invoke "python3" "-m" "pytest")))))))
+    (native-inputs (list python-pytest))
+    (inputs (list gdcm libjpeg-turbo))
+    (propagated-inputs (list python-numpy python-pillow))
+    (home-page "https://github.com/pydicom/pydicom")
+    (synopsis "Pure Python package for reading and writing DICOM data")
+    (description "pydicom provides a pure Python package for reading and
+writing DICOM medical imaging data. It lets developers read, modify and write
+DICOM data in a pythonic way.")
+    (license license:expat)))
-- 
2.36.1