From 799247d2d97c2f4ae281b35e091f587988fb699a Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
Date: Wed, 30 Aug 2017 17:12:23 +0200
Subject: gnu: multiqc: Update to 1.2.

* gnu/packages/bioinformatics.scm (multiqc): Update to 1.2.
[source]: Remove patches.
[arguments]: Remove to enable tests.
[propagated-inputs]: Add python-spectra, python-requests, python-markdown,
python-lzstring.
* gnu/packages/patches/multiqc-fix-git-subprocess-error.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
---
 gnu/local.mk                                             |  1 -
 gnu/packages/bioinformatics.scm                          | 13 ++++++-------
 .../patches/multiqc-fix-git-subprocess-error.patch       | 16 ----------------
 3 files changed, 6 insertions(+), 24 deletions(-)
 delete mode 100644 gnu/packages/patches/multiqc-fix-git-subprocess-error.patch

diff --git a/gnu/local.mk b/gnu/local.mk
index 10d4ab1143..306a16911d 100644
--- a/gnu/local.mk
+++ b/gnu/local.mk
@@ -853,7 +853,6 @@ dist_patch_DATA =						\
   %D%/packages/patches/mozjs38-shell-version.patch		\
   %D%/packages/patches/mozjs38-tracelogger.patch		\
   %D%/packages/patches/mozjs38-version-detection.patch		\
-  %D%/packages/patches/multiqc-fix-git-subprocess-error.patch	\
   %D%/packages/patches/mumps-build-parallelism.patch		\
   %D%/packages/patches/mupdf-build-with-openjpeg-2.1.patch	\
   %D%/packages/patches/mupen64plus-ui-console-notice.patch	\
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index c5157046ab..d0df0ee41a 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8575,25 +8575,24 @@ replacement for strverscmp.")
 (define-public multiqc
   (package
     (name "multiqc")
-    (version "0.9")
+    (version "1.2")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "multiqc" version))
        (sha256
         (base32
-         "12gs1jw2jrxrij529rnl5kaqxfcqn15yzcsggxkfhdx634ml0cny"))
-       (patches (search-patches "multiqc-fix-git-subprocess-error.patch"))))
+         "032svgym67k2ds7wp0cxzv79gi30yrdl45zbqn74lni3dk04qm33"))))
     (build-system python-build-system)
-    (arguments
-     ;; Tests are to be introduced in the next version, see
-     ;; https://github.com/ewels/MultiQC/issues/376
-     `(#:tests? #f))
     (propagated-inputs
      `(("python-jinja2" ,python-jinja2)
        ("python-simplejson" ,python-simplejson)
        ("python-pyyaml" ,python-pyyaml)
        ("python-click" ,python-click)
+       ("python-spectra" ,python-spectra)
+       ("python-requests" ,python-requests)
+       ("python-markdown" ,python-markdown)
+       ("python-lzstring" ,python-lzstring)
        ("python-matplotlib" ,python-matplotlib)
        ("python-numpy" ,python-numpy)
        ;; MultQC checks for the presence of nose at runtime.
diff --git a/gnu/packages/patches/multiqc-fix-git-subprocess-error.patch b/gnu/packages/patches/multiqc-fix-git-subprocess-error.patch
deleted file mode 100644
index 87be6142f4..0000000000
--- a/gnu/packages/patches/multiqc-fix-git-subprocess-error.patch
+++ /dev/null
@@ -1,16 +0,0 @@
-Without this patch, the incorrect exception is caught when 'git' is not in
-PATH.  See https://github.com/ewels/MultiQC/pull/377.
-
-diff --git a/multiqc/utils/config.py b/multiqc/utils/config.py
-index 01fa554..4a11793 100755
---- a/multiqc/utils/config.py
-+++ b/multiqc/utils/config.py
-@@ -28,7 +28,7 @@ try:
-     git_hash = subprocess.check_output(['git', 'rev-parse', 'HEAD'], stderr=subprocess.STDOUT)
-     git_hash_short = git_hash[:7]
-     version = '{} ({})'.format(version, git_hash_short)
--except subprocess.CalledProcessError:
-+except (subprocess.CalledProcessError, FileNotFoundError):
-     pass
- os.chdir(cwd)
- 
-- 
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