diff --git a/gnu/packages/audio.scm b/gnu/packages/audio.scm
index 7d2e2d2a4b..5e32081293 100644
--- a/gnu/packages/audio.scm
+++ b/gnu/packages/audio.scm
@@ -1434,9 +1434,10 @@ (define-public python-pyliblo
                "13vry6xhxm7adnbyj28w1kpwrh0kf7nw83cz1yq74wl21faz2rzw"))))
     (build-system python-build-system)
     (arguments `(#:tests? #f)) ;no tests
+    (native-inputs
+     `(("python-cython" ,python-cython)))
     (inputs
-     `(("python-cython" ,python-cython)
-       ("liblo" ,liblo)))
+     `(("liblo" ,liblo)))
     (home-page "http://das.nasophon.de/pyliblo/")
     (synopsis "Python bindings for liblo")
     (description
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 9cfb30023f..9b47dc3d51 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -522,13 +522,13 @@ (define-public python2-pybedtools
     (build-system python-build-system)
     (arguments `(#:python ,python-2)) ; no Python 3 support
     (inputs
-     `(("python-cython" ,python2-cython)
-       ("python-matplotlib" ,python2-matplotlib)))
+     `(("python-matplotlib" ,python2-matplotlib)))
     (propagated-inputs
      `(("bedtools" ,bedtools)
        ("samtools" ,samtools)))
     (native-inputs
-     `(("python-pyyaml" ,python2-pyyaml)
+     `(("python-cython" ,python2-cython)
+       ("python-pyyaml" ,python2-pyyaml)
        ("python-nose" ,python2-nose)))
     (home-page "https://pythonhosted.org/pybedtools/")
     (synopsis "Python wrapper for BEDtools programs")
diff --git a/gnu/packages/music.scm b/gnu/packages/music.scm
index 61bcd3785b..caebe70dd6 100644
--- a/gnu/packages/music.scm
+++ b/gnu/packages/music.scm
@@ -1022,7 +1022,6 @@ (define-public beast
      `(("rapicorn" ,rapicorn)
        ("guile" ,guile-1.8)
        ("python" ,python-2)
-       ("cython" ,python2-cython)
        ("libgnomecanvas" ,libgnomecanvas)
        ("libogg" ,libogg)
        ("libmad" ,libmad)
@@ -1033,6 +1032,7 @@ (define-public beast
     (native-inputs
      `(("pkg-config" ,pkg-config)
        ("glib:bin" ,glib "bin")
+       ("cython" ,python2-cython)
        ("perl" ,perl)
        ("perl-xml-parser" ,perl-xml-parser)))
     (home-page "https://testbit.eu/wiki/Beast_Home")
@@ -1315,10 +1315,10 @@ (define-public python-pyportmidi
              #t)))))
     (inputs
      `(("portmidi" ,portmidi)
-       ("alsa-lib" ,alsa-lib)
-       ("python-cython" ,python-cython)))
+       ("alsa-lib" ,alsa-lib)))
     (native-inputs
-     `(("unzip" ,unzip)))
+     `(("python-cython" ,python-cython)
+       ("unzip" ,unzip)))
     (home-page "http://portmedia.sourceforge.net/portmidi/")
     (synopsis "Python bindings to PortMidi")
     (description
diff --git a/gnu/packages/python.scm b/gnu/packages/python.scm
index 3442488d29..35d9021165 100644
--- a/gnu/packages/python.scm
+++ b/gnu/packages/python.scm
@@ -10542,10 +10542,10 @@ (define-public python-kivy
                                     "/include/SDL2"))
              #t)))))
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     `(("pkg-config" ,pkg-config)
+       ("python-cython" ,python-cython)))
     (inputs
-     `(("python-cython" ,python-cython)
-       ("gstreamer" ,gstreamer)
+     `(("gstreamer" ,gstreamer)
        ("mesa" ,mesa)
        ("sdl-union"
         ,(sdl-union (list sdl2 sdl2-image sdl2-mixer sdl2-ttf)))))