Hi, Using 7022eb6, the package ’python-biopython’ propagates ’python-numpy’, i.e., python-numpy@1.20.3.
However, because Guix installs by default the last version and: --8<---------------cut here---------------start------------->8--- $ guix package -A | grep 'python-numpy ' | cut -f1,2 python-numpy 1.21.3 python-numpy 1.20.3 --8<---------------cut here---------------end--------------->8--- then this manifests.scm leads to an error, --8<---------------cut here---------------start------------->8--- $ cat /tmp/manifest.scm (specifications->manifest (list "python-numpy" "python-biopython")) $ guix package -m /tmp/manifest.scm -p /tmp/fail The following packages will be installed: python-biopython 1.76 python-numpy 1.21.3 guix package: error: profile contains conflicting entries for python-numpy guix package: error: first entry: python-numpy@1.21.3 /gnu/store/ggrkk9l67fjn1cj7alr8vx40xv08a6h0-python-numpy-1.21.3 guix package: error: second entry: python-numpy@1.20.3 /gnu/store/wgsmkn68q8h178sqc7ywjcdr330z9rb6-python-numpy-1.20.3 guix package: error: ... propagated from python-biopython@1.76 hint: Try upgrading both `python-numpy' and `python-biopython', or remove one of them from the profile. --8<---------------cut here---------------end--------------->8--- which is annoying. I propose to refer as name “python-numpy” the symbol python-numpy which leads to a consistent scientific Python stack. And to refer as name “python-numpy-next” the symbol python-numpy-next. For instance, it is already the case for emacs-next or for the Bioconductor package r-cistopic. Doing so, adventurous people can use python-numpy-next (or recompile all the scientific Python stack using it), or update it directly on master (for testing say) without going to a core-update cycle. WDYT? Attached a proposed patch. Cheers, simon
>From 962d942ffcba7893ab15c30dc602e51462d9b09a Mon Sep 17 00:00:00 2001 From: zimoun <zimon.touto...@gmail.com> Date: Thu, 30 Dec 2021 22:04:49 +0100 Subject: [PATCH] gnu: Rename last 'python-numpy' as 'python-numpy-next'. * gnu/packages/python-xyz.scm (python-numpy-next): Rename. --- gnu/packages/python-xyz.scm | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 7ca0b1668d..047bb4cbb8 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -5366,11 +5366,9 @@ (define-public python2-cython "")) #t))))))))) -;; NOTE: when upgrading numpy please make sure that python-pandas and -;; python-scipy still build, as these three packages are often used together. (define-public python-numpy-next (package - (name "python-numpy") + (name "python-numpy-next") (version "1.21.3") (source (origin @@ -5481,6 +5479,8 @@ (define-public python-numpy-1.20 (substitute-keyword-arguments (package-arguments python-numpy-next) ((#:tests? _ #t) #f))))) +;; NOTE: when upgrading numpy please make sure that python-pandas and +;; python-scipy still build, as these three packages are often used together. (define-public python-numpy python-numpy-1.20) ;; NOTE: NumPy 1.8 is packaged only for Python 2 because it is of base-commit: 002442b2209b0953dd209e6219696a8758ceceb2 -- 2.34.0