Hi, On mer., 02 juin 2021 at 17:54, Ricardo Wurmus <rek...@elephly.net> wrote: > When upgrading packages with “guix refresh -t bioconductor -u” Guix downloads > tarballs for every package twice.
It can be worse with 3 downloads. --8<---------------cut here---------------start------------->8--- $ ./pre-inst-env guix refresh -u r-rhdf5lib Starting download of /tmp/guix-file.IjNx2z >From >https://bioconductor.org/packages/release/bioc/src/contrib/Rhdf5lib_1.20.0.tar.gz... …20.0.tar.gz 14.0MiB 96.9MiB/s 00:00 [##################] 100.0% gnu/packages/bioconductor.scm:14362:13: r-rhdf5lib: updating from version 1.18.2 to version 1.20.0... Starting download of /tmp/guix-file.NmqLjM >From >https://bioconductor.org/packages/release/bioc/src/contrib/Rhdf5lib_1.20.0.tar.gz... …20.0.tar.gz 14.0MiB 97.3MiB/s 00:00 [##################] 100.0% Starting download of /tmp/guix-file.ytAuK3 >From >https://bioconductor.org/packages/release/bioc/src/contrib/Rhdf5lib_1.20.0.tar.gz... …20.0.tar.gz 14.0MiB 103.3MiB/s 00:00 [##################] 100.0% guix refresh: r-rhdf5lib: consider adding this input: zlib gnu/packages/bioconductor.scm:14431:5: r-rhdf5lib: consider removing this native input: hdf5-source gnu/packages/bioconductor.scm:14429:5: r-rhdf5lib: consider removing this propagated input: hdf5 gnu/packages/bioconductor.scm:14429:5: r-rhdf5lib: consider removing this propagated input: zlib --8<---------------cut here---------------end--------------->8--- Cheers, simon PS: Noted when upgrading from 3.15 to 3.16 with this change. --8<---------------cut here---------------start------------->8--- diff --git a/guix/build-system/r.scm b/guix/build-system/r.scm index 620822b870..9b360ae581 100644 --- a/guix/build-system/r.scm +++ b/guix/build-system/r.scm @@ -61,7 +61,7 @@ (define* (bioconductor-uri name version #:optional type) "/src/contrib/" name "_" version ".tar.gz") ;; TODO: use %bioconductor-version from (guix import cran) - (string-append "https://bioconductor.org/packages/3.15"; + (string-append "https://bioconductor.org/packages/3.16"; type-url-part "/src/contrib/" name "_" version ".tar.gz")))) diff --git a/guix/import/cran.scm b/guix/import/cran.scm index 4e1ce7c010..cdc6b806b2 100644 --- a/guix/import/cran.scm +++ b/guix/import/cran.scm @@ -156,9 +156,9 @@ (define %cran-url "https://cran.r-project.org/web/packages/";) (define %cran-canonical-url "https://cran.r-project.org/package=";) (define %bioconductor-url "https://bioconductor.org/packages/";) -;; The latest Bioconductor release is 3.15. Bioconductor packages should be +;; The latest Bioconductor release is 3.16. Bioconductor packages should be ;; updated together. -(define %bioconductor-version "3.15") +(define %bioconductor-version "3.16") (define* (bioconductor-packages-list-url #:optional type) (string-append "https://bioconductor.org/packages/"; --8<---------------cut here---------------end--------------->8---
