R-SparseArray @1.4.0: Fetching distfile failed: The requested URL returned error: 404

[ryandesign (Ryan Carsten Schmidt)]

​https://build.macports.org/builders/ports-13_arm64-builder/builds/61551/steps/install-dependencies/logs/stdio

--->  Fetching distfiles for R-SparseArray
DEBUG: Executing proc-pre-org.macports.fetch-fetch-0
DEBUG: Executing org.macports.fetch (R-SparseArray)
--->  SparseArray_1.4.0.tar.gz does not exist in /Volumes/shared/macports/distfiles/R-SparseArray
--->  Attempting to fetch SparseArray_1.4.0.tar.gz from https://www.bioconductor.org/packages/release/bioc/src/contrib/
DEBUG: Fetching distfile failed: The requested URL returned error: 404
--->  Attempting to fetch SparseArray_1.4.0.tar.gz from https://www.bioconductor.org/packages/release/data/experiment/src/contrib/
DEBUG: Fetching distfile failed: The requested URL returned error: 404
--->  Attempting to fetch SparseArray_1.4.0.tar.gz from https://www.bioconductor.org/packages/devel/data/experiment/src/contrib/
DEBUG: Fetching distfile failed: The requested URL returned error: 404
--->  Attempting to fetch SparseArray_1.4.0.tar.gz from https://distfiles.macports.org/R-SparseArray
DEBUG: Fetching distfile failed: The requested URL returned error: 404
--->  Attempting to fetch SparseArray_1.4.0.tar.gz from http://mirror.fcix.net/macports/distfiles/R-SparseArray
DEBUG: Fetching distfile failed: The requested URL returned error: 404
Error: Failed to fetch R-SparseArray: The requested URL returned error: 404
DEBUG: Error code: NONE
DEBUG: Backtrace: The requested URL returned error: 404

[ryandesign (Ryan Carsten Schmidt)]

The 1.4.0 file existed when the PR actions ran a couple days ago:

​https://github.com/macports/macports-ports/actions/runs/8961329720/job/24608820428?pr=23823

--->  Fetching distfiles for R-SparseArray
DEBUG: elevating privileges for fetch: euid changed to 0, egid changed to 0.
DEBUG: dropping privileges: euid changed to 502, egid changed to 501.
DEBUG: Executing proc-pre-org.macports.fetch-fetch-0
DEBUG: Executing org.macports.fetch (R-SparseArray)
--->  SparseArray_1.4.0.tar.gz does not exist in /opt/local/var/macports/distfiles/R-SparseArray
--->  Attempting to fetch SparseArray_1.4.0.tar.gz from https://distfiles.macports.org/R-SparseArray
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  0   126    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
DEBUG: Fetching distfile failed: The requested URL returned error: 404
--->  Attempting to fetch SparseArray_1.4.0.tar.gz from https://www.bioconductor.org/packages/release/bioc/src/contrib/
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  365k  100  365k    0     0  2932k      0 --:--:-- --:--:-- --:--:-- 2948k

It looks like the version currently available is 1.4.1. Is it usual for them to remove the files for old versions immediately?

[barracuda156]

Could be because of a bug I reported: ​https://github.com/Bioconductor/SparseArray/issues/9 I am not sure how Bioconductor handles versions, but maybe they are moved into a different subpath? I can check tomorrow. I do not think they gonna delete versions immediately or even any time soon. CRAN keeps archive of older versions for years.

[ryandesign (Ryan Carsten Schmidt)]

Yes I see 1.4.0 is now available at ​https://bioconductor.org/packages/3.19/bioc/src/contrib/Archive/SparseArray/SparseArray_1.4.0.tar.gz.

[barracuda156]

Replying to ryandesign:

Yes I see 1.4.0 is now available at ​https://bioconductor.org/packages/3.19/bioc/src/contrib/Archive/SparseArray/SparseArray_1.4.0.tar.gz.

I will update R-SparseArray to 1.4.1 and add archive link to R PG, so that we do not suddenly lose access to distfiles for a given version.

[barracuda156]

In 3fb8c198d34df99aea8a70eba2b20ea7578f9e8c/macports-ports (master):

R-SparseArray: update to 1.4.1

Fixes: #69929