Re: 41/92: gnu: r-iranges: Update to 2.14.12.

Re: 41/92: gnu: r-iranges: Update to 2.14.12.

[Mark H Weaver]

Hi Ricardo,

rekado@elephly.net (Ricardo Wurmus) writes:

> rekado pushed a commit to branch master
> in repository guix.
>
> commit e563acb96b1d485b733484a81869144b2793c41a
> Author: Ricardo Wurmus <rekado@elephly.net>
> Date:   Tue Oct 30 07:44:32 2018 +0100
>
>     gnu: r-iranges: Update to 2.14.12.
>     
>     * gnu/packages/bioinformatics.scm (r-iranges): Update to 2.14.12.

Hydra failed to download the source tarball for IRanges-2.14.12, and I
can't build it locally either:

--8<---------------cut here---------------start------------->8---
mhw@jojen ~$ guix build -S r-iranges
The following derivation will be built:
   /gnu/store/0wsvsrb2888fv8y6w511lwrwkphdga61-IRanges_2.14.12.tar.gz.drv
building /gnu/store/0wsvsrb2888fv8y6w511lwrwkphdga61-IRanges_2.14.12.tar.gz.drv...

Starting download of /gnu/store/ydsyylgwyqi7ljvzv01l8zrnc4jx5a4r-IRanges_2.14.12.tar.gz
From https://bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.14.12.tar.gz...
download failed "https://bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.14.12.tar.gz" 404 "Not Found"

Starting download of /gnu/store/ydsyylgwyqi7ljvzv01l8zrnc4jx5a4r-IRanges_2.14.12.tar.gz
From https://bioconductor.org/packages/3.7/bioc/src/contrib/Archive/IRanges_2.14.12.tar.gz...
download failed "https://bioconductor.org/packages/3.7/bioc/src/contrib/Archive/IRanges_2.14.12.tar.gz" 404 "Not Found"

Starting download of /gnu/store/ydsyylgwyqi7ljvzv01l8zrnc4jx5a4r-IRanges_2.14.12.tar.gz
From http://mirror.hydra.gnu.org/file/IRanges_2.14.12.tar.gz/sha256/1ar8sqqgjdy00dbgrxnacqy6gwir5xax76yf0vjxi2vj2skqb0kn...
download failed "http://mirror.hydra.gnu.org/file/IRanges_2.14.12.tar.gz/sha256/1ar8sqqgjdy00dbgrxnacqy6gwir5xax76yf0vjxi2vj2skqb0kn" 404 "Not Found"

Starting download of /gnu/store/ydsyylgwyqi7ljvzv01l8zrnc4jx5a4r-IRanges_2.14.12.tar.gz
From http://tarballs.nixos.org/sha256/1ar8sqqgjdy00dbgrxnacqy6gwir5xax76yf0vjxi2vj2skqb0kn...
download failed "http://tarballs.nixos.org/sha256/1ar8sqqgjdy00dbgrxnacqy6gwir5xax76yf0vjxi2vj2skqb0kn" 404 "Not Found"
failed to download "/gnu/store/ydsyylgwyqi7ljvzv01l8zrnc4jx5a4r-IRanges_2.14.12.tar.gz" from ("https://bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.14.12.tar.gz" "https://bioconductor.org/packages/3.7/bioc/src/contrib/Archive/IRanges_2.14.12.tar.gz")
builder for `/gnu/store/0wsvsrb2888fv8y6w511lwrwkphdga61-IRanges_2.14.12.tar.gz.drv' failed to produce output path `/gnu/store/ydsyylgwyqi7ljvzv01l8zrnc4jx5a4r-IRanges_2.14.12.tar.gz'
build of /gnu/store/0wsvsrb2888fv8y6w511lwrwkphdga61-IRanges_2.14.12.tar.gz.drv failed
View build log at '/var/log/guix/drvs/0w/svsrb2888fv8y6w511lwrwkphdga61-IRanges_2.14.12.tar.gz.drv.bz2'.
guix build: error: build failed: build of `/gnu/store/0wsvsrb2888fv8y6w511lwrwkphdga61-IRanges_2.14.12.tar.gz.drv' failed
mhw@jojen ~$ 
--8<---------------cut here---------------end--------------->8---

Could you take a look?

     Thanks,
       Mark

Re: 41/92: gnu: r-iranges: Update to 2.14.12.

[Ricardo Wurmus]

Hi Mark,

> Hydra failed to download the source tarball for IRanges-2.14.12, and I
> can't build it locally either:
>
> --8<---------------cut here---------------start------------->8---
> mhw@jojen ~$ guix build -S r-iranges
> The following derivation will be built:
>    /gnu/store/0wsvsrb2888fv8y6w511lwrwkphdga61-IRanges_2.14.12.tar.gz.drv
> building /gnu/store/0wsvsrb2888fv8y6w511lwrwkphdga61-IRanges_2.14.12.tar.gz.drv...
>
> Starting download of /gnu/store/ydsyylgwyqi7ljvzv01l8zrnc4jx5a4r-IRanges_2.14.12.tar.gz
> From https://bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.14.12.tar.gz...
> download failed "https://bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.14.12.tar.gz" 404 "Not Found"
>
> Starting download of /gnu/store/ydsyylgwyqi7ljvzv01l8zrnc4jx5a4r-IRanges_2.14.12.tar.gz
> From https://bioconductor.org/packages/3.7/bioc/src/contrib/Archive/IRanges_2.14.12.tar.gz...
> download failed "https://bioconductor.org/packages/3.7/bioc/src/contrib/Archive/IRanges_2.14.12.tar.gz" 404 "Not Found"

Since the upgrade Bioconductor 3.8 has been released, so the new archive
URL would now be:

   https://bioconductor.org/packages/3.8/bioc/src/contrib/Archive/IRanges_2.14.12.tar.gz

(I still have the source tarball for this version from before the
upgrade to 3.8.)

Unfortunately, Bioconductor does not keep an archive, so this particular
version of IRanges has completely disappeared since the upgrade to
2.16.0.

I’ll upgrade all Bioconductor packages today.

--
Ricardo