Hi Neil, Sorry to getting back to you late. I have not forgotten these issues.
Neil Shephard <[email protected]> writes: > Thanks for the comprehensive reply and explanations. > > Whilst I've no existing contact with the R development team I will > make inquiries about moving "SystemRequirements" from free text to a > more machine-readable format. > > I'm also keen to help provide feedback on R_Overlay and help with its > development where I can, to which end I have as advised re-emerged > =dev-lang/R-3.4.4 with USE=minimal and tried installing packages I > use. Quite a few packages still fail unfortunately, I'm emerging the > following.... > > [...] > 1) Outdated ebuilds > > Quite a few src packages could not be retrieved... > > # grep '404 Not Found' /var/tmp/portage/sci-CRAN/*/temp/build.log -B3 | grep > contrib > /var/tmp/portage/sci-CRAN/ggHorizon-0.1/temp/build.log---2018-03-22 > 10:10:21-- http://cran.r-project.org/src/contrib/ggHorizon_0.1.tar.gz > /var/tmp/portage/sci-CRAN/ggimage-0.0.2/temp/build.log---2018-03-22 > 10:10:35-- http://cran.r-project.org/src/contrib/ggimage_0.0.2.tar.gz > /var/tmp/portage/sci-CRAN/igraph-1.1.2/temp/build.log---2018-03-22 10:09:30-- > http://cran.r-project.org/src/contrib/igraph_1.1.2.tar.gz > /var/tmp/portage/sci-CRAN/lubridate-1.7.0/temp/build.log---2018-03-26 > 11:15:41-- http://cran.r-project.org/src/contrib/lubridate_1.7.0.tar.gz > /var/tmp/portage/sci-CRAN/Rcpp-0.12.15/temp/build.log---2018-03-22 09:11:46-- > http://cran.r-project.org/src/contrib/Rcpp_0.12.15.tar.gz > /var/tmp/portage/sci-CRAN/rgl-0.95.1441/temp/build.log---2018-03-26 > 11:23:58-- http://cran.r-project.org/src/contrib/rgl_0.95.1441.tar.gz > /var/tmp/portage/sci-CRAN/xml2-0.1.2/temp/build.log---2018-03-26 11:15:01-- > http://cran.r-project.org/src/contrib/xml2_0.1.2.tar.gz > > I suspect that this is down to the SystemRequirements issue you've > highlighted exists meaning outdated ebuilds exist in R_Overlay. I am exposing a set of unmatched strings in the description field at http://roverlay.dev.gentoo.org/unresolved.html For example, I can see the rgl case, > 2018-05-27 05:06:10 INFO DependencyResolver.UNRESOLVABLE: 0x7, 'XQuartz > (on OSX)' > 2018-05-27 05:06:10 INFO DependencyResolver.UNRESOLVABLE: 0x7, > 'zlib(optional)' > 2018-05-27 05:06:10 INFO DependencyResolver.UNRESOLVABLE: 0x7, 'libpng > (>=1.2.9' > 2018-05-27 05:06:10 INFO DependencyResolver.UNRESOLVABLE: 0x7, 'pandoc > (>=1.14' > 2018-05-27 05:06:10 INFO DependencyResolver.UNRESOLVABLE: 0x7, 'needed > for vignettes)' > 2018-05-27 05:06:10 INFO EbuildCreation.rgl.depres: Cannot satisfy > dependencies! > 2018-05-27 05:06:10 INFO EbuildCreation.rgl: Cannot create an ebuild for > this package (status=-2). > 2018-05-27 05:06:10 DEBUG OverlayCreator.R_Overlay.sci-CRAN.rgl: removing > 0.99.16 from rgl These are non-machine readable strings that calls for special treatments. We should make a better parser for these. > 2) Checksums failed > > Three packages failed to emerge due to Checksums of the fetched src not > matching > > # grep 'checksum' -i /var/tmp/portage/sci-CRAN/*/temp/build.log -B60 | grep > contrib > /var/tmp/portage/sci-CRAN/Matrix-1.2.12/temp/build.log---2018-03-26 > 12:34:13-- http://cran.r-project.org/src/contrib/Matrix_1.2-12.tar.gz > /var/tmp/portage/sci-CRAN/mvtnorm-1.0.7/temp/build.log---2018-03-26 > 12:33:25-- http://cran.r-project.org/src/contrib/mvtnorm_1.0-7.tar.gz > /var/tmp/portage/sci-CRAN/nloptr-1.0.4/temp/build.log---2018-03-26 > 12:33:05-- http://cran.r-project.org/src/contrib/nloptr_1.0.4.tar.gz Hmmm, it looks like the upstream has silently replaced the tarballs. Duh. > 3) 'File Not Found' > > The majority failed after the build and installation had occurred > within R and control had returned to Portage with "File Not Found" > errors similar to the following... This has been my silly typo... Now fixed. Cheers, Benda
