Re: [PATCH] Add r-scran 1.2.0 and all its dependencies

[Ricardo Wurmus <rekado@elephly.net>]

Hi Raoul,

> in attachment a patch for the inclusion of an  R/Bioconductor library named
> "scran" https://bioconductor.org/packages/release/bioc/html/scran.html ,
> scran has a lot of dependencies and I placed those related to
> bioinformatics/bioconductor into bioinformatics.scm and those related just
> to R insto statistics.scm.

Nice!  Thank you for your efforts!

> Let me know if this big-patch is acceptable or how do I need to submit it.

We have a policy of one commit per package.  Each commit has a commit
summary in a standard format (you’ll see when running git log).

Going through the big patch I noticed a couple of things:

* the indentation is rather uneven.  If you’re using Emacs it’s very
  simple to correct this by using TAB and/or hitting C-M-q on the
  expression.  (Also make sure parentheses are not all by themselves on
  an otherwise empty line.)

* line length (especially in descriptions) exceeds the limits.

* Please edit the descriptions.  Package descriptions for Guix have to
  use full sentences.

Judging from the indentation this doesn’t look like it was created by
the *recursive* importer.  Were there any problems using the recursive
CRAN/Bioconductor importer?

The package for “r-shiny” needs a closer look.  AFAIR it contains
minified Javascript, which does not count as actual source code.  If
that’s in fact the case we would need to fiddle with the package a
little to replace minified Javascript blobs with Javascript source files
(which may be minified as part of the build process).  I’d prefer if
“r-shiny” were added to “web.scm”.

In the “r-statmod” package expression the comment above the gfortran
input (which should be a native input) doesn’t seem to apply.

Please also double-check that the licenses are correct.  The importer
may not necessary get things right.

Finally, please use lower-case words in the synopsis.  In R packages
this is often capitalised.

Could you please send an updated patch set?

-- 
Ricardo

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