Suggested by Mark H Weaver <mhw@netris.org>.
* gnu/system.scm (certificate-bundle): New procedure.
(etc-directory): Use it.
[profile]: Set 'SSL_CERT_DIR', 'SSL_CERT_FILE', and 'GIT_SSL_CAINFO'.
This was a useful example back in July 2012, but not very useful
beyond that.
* gnu/packages/guile.scm (guile-reader): Turn into a plain package.
[source]: Use mirror:// URI.
[inputs]: Use GUILE-2.0.
[arguments]: Use the site/2.0 directory for --with-moduledir.
(guile-reader/guile-1.8, guile-reader/guile-2.0): Remove.
* gnu/packages/llvm.scm (llvm): Update to 3.6.0.
(clang-from-llvm): New procedure.
(clang): Update to 3.6.0. Reimplement using 'clang-from-llvm'.
(llvm-3.5, clang-3.5): New variables.
* gnu/packages/bioinformatics.scm (crossmap): New variable.
* gnu/packages/patches/crossmap-allow-system-pysam.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
In <http://hydra.gnu.org/build/263170>, we see:
153: 12 [patch-usr-bin-file #:native-inputs #f ...]
[...]
?: 1 [regexp-exec # ...]
In ice-9/boot-9.scm:
106: 0 [#<procedure 1998ec0 at ice-9/boot-9.scm:97:6 (thrown-k . args)> encoding-error ...]
ice-9/boot-9.scm:106:20: In procedure #<procedure 1998ec0 at ice-9/boot-9.scm:97:6 (thrown-k . args)>:
ice-9/boot-9.scm:106:20: Throw to key `encoding-error' with args `("scm_to_stringn" "cannot convert narrow string to output locale" 84 #f #f)'.
This is due to that fact that 'patch-/usr/bin/file' read a line
containing a byte sequence with bytes > 127 (namely a copyright sign.)
But this build was running with a C locale, and so those bytes cannot be
represented in that locale, hence this error.
This commit makes the UTF-8 locales available earlier such that
everything can be represented in locale encoding.
* gnu/packages/commencement.scm (glibc-utf8-locales-final): Move
earlier; change "gzip" input to GZIP built with %BOOT4-INPUTS.
(%boot5-inputs): Define to %BOOT4-INPUTS plus
GLIBC-UTF8-LOCALES-FINAL.
(gnu-make-final, coreutils-final, grep-final): Use it instead of
%BOOT4-INPUTS.
(gzip-final): Remove.
(%boot6-inputs): New variable.
(%final-inputs): Use it instead of %BOOT5-INPUTS. Don't rely on
GZIP-FINAL.
Previously processes started from the window manager would have a couple
of leaked file descriptors: writable /var/log/slim.log and readable
/gnu/store/…-xinitrc.
* gnu/services/xorg.scm (xinitrc)[builder]: Add 'close-all-fdes'. Use
it in 'exec-from-login-shell'.
* guix/build/gnu-build-system.scm (gnu-build): Leave
%DEFAULT-PORT-CONVERSION-STRATEGY unchanged when 'string->bytevector'
fails to convert to ISO-8859-1. This is an attempt to work around the
build failures at <http://hydra.gnu.org/build/263002>.
Ludovic Courtès