* gnu/packages/javascript.scm (mujs): Update to 1.0.6.
[source]: Download using url-fetch.
[arguments]: Update 'install-shared-library phase.
[home-page]: Update to new home-page.
Includes fixes for CVE-2019-9811, CVE-2019-11709, CVE-2019-11711,
CVE-2019-11712, CVE-2019-11713, CVE-2019-11715, CVE-2019-11717,
CVE-2019-11719, CVE-2019-11729, and CVE-2019-11730.
* gnu/packages/gnuzilla.scm (%icecat-version): Update to 60.8.0-guix1.
(icecat-source)[upstream-firefox-source]: Update hash.
(icecat): Refresh some stale comments.
The configure script will warn that "make indent" is unavailable, but
apart from that this input is not actually used for the build process.
* gnu/packages/flex.scm (flex)[inputs]: Remove INDENT.
* gnu/packages/commencement.scm (flex-boot0)[inputs]: Likewise.
The patch for glibc 2.28 and earlier replaces the same content, but the context
in the patch is different enough to fail to merge.
* gnu/packages/base.scm (make-glibc-locales)[source]: Add patch.
* gnu/packages/patches/glibc-locales.patch: Adjust for glibc 2.29 and move old
file...
* gnu/packages/patches/glibc-locales-2.28.patch: ...here.
* gnu/local.mk (dist_patch_DATA): Add it.
The 'glibc-supported-locales.patch' was updated for glibc 2.29, breaking
compatibility with 2.27. Add a 2.27-specific supported locales patch.
* gnu/packages/patches/glibc-2.27-supported-locales.patch: New file.
* gnu/packages/base.scm (glibc-2.27)[source](patches): Use
'glibc-2.27-supported-locales.patch' instead.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/finance.scm (bitcoin-core): Update to 0.18.0.
[inputs]: Use bdb-4.8 for compatibility.
[arguments]: Remove --with-incompatible-bdb from configure flags and add
check-functional phase for functional tests.
* gnu/packages/dbm.scm (bdb-4.8): New variable.
[arguments]: Configure and build from 'build_unix' directory as
mentioned in documentation.
(bdb-5.3): Inherit from bdb-4.8.
(bdb-6): Inherit from bdb-4.8.
(bdb): Point to bdb-6.
Previously, this code would cause crashes in Guix (running guix package -s for
example) which could be experienced when Emacs creates temporary files in the
gnu/packages/patches directory when a patch file has been edited, but not
saved.
* guix/discovery.scm (scheme-files): Add else clause to cond used when
handling symlinks.
Don't flatten it into a string only to split it again later.
* etc/guix-install.sh (chk_require): Iterate over array elements, not
string tokens.
(main): Pass $REQUIRE as an array of arguments.
* doc/guix.texi (Invoking guix environment): Add --no-cwd.
* guix/scripts/environment.scm (show-help, %options): Add --no-cwd.
(launch-environment/container): Add 'map-cwd?' param; only add mapping
for cwd if #t. Only change to cwd within container if #t, otherwise
home.
(guix-environment): Error if --no-cwd without --container. Provide
'(not no-cwd?)' to launch-environment/container as 'map-cwd?'.
* tests/guix-environment.sh: Add test for no-cwd.
Co-authored-by: Mike Gerwitz <mtg@gnu.org>
* guix/scripts/environment.scm (launch-environment/container): Only
apply override-user-mappings to user-mappings and cwd. Do not apply to
network configuration mapping and inputs.
This is needed to deprecate r-biocinstaller, which is no longer
distributed.
* gnu/packages/bioinformatics.scm (r-xbioc): Update to 0.1.16-1.6ff0670.
[propagated-inputs]: Replace deprecated r-biocinstaller with
r-biocmanager.
Tobias Geerinckx-Rice