gnu: glibc/hurd: Do not apply i686 patch.

This is a follow-up to commit c2e4f14ac8cd3e1ce7f46a192ad0c9acc084b210.

* gnu/packages/base.scm (glibc/hurd)[arguments]: Override pre-configure phase
with a copy that does not include the patch application.

gnu: glibc/hurd: Use modify-phases syntax.

* gnu/packages/base.scm (glibc/hurd)[arguments]: Use modify-phases syntax.

gnu: emacspeak: Update to 46.0.

* gnu/packages/emacs.scm (emacspeak): Update to 46.0.
[source]: Add snippet to delete pre-compiled Emacs Lisp files.
[arguments]: Adjust phases for the update.

import cran: Check if pkg-config is needed.

* guix/import/cran.scm (needs-pkg-config?): New procedure.
(description->package): Use it.

import cran: Refactor "needs-zlib?".

* guix/import/cran.scm (tarball-files-match-pattern?): New procedure.
(needs-zlib?): Implement in terms of "tarball-files-match-pattern?".

import cran: Export package predicates.

* guix/import/cran.scm (cran-package?, bioconductor-package?,
bioconductor-data-package?, bioconductor-experiment-package?): Export
procedures.

import cran: Add predicate for Bioconductor experiment packages.

* guix/import/cran.scm (bioconductor-experiment-package?): New variable.

import cran: Exclude experiment packages in predicate "bioconductor-package?".

* guix/import/cran.scm (bioconductor-package?): Exclude experiment packages,
because they cannot be updated with the default bioconductor updater.

import cran: Fetch DESCRIPTION files from Github mirror.

* guix/import/cran.scm (%bioconductor-svn-url): Remove variable.
(bioconductor-mirror-url): New procedure.
(fetch-description): Take a REPOSITORY symbol instead of a BASE-URL string.
(cran->guix-package): Pass REPOSITORY symbol to "fetch-description".
(latest-cran-release, latest-bioconductor-release): Adjust accordingly.
(bioconductor-package?): Update comment about SVN.

gnu: tor: Update to 0.3.0.7.

* gnu/packages/tor.scm (tor): Update to 0.3.0.7.

gnu: java-stringtemplate: Get closer to fixing tests.

* gnu/packages/java.scm (java-stringtemplate)[arguments]: Set test-dir and
override default test target.  Keep tests disabled because they fail for
unknown reasons.
[inputs]: Add java-junit.

gnu: Rename stringtemplate4-4.0.6 to java-stringtemplate-4.0.6.

* gnu/packages/java.scm (stringtemplate4-4.0.6): Rename this...
(java-stringtemplate-4.0.6): ...to this.
(antlr3)[propagated-inputs]: Adjust accordingly.

gnu: Rename stringtemplate4 to java-stringtemplate.

* gnu/packages/java.scm (stringtemplate4): Rename this...
(java-stringtemplate): ...to this.
(stringtemplate4-4.0.6)[inherit]: Adjust accordingly.
(antlr3)[inputs]: Likewise.

gnu: stringtemplate4: Prettify "generate-grammar" phase.

* gnu/packages/java.scm (stringtemplate4)[arguments]: Rewrite
"generate-grammar" phase to use "with-directory-excursion" and to report
success or failure.

gnu: stringtemplate4: Inherit from java-stringtemplate-3.

* gnu/packages/java.scm (stringtemplate4)[inherit]: Add
"java-stringtemplate-3" as parent.
[home-page, synopsis, description, license]: Inherit from parent.

gnu: java-stringtemplate-3: Use return value in build phase.

* gnu/packages/java.scm (java-stringtemplate-3)[arguments]: Let
build phase "generate-grammar" return success or failure.

gnu: java-stringtemplate-3: Enable tests.

* gnu/packages/java.scm (java-stringtemplate-3)[arguments]: Enable tests; add
build phase to fix tests.

gnu: java-stringtemplate-3: Do not hardcode version string.

* gnu/packages/java.scm (java-stringtemplate-3)[arguments]: Take current
version string.

gnu: Rename stringtemplate3 to java-stringtemplate-3.

* gnu/packages/java.scm (stringtemplate3): Replace this...
(java-stringtemplate-3): ...with this.
[name]: Change to "java-stringtemplate".
(stringtemplate4)[inputs]: Adjust accordingly.
(stringtemplate4-4.0.6)[inputs]: Likewise.
(antlr3)[inputs, propagated-inputs]: Likewise.
(antlr3-3.3)[propagated-inputs, arguments]: Likewise.
(antlr3-3.1)[propagated-inputs]: Likewise.

doc: Update the documentation for the asdf build systems.

* doc/guix.texi (Build Systems): Remove the no-longer relevant parts about
naming inputs.  Add documentation for the new parameters #:asd-system-name and
 #:test-asd-file.