commit: 0a5a7511e618764600d35bd6d03c08b1ecf7f0f9 Author: Ted Tanberry <ted.tanberry <AT> gmail <DOT> com> AuthorDate: Sun Mar 15 18:17:50 2015 +0000 Commit: Justin Lecher <jlec <AT> gentoo <DOT> org> CommitDate: Sun Mar 15 18:17:50 2015 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=0a5a7511
Updated sci-biology/tablet-bin to latest version, removed stale ebuilds. sci-biology/tablet-bin/ChangeLog | 9 ++- .../tablet-bin/tablet-bin-1.13.12.17.ebuild | 90 ---------------------- ...4.04.10.ebuild => tablet-bin-1.14.10.21.ebuild} | 8 +- 3 files changed, 12 insertions(+), 95 deletions(-) diff --git a/sci-biology/tablet-bin/ChangeLog b/sci-biology/tablet-bin/ChangeLog index 7128ae0..6864475 100644 --- a/sci-biology/tablet-bin/ChangeLog +++ b/sci-biology/tablet-bin/ChangeLog @@ -1,7 +1,14 @@ # ChangeLog for sci-biology/tablet-bin -# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2 +# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 # $Header: $ +*tablet-bin-1.14.10.21 (15 Mar 2015) + + 15 Mar 2015; Ted Tanberry <[email protected]> + +tablet-bin-1.14.10.21.ebuild, + -tablet-bin-1.13.12.17.ebuild, -tablet-bin-1.14.04.10.ebuild: + Version bump, update SRC_URI, remove dead ebuilds + 16 Sep 2014; Christoph Junghans <[email protected]> tablet-bin-1.14.04.10.ebuild: clean up diff --git a/sci-biology/tablet-bin/tablet-bin-1.13.12.17.ebuild b/sci-biology/tablet-bin/tablet-bin-1.13.12.17.ebuild deleted file mode 100644 index 7b7d001..0000000 --- a/sci-biology/tablet-bin/tablet-bin-1.13.12.17.ebuild +++ /dev/null @@ -1,90 +0,0 @@ -# Copyright 1999-2014 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: $ - -EAPI=5 - -PYTHON_COMPAT=( python{2_6,2_7} ) - -inherit java-pkg-2 python-r1 - -DESCRIPTION="Viewer of next generation sequence assemblies and alignments." -HOMEPAGE="http://bioinf.scri.ac.uk/tablet/"; -SRC_URI=" - x86? ( http://bioinf.scri.ac.uk/tablet/installers/tablet_linux_x86_$(replace_all_version_separators _).sh -> ${P}.sh ) - amd64? ( http://bioinf.scri.ac.uk/tablet/installers/tablet_linux_x64_$(replace_all_version_separators _).sh -> ${P}.sh ) - http://bioinf.scri.ac.uk/tablet/additional/coveragestats.py"; - -# Upstream says regarding source code unavailability: -# Tablet uses a modified version of the BSD License which has been edited to -# remove references to distribution and use in source forms. This means that -# we are happy for you to distribute and use Tablet however you please, but we -# do not (yet) want to make the source code publicly available. - -# The licence file itself is in the installer, and ends up on disk after -# installation at /opt/Tablet/docs/tablet.html -# The original BSD licence was modified to remove references to distribution -# and use in source forms, because we cannot make the source code available -# for Tablet. - -LICENSE="Tablet" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="" - -REQUIRED_USE="${PYTHON_REQUIRED_USE}" - -DEPEND="${PYTHON_DEPS}" -RDEPEND="${DEPEND} - virtual/jre" - -S="${WORKDIR}" - -src_unpack() { - local file - for file in ${A}; do - cp "${DISTDIR}"/${file} "${WORKDIR}" || die - done -} - -src_install() { - # In theory it seems this binary package could be installed through ant - # instead of the install4j package which is not easy to be forced - # non-interactive. The below approach via install4j is not ideal but works. - sed "s#\"\${D}\"#\"${D}\"#g" "${FILESDIR}"/response.varfile > "${WORKDIR}"/response.varfile || die "sed failed" - - # the intallation script somehow does not pickup - # -varfile="${DISTDIR}"/response.varfile from the commandline and therefore - # we place the file rather directly into the place where it should reside. - # In the file you can read details how the variables were mangled. For - # example, the trick with sys.symlinkDir in the response.varfile is to - # disable the installation process to symlink from /usr/local/bin/table to - # /opt/Tablet/tablet. That was logged in that file with the following line: - # - # /var/tmp/portage/sci-biology/tablet-bin-1.11.02.18/image/opt/Tablet/.install4j/installation.log: - # Variable changed: sys.symlinkDir=/usr/local/bin[class java.lang.String] - # - # The file is then left on the installed system in "${D}"/opt/Tablet/.install4j/response.varfile - dodir /opt/Tablet/.install4j - cat "${WORKDIR}"/response.varfile > "${ED}"/opt/Tablet/.install4j/response.varfile || die - - # make sure we force java to point a to $HOME which is inside our sanbox - # directory area. We force -Duser.home . It seems also -Dinstall4j.userHome - # could be done based on the figure shown at http://resources.ej-technologies.com/install4j/help/doc/ - sed \ - -e "s#/bin/java\" -Dinstall4j.jvmDir#/bin/java\" -Duser.home="${TMPDIR}" -Dinstall4j.jvmDir#" \ - -i "${WORKDIR}"/${P}.sh || die - sh \ - "${WORKDIR}"/${P}.sh \ - -q -overwrite \ - -varfile="${DISTDIR}"/response.varfile \ - --destination="${ED}"/opt/Tablet \ - -dir "${ED}"/opt/Tablet || die - - rm -rf "${ED}"/opt/Tablet/jre || die - - python_foreach_impl python_doscript "${WORKDIR}"/coveragestats.py - - echo "PATH=${EPREFIX}/opt/Tablet" > 99Tablet - doenvd 99Tablet || die -} diff --git a/sci-biology/tablet-bin/tablet-bin-1.14.04.10.ebuild b/sci-biology/tablet-bin/tablet-bin-1.14.10.21.ebuild similarity index 91% rename from sci-biology/tablet-bin/tablet-bin-1.14.04.10.ebuild rename to sci-biology/tablet-bin/tablet-bin-1.14.10.21.ebuild index d13ad0c..4f36d7e 100644 --- a/sci-biology/tablet-bin/tablet-bin-1.14.04.10.ebuild +++ b/sci-biology/tablet-bin/tablet-bin-1.14.10.21.ebuild @@ -1,4 +1,4 @@ -# Copyright 1999-2014 Gentoo Foundation +# Copyright 1999-2015 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 # $Header: $ @@ -11,9 +11,9 @@ inherit java-pkg-2 python-r1 DESCRIPTION="Viewer of next generation sequence assemblies and alignments." HOMEPAGE="http://bioinf.scri.ac.uk/tablet/"; SRC_URI=" - x86? ( http://bioinf.scri.ac.uk/tablet/installers/tablet_linux_x86_$(replace_all_version_separators _).sh -> ${P}.sh ) - amd64? ( http://bioinf.scri.ac.uk/tablet/installers/tablet_linux_x64_$(replace_all_version_separators _).sh -> ${P}.sh ) - http://bioinf.scri.ac.uk/tablet/additional/coveragestats.py"; + x86? ( http://bioinf.hutton.ac.uk/tablet/installers/tablet_linux_x86_$(replace_all_version_separators _).sh -> ${P}.sh ) + amd64? ( http://bioinf.hutton.ac.uk/tablet/installers/tablet_linux_x64_$(replace_all_version_separators _).sh -> ${P}.sh ) + http://bioinf.hutton.ac.uk/tablet/additional/coveragestats.py"; # Upstream says regarding source code unavailability: # Tablet uses a modified version of the BSD License which has been edited to
