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Mon, 2 Jun 2014 12:08:11 +0000 (UTC) From: "Martin Mokrejs" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "Martin Mokrejs" Message-ID: <1401710818.cb2f6200cc1de77fcdb6b3ac1b5b1d835ab4225f.mmokrejs@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/ncbi-tools++/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/ncbi-tools++/ncbi-tools++-12.0.0.ebuild sci-biology/ncbi-tools++/ncbi-tools++-9.0.0-r1.ebuild sci-biology/ncbi-tools++/ncbi-tools++-9.0.0.ebuild X-VCS-Directories: sci-biology/ncbi-tools++/ X-VCS-Committer: mmokrejs X-VCS-Committer-Name: Martin Mokrejs X-VCS-Revision: cb2f6200cc1de77fcdb6b3ac1b5b1d835ab4225f X-VCS-Branch: master Date: Mon, 2 Jun 2014 12:08:11 +0000 (UTC) Precedence: bulk List-Post: List-Help: List-Unsubscribe: List-Subscribe: List-Id: Gentoo Linux mail X-BeenThere: gentoo-commits@lists.gentoo.org X-Archives-Salt: 32d70acc-f247-4091-8944-78d6f10c77be X-Archives-Hash: fce878f193d1d6f97c5c7bbc0f8d80c9 commit: cb2f6200cc1de77fcdb6b3ac1b5b1d835ab4225f Author: Martin Mokrejš fold natur cuni cz> AuthorDate: Mon Jun 2 12:06:58 2014 +0000 Commit: Martin Mokrejs fold natur cuni cz> CommitDate: Mon Jun 2 12:06:58 2014 +0000 URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=cb2f6200 sci-biology/ncbi-tools++: added a note about a taxonomy database add-on not yet installed by Gentoo --- sci-biology/ncbi-tools++/ncbi-tools++-12.0.0.ebuild | 3 +++ sci-biology/ncbi-tools++/ncbi-tools++-9.0.0-r1.ebuild | 4 ++++ sci-biology/ncbi-tools++/ncbi-tools++-9.0.0.ebuild | 5 +++++ 3 files changed, 12 insertions(+) diff --git a/sci-biology/ncbi-tools++/ncbi-tools++-12.0.0.ebuild b/sci-biology/ncbi-tools++/ncbi-tools++-12.0.0.ebuild index d4a5085..3b19a93 100644 --- a/sci-biology/ncbi-tools++/ncbi-tools++-12.0.0.ebuild +++ b/sci-biology/ncbi-tools++/ncbi-tools++-12.0.0.ebuild @@ -18,6 +18,8 @@ SRC_URI=" ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/ARCHIVE/${MY_PV}/ncbi_cxx--${MY_PV}.tar.gz" # http://dev.gentoo.org/~jlec/distfiles/${PN}-${PV#0.}-asneeded.patch.xz" +# should also install ftp://ftp.ncbi.nlm.nih.gov/blast/db/taxdb.tar.gz +# see http://www.biostars.org/p/76551/ and http://blastedbio.blogspot.cz/2012/05/blast-tabular-missing-descriptions.html LICENSE="public-domain" SLOT="0" IUSE=" @@ -271,6 +273,7 @@ src_configure() { # --without-static \ # --with-dll \ # --with-mt \ +# --with-openmp \ # --with-lfs \ # --prefix="${ED}"/usr \ # --libdir="${ED}"/usr/$(get_libdir)/"${PN}" \ diff --git a/sci-biology/ncbi-tools++/ncbi-tools++-9.0.0-r1.ebuild b/sci-biology/ncbi-tools++/ncbi-tools++-9.0.0-r1.ebuild index 7b3ba9e..89ae176 100644 --- a/sci-biology/ncbi-tools++/ncbi-tools++-9.0.0-r1.ebuild +++ b/sci-biology/ncbi-tools++/ncbi-tools++-9.0.0-r1.ebuild @@ -18,6 +18,9 @@ SRC_URI=" ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/ARCHIVE/${MY_PV}/ncbi_cxx--${MY_PV}.tar.gz" # http://dev.gentoo.org/~jlec/distfiles/${PN}-${PV#0.}-asneeded.patch.xz" +# should also install ftp://ftp.ncbi.nlm.nih.gov/blast/db/taxdb.tar.gz +# see http://www.biostars.org/p/76551/ and http://blastedbio.blogspot.cz/2012/05/blast-tabular-missing-descriptions.html + LICENSE="public-domain" SLOT="0" IUSE=" @@ -281,6 +284,7 @@ src_configure() { # --without-static \ # --with-dll \ # --with-mt \ +# --with-openmp \ # --with-lfs \ # --prefix="${ED}"/usr \ # --libdir="${ED}"/usr/$(get_libdir)/"${PN}" \ diff --git a/sci-biology/ncbi-tools++/ncbi-tools++-9.0.0.ebuild b/sci-biology/ncbi-tools++/ncbi-tools++-9.0.0.ebuild index 2824e09..8020276 100644 --- a/sci-biology/ncbi-tools++/ncbi-tools++-9.0.0.ebuild +++ b/sci-biology/ncbi-tools++/ncbi-tools++-9.0.0.ebuild @@ -18,6 +18,9 @@ SRC_URI=" ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/ARCHIVE/${MY_PV}/ncbi_cxx--${MY_PV}.tar.gz" # http://dev.gentoo.org/~jlec/distfiles/${PN}-${PV#0.}-asneeded.patch.xz" +# should also install ftp://ftp.ncbi.nlm.nih.gov/blast/db/taxdb.tar.gz +# see http://www.biostars.org/p/76551/ and http://blastedbio.blogspot.cz/2012/05/blast-tabular-missing-descriptions.html + LICENSE="public-domain" SLOT="0" IUSE="berkdb boost bzip2 cppunit curl expat fastcgi fltk freetype ftds gif glut gnutls hdf5 icu jpeg lzo mesa mysql muparser opengl pcre png python sablotron sqlite sqlite3 ssl tiff xerces xalan xml xpm xslt X" @@ -283,6 +286,8 @@ src_configure() { --libdir="${ED}"/usr/$(get_libdir)/"${PN}" \ ${myconf} LDFLAGS="-Wl,--no-as-needed" \ || die + + # --with-openmp } src_compile() {