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commit: f24839e7208c79e59b719ca80d9c4fee81c4868f |
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Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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AuthorDate: Mon Aug 1 22:49:13 2016 +0000 |
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Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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CommitDate: Mon Aug 1 22:49:13 2016 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=f24839e7 |
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|
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sci-biology/plink: non-maintainer commit |
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|
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Re-add USE=lapack logic adjusted to current sources which got lost in |
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plink-1.90_pre140514 , could work around bug #589068 |
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|
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Package-Manager: portage-2.3.0 |
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|
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sci-biology/plink/metadata.xml | 8 -------- |
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sci-biology/plink/plink-1.90_pre160731.ebuild | 20 +++++++++++++++----- |
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2 files changed, 15 insertions(+), 13 deletions(-) |
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|
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diff --git a/sci-biology/plink/metadata.xml b/sci-biology/plink/metadata.xml |
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index c281934..8417d15 100644 |
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--- a/sci-biology/plink/metadata.xml |
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+++ b/sci-biology/plink/metadata.xml |
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@@ -5,12 +5,4 @@ |
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<email>sci-biology@g.o</email> |
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<name>Gentoo Biology Project</name> |
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</maintainer> |
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- <use> |
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- <flag name="webcheck"> |
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- add support for online update checking every time the program starts |
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- </flag> |
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- <flag name="R"> |
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- add support R language |
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- </flag> |
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- </use> |
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</pkgmetadata> |
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|
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diff --git a/sci-biology/plink/plink-1.90_pre160731.ebuild b/sci-biology/plink/plink-1.90_pre160731.ebuild |
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index d75584a..b57d6b1 100644 |
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--- a/sci-biology/plink/plink-1.90_pre160731.ebuild |
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+++ b/sci-biology/plink/plink-1.90_pre160731.ebuild |
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@@ -14,16 +14,15 @@ SRC_URI="https://www.cog-genomics.org/static/bin/plink160731/plink_src.zip -> ${ |
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LICENSE="GPL-3+" |
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SLOT="0" |
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KEYWORDS="~amd64 ~x86" |
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-IUSE="" |
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+IUSE="lapack" |
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|
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DEPEND=" |
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app-arch/unzip |
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virtual/pkgconfig" |
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RDEPEND=" |
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sys-libs/zlib |
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- virtual/cblas |
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- virtual/lapack |
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- " |
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+ lapack? ( virtual/lapack |
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+ virtual/cblas )" |
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|
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S="${WORKDIR}/" |
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|
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@@ -31,6 +30,7 @@ S="${WORKDIR}/" |
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# Package contains bytecode-only jar gPLINK.jar. Ignored, notified upstream. |
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|
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src_prepare() { |
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+ rm -rf zlib-1.2.8 || die |
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sed \ |
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-e 's:zlib-1.2.8/zlib.h:zlib.h:g' \ |
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-i *.{c,h} || die |
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@@ -40,17 +40,27 @@ src_prepare() { |
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-e 's:gcc:$(CC):g' \ |
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-e 's:gfortran:$(FC):g' \ |
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-i Makefile || die |
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+ if ! use lapack; then |
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+ sed -e 's/^NO_LAPACK =/NO_LAPACK = 1/' -i Makefile || die |
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+ sed -e 's@^// #define NOLAPACK@#define NOLAPACK@' -i plink_common.h || die |
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+ fi |
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tc-export PKG_CONFIG |
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} |
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|
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src_compile() { |
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+ local blasflags |
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+ use lapack && blasflags="$($(tc-getPKG_CONFIG) --libs lapack cblas)" |
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emake \ |
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CXX=$(tc-getCXX) \ |
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CFLAGS="${CFLAGS}" \ |
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ZLIB="$($(tc-getPKG_CONFIG) --libs zlib)" \ |
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- BLASFLAGS="$($(tc-getPKG_CONFIG) --libs lapack cblas)" |
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+ BLASFLAGS="$blasflags" |
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} |
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|
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src_install() { |
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newbin plink p-link |
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} |
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+ |
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+pkg_postinst(){ |
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+ einfo "plink binary is now renamed to p-link to avoid file collision" |
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+} |