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* sci-physics/root: fix Cling library loadAndrew Savchenko2014-07-024-9/+461
| | | | | It was broken for prefix builds (that's how ROOT is installed in Gentoo. See bug https://sft.its.cern.ch/jira/browse/ROOT-6410.
* Merge remote-tracking branch 'gentoo/master' into upstream-masterJauhien Piatlicki2014-07-022-2/+6
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| * Tested on x64-macos, keywording.François Bissey2014-07-022-2/+6
| | | | | | | | Package-Manager: portage-2.2.10
* | Merge pull request #234 from aufau/pynomoJustin2014-07-014-0/+57
|\ \ | |/ |/| dev-python/pynomo: New package for bug #515682
| * dev-python/pynomo: New package for bug #515682Witold Pilat2014-07-014-0/+57
|/ | | | Package-Manager: portage-2.2.10
* Merge branch 'jonasstein-master'Justin Lecher2014-07-013-0/+52
|\ | | | | | | | | * jonasstein-master: add Clip4, the Cologne Laue Indexiation Program
| * add Clip4, the Cologne Laue Indexiation ProgramJonas Stein2014-06-303-0/+52
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* | Tweak src_install for OS X support. Added documentation in the ebuild itself.François Bissey2014-07-012-1/+7
|/ | | | Package-Manager: portage-2.2.10
* sci-chemistry/coot: Fix sandbox violationJustin Lecher2014-06-303-1/+28
| | | | Package-Manager: portage-2.2.10
* app-doc/root-docs: fix unpack stage for non-live versionsAndrew Savchenko2014-06-301-0/+2
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* sci-mathematics/scilab: support jdk1.8Guillaume Horel2014-06-293-1/+82
| | | | Package-Manager: portage-2.2.10
* sci-physics/root, app-doc/root-docs: version bump to ROOT-6Andrew Savchenko2014-06-2928-923/+1020
| | | | | This is a major version bump for ROOT-6. Please refer to package's ChangeLog files for details. Testing is welcome.
* Merge remote-tracking branch 'gentoo/master' into upstream-masterJauhien Piatlicki2014-06-2829-83/+6516
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| * Added forgotten patch files for sci-libs/bigdft-abi. ↵Honza Macháček2014-06-276-0/+5810
| | | | | | | | bigdft-abi-1.0.4-0005.patch too big for repoman's taste.
| * Version bumped to 7.6.4. ScaLAPACK support, and use of the MPI ↵Honza Macháček2014-06-274-5/+416
| | | | | | | | | | | | implementation of sci-libs/fftw added. Minor attempts on enhancements and cleanup. Package-Manager: portage-2.2.10
| * The Abinit patches incorporated in sci-libs/bigdft-abi-1.0.4-r3.ebuild. When ↵Honza Macháček2014-06-274-34/+62
| | | | | | | | | | | | compiling against sci-libs/scalapack, made to use ScaLAPACK as BLACS as well, not to break sci-physics/abinit by defining fake BLACS routines. Testing removed to appease repoman and avoid copying of all the old test suite over the current broken version. Package-Manager: portage-2.2.10
| * sci-libs/libxc-2.0.3.ebuild adjusted to export the C preprocessor name in ↵Honza Macháček2014-06-272-1/+9
| | | | | | | | | | | | the FCCPP variable that the build system looks for Package-Manager: portage-2.2.10
| * Update chimera to new versionAlexey Shvetsov2014-06-273-1/+101
| | | | | | | | Package-Manager: portage-2.2.10
| * sci-biology/prot4EST: remove version numbers from the installed binary filenameMartin Mokrejš2014-06-271-0/+1
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| * sci-biology/BamView: fixed java depsMartin Mokrejš2014-06-271-2/+3
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| * sci-biology/VelevtOptimiser: dropping perl version requirement as I am ↵Martin Mokrejš2014-06-271-1/+1
| | | | | | | | unbale to check for >=5.8 but make sure 5.16 evaluates as True
| * sci-biology/ncbi-tools++-12.0.0: improved comment textMartin Mokrejš2014-06-261-1/+4
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| * sci-biology/ncbi-tools++: so require media-libs/mesa[osmesa] for USE=mesaMartin Mokrejš2014-06-263-3/+3
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| * sci-biology/ncbi-tools++: reworked patchMartin Mokrejš2014-06-261-6/+6
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| * sci-biology/ncbi-tools++: bring back USE=mesa although it is about OSMesaMartin Mokrejš2014-06-263-11/+9
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| * sci-biology/ncbi-tools++: fix 'make install if USE=pchMartin Mokrejš2014-06-262-0/+12
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| * sci-biology/ncbi-tools++: dropped USE=ftds as it is useless and recommended ↵Martin Mokrejš2014-06-263-24/+17
| | | | | | | | by upstream to be disabled altogether
| * sci-biology/ncbi-tools++-12.0.0: drop forgotten IUSE=sslMartin Mokrejš2014-06-261-1/+1
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| * sci-biology/ncbi-tools++-12.0.0: added a blocker with sci-biology/sra_sdkMartin Mokrejš2014-06-261-0/+1
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| * sci-biology/ncbi-tools++-12.0.0: more places where to drop ':%=%'Martin Mokrejš2014-06-261-1/+1
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| * sci-biology/ncbi-tools++-12.0.0: more entries to ↵Martin Mokrejš2014-06-261-0/+22
| | | | | | | | ncbi-tools++-12.0.0-drop-STATIC-from-LIB.patch
| * sci-biology/ncbi-tools++-12.0.0: added the patch istelf dropping :%=% from ↵Martin Mokrejš2014-06-261-0/+22
| | | | | | | | LIB settings
| * sci-biology/ncbi-tools++-12.0.0: dropping :%=% from LIB settingsMartin Mokrejš2014-06-261-0/+1
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| * sci-biology/ncbi-tools++-9.0.0*: dropped altogether openssl-related USE ↵Martin Mokrejš2014-06-262-13/+5
| | | | | | | | flags and configure arguments (per upstream info nothing in the public code uses openssl and the configure test is there for their internal reasonings); dropped gnutls[lzo] requirement which was only need for unpatched 9.0.0 version; however, --with-lzo is still advantageous for http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/group__Compression.htmlhttp://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/group__CompressionStreams.html
| * sci-biology/ncbi-tools++-12.0.0: dropped altogether openssl-related USE ↵Martin Mokrejš2014-06-261-3/+1
| | | | | | | | flags and configure arguments (per upstream info nothing in the public code uses openssl and the configure test is there for their internal reasonings); dropped gnutls[lzo] requirement which was only need for unpatched 9.0.0 version; however, --with-lzo is still advantageous for http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/group__Compression.htmlhttp://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/group__CompressionStreams.html
| * sci-biology/barrnap: working ebuild although installing a pre-compiled ↵Martin Mokrejš2014-06-262-0/+33
| | | | | | | | | | | | binary and until somebody hacks teh main perl code it need to be installed into /usr/share/{PN} and modifies PATH accordingly Package-Manager: portage-2.2.7
| * Merge branch 'master' of git+ssh://git.overlays.gentoo.org/proj/sciMartin Mokrejš2014-06-264-7/+8
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| * | sci-biology/ncbi-tools++-12.0.0: cleanup comments and shutdown a false alarm ↵Martin Mokrejš2014-06-261-2/+1
| | | | | | | | | | | | message from mv
* | | sci-libs/armadillo: version bump to 4.300.9Jauhien Piatlicki2014-06-284-3/+121
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* | add flint dependencyThomas Kahle2014-06-262-0/+4
| | | | | | | | Package-Manager: portage-2.2.8-r1
* | live ebuild updateChristoph Junghans2014-06-252-7/+4
|/ | | | Package-Manager: portage-2.2.8-r1
* sci-biology/ncbi-tools++-12.0.0: dropped unneeded patchMartin Mokrejš2014-06-261-1660/+0
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* sci-biology/ncbi-tools++-12.0.0: dropped unneeded patches, added direct ↵Martin Mokrejš2014-06-263-67/+2
| | | | dependency on glew because the dependency on virtual/opengl does not work
* sci-biology/ncbi-tools++-12.0.0: re-added update patch to configure so that ↵Martin Mokrejš2014-06-252-44264/+67
| | | | we can avoid eautoconf until there is autoconf-2.59 system-wide
* sci-biology/ncbi-tools++-12.0.0: install colliding files under a name ↵Martin Mokrejš2014-06-251-2/+6
| | | | suffixed by a plus sign
* sci-biology/ncbi-tools++-12.0.0: first compile-able ebuild, wow, huge thanks ↵Martin Mokrejš2014-06-254-6/+444
| | | | to Aaron Ucko from NCBI developers on the cpp@ mailing list
* more changes to get ncbi-tools++-12.0.0 compiledMartin Mokrejš2014-06-256-1448/+1968
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* sci-biology/prot4EST: new package, missing LICENSE, missing dev-perl/ depsMartin Mokrejš2014-06-242-0/+16
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* sci-biology/prot4EST: new package, missing LICENSE, missing dev-perl/ depsMartin Mokrejš2014-06-242-0/+38
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* dropped the duplicate part from the patchMartin Mokrejš2014-06-231-1660/+0
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