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2017-11-06added new package - MotionCor2 (#6151)Douglas Duckworth1-0/+50
2017-11-06dealii: make sure bundled libs are not used (#6106)Denis Davydov1-1/+2
2017-11-05Graphviz : Add a GTS variant (#6149)Besnard Jean-Baptiste1-1/+5
Enable support for the GNU Triangulated Surface Library - New variant +gts for graphviz - Optionnal dependency for GTS (already packaged)
2017-11-05added relion v 2.1 (#6023)Douglas Duckworth1-3/+3
* added relion v 2.1 * relion 2.1 - misssed comma * relion now pulling from master branch - removed 2.03 - added cuda 8 as dependency given 9 does not yet work with relion per https://github.com/3dem/relion/issues/296
2017-11-05Re-add list_url for all R packages (#6110)Ben Boeckel245-50/+245
* r-igraph: find old packages in the archive Fixes #6104. * r-irlba: find old packages in the archive Fixes #6101. * r-lazyeval: find old packages in the archive Fixes #6102. * packages: set list_url for all packages hosted on CRAN * packages: consistently use the CRAN archive URLs
2017-11-05dtcmp: add v1.1.0 (#6146)Adam Moody1-0/+1
2017-11-05petsc: update to version 3.8.1 (#6150)Satish Balay1-0/+4
* petsc: update to version 3.8.1 * petsc: add in conflict between petsc-3.8.0 & mkl
2017-11-05ISAAC 1.3.3 (#6152)Axel Huebl1-0/+1
Add a new release of ISAAC.
2017-11-04Replace github.com/llnl/spack with github.com/spack/spack (#6142)Todd Gamblin2488-2542/+2542
We moved to a new GitHub org! Now make the code and docs reflect that.
2017-11-04add rol variant (#6105)vishalkenchan1-0/+4
2017-11-03r-yapsa: created new package (#6121)Yifan Zhu1-0/+57
2017-11-03r-keggrest: created new package (#6120)Yifan Zhu1-0/+44
2017-11-03r-statmod: Create new package. (#6119)lingnanyuan1-0/+42
2017-11-03r-deseq: Create new package. (#6118)lingnanyuan1-0/+46
2017-11-03r-samr: Create new package. (#6117)lingnanyuan1-0/+37
2017-11-03r-impute: Create new package. (#6116)lingnanyuan1-0/+36
2017-11-03r-altcdfenvs: Create new package. (#6115)lingnanyuan1-0/+43
2017-11-03r-makecdfenv: Create new package. (#6114)lingnanyuan1-0/+44
2017-11-03r-hypergraph: Create new package. (#6113)lingnanyuan1-0/+38
2017-11-03Fix restaging of resources (#5681)Johann Klähn1-12/+22
Part of the resource staging process is to place downloaded/expanded files in the root stage. This was not happening when a resource stage was restaged.
2017-11-03spack fetch: don't fetch externals. (#6124)Todd Gamblin1-1/+8
Fixes #6123 spack fetch shouldn't attempt to fetch external deps when invoked with --dependencies.
2017-11-03ISAAC 1.3.2 (#6129)Axel Huebl2-3/+6
Add a new release of ISAAC.
2017-11-02Configure user for mock Git repository (#6128)Michael Kuhn1-0/+2
If user.useConfigOnly is set globally and no name or e-mail is configured, the git_fetch tests fail.
2017-11-02test_activations: also test perl activationsBen Boeckel1-0/+103
2017-11-02test_activations: test Python's extension logicPeter Scheibel1-0/+168
2017-11-02spec: support a test prefixPeter Scheibel1-0/+5
This is used in tests to test real packages without actually building and installing them.
2017-11-02aspell: refuse to work with non-global extensionsBen Boeckel1-1/+13
Aspell compiles in the paths it looks for rather than looking relative to its binary location. There are also no environment variables to redirect it other than changing the path to the configuration file it looks at.
2017-11-02perl: support extensions in viewsBen Boeckel1-2/+8
2017-11-02python: extensions support for easy-install.pthOliver Breitwieser1-10/+30
2017-11-02view: test conflicting packages in viewsBen Boeckel3-4/+29
2017-11-02view: test that extension paths existBen Boeckel3-0/+29
2017-11-02filesystem_view: reject packages with activationsBen Boeckel3-11/+26
If there are extensions that are globally activated, reject adding them to a view. Those extensions should not be implicitly activated.
2017-11-02view: test viewing external packagesBen Boeckel1-0/+9
2017-11-02view: add a test for extension activationBen Boeckel1-0/+82
2017-11-02extension1: add a second versionBen Boeckel1-0/+1
2017-11-02extensions: support only showing a subset of informationBen Boeckel1-32/+60
2017-11-02extensions: support acting on a viewBen Boeckel3-12/+40
This allows extensions to be (de)activated and queried within a view rather than only acting on the global installation.
2017-11-02view: use the FilesystemView abstraction for creating viewsOliver Breitwieser1-198/+127
2017-11-02view: fix some docstrings for argumentsOliver Breitwieser1-2/+2
2017-11-02filesystem_view: do not link external packagesBen Boeckel1-0/+10
2017-11-02filesystem_view: add a class to handle a view via a Yaml descriptionOliver Breitwieser1-0/+524
2017-11-02package: support removing dependencies when deactivatingOliver Breitwieser1-6/+14
2017-11-02conftest: mock out spack.store.extensions as wellBen Boeckel1-0/+4
2017-11-02views: support querying view layouts as wellOliver Breitwieser5-26/+56
This abstracts out the layout in use between the global installations and a specific view.
2017-11-02link_tree: support choosing the link functionOliver Breitwieser1-2/+2
This can be used to make hardlinks rather than symlinks.
2017-11-02link_tree: support ignoring conflictsOliver Breitwieser1-3/+16
2017-11-02directory_layout: add a YamlExtensionsLayout classOliver Breitwieser1-0/+25
This uses a view to query extensions.
2017-11-02link_tree: only remove matching files when unmergingOliver Breitwieser1-1/+6
2017-11-02directory_layout: factor out an ExtensionsLayout classOliver Breitwieser1-92/+118
2017-11-02extensions: add an installed_extensions_for methodBen Boeckel2-1/+11