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2016-06-20modules.yaml: use the right envvar for pkg-configBen Boeckel1-2/+2
Fixes #1072.
2016-06-19openmpi: raise an error without Fortran compilerDenis Davydov1-0/+7
2016-06-19openblas: raise an error without Fortran compilerDenis Davydov1-0/+7
2016-06-18Adding test to list of test_namesMario Melara1-1/+1
2016-06-18Adding new tests for compiler command for spack's test suiteMario Melara1-0/+34
2016-06-18More clean up of init_config, also no need for a different find_compilers ↵Mario Melara1-7/+2
function.
2016-06-18Getting rid of no longer used init_config argMario Melara1-5/+2
2016-06-18Merge pull request #1032 from eschnett/eschnett/cc-quotesTodd Gamblin1-2/+2
Add quotes around file name
2016-06-18environment : filter the current environmentalalazo1-6/+8
Previously only the environment obtained after sourcing the file was filtered. This caused the appeareance of spurious unset commands in the list.
2016-06-18Merge branch 'develop' of https://github.com/LLNL/spack into ↵alalazo98-910/+3918
features/source_diffs_in_environment_modifications Conflicts: lib/spack/spack/test/environment.py
2016-06-18qa : fixed flake8 issuesalalazo1-5/+1
2016-06-18unit tests : fixed test_alter_environmentalalazo1-7/+2
2016-06-18Merge branch 'develop' of https://github.com/LLNL/spack into ↵alalazo118-1239/+5333
features/module_file_explicit_load Conflicts: lib/spack/spack/test/modules.py
2016-06-18Merge remote-tracking branch 'upstream/develop' into developMario Melara22-115/+993
"Updating NERSC branch"
2016-06-18Got rid of init_config flag since we don't need it. Instead we update the ↵Mario Melara1-18/+22
cache config if there are any changes
2016-06-17Allow py-pillow to link to Spack-built librariesAdam J. Stewart1-50/+86
2016-06-17Merge pull request #1065 from epfl-scitas/packages/espresso_updateTodd Gamblin1-6/+18
espresso : update to 5.4.0
2016-06-17Merge pull request #1060 from mathstuf/no-break-long-wordsTodd Gamblin1-1/+3
tty: do not break long words
2016-06-17Merge pull request #1044 from adamjstewart/features/sncosmoTodd Gamblin9-101/+432
Add py-sncosmo package
2016-06-17Merge pull request #1061 from mathstuf/reindex-preserve-explicitTodd Gamblin1-1/+5
reindex: preserve 'explicit' flags
2016-06-17Merge pull request #946 from LLNL/features/intel2Todd Gamblin7-5/+365
Intel software packages and license enhancements
2016-06-17fixing last flake8 issueTom Scogland1-7/+5
2016-06-17fixing flake8 issuesTom Scogland1-4/+6
2016-06-17cmd/list: adding description search and glob by defaultTom Scogland1-8/+29
2016-06-17Python flake8 overhaulAdam J. Stewart1-76/+114
2016-06-17Added working Ferret specRobert D. French1-0/+103
Fixed ferret spec. It builds now Made ferret spec more flake8-y Fixed homepage and info text about Ferret Removed vim swap file Reverted changes to netcdf-fortran spec and added netcdf~mpi dependency to ferret spec to compensate for it Fixed flake8 issues!
2016-06-17'find and 'add' are options for adding compilers via command lineMario Melara1-7/+7
2016-06-17Fix activation of sites.py for sncosmoAdam J. Stewart4-8/+15
2016-06-17Add additional Astropy dependenciesAdam J. Stewart3-7/+89
2016-06-17Remove version constraintsAdam J. Stewart5-13/+9
2016-06-17Allow packages to buildAdam J. Stewart4-13/+9
2016-06-17Add py-sncosmo packageAdam J. Stewart6-22/+234
2016-06-16Add 'jdk' as a dependency.Glenn Johnson1-0/+1
Add jdk as a dependency so that R has support for java and allow packages that need java to work.
2016-06-16Add list_url for old versions.Glenn Johnson3-10/+12
2016-06-16Make install comment consistent with actual call.Glenn Johnson1-1/+1
2016-06-16Add validator for bioconductor packagesGlenn Johnson1-0/+13
This commit adds a validator function to make sure the versions of R and bioconductor are in sync.
2016-06-16Tweak how R packages are built.Glenn Johnson5-10/+14
Add bzip2 as a dependency to base R. Switch from installing the R packages from tar files to installing from the extracted directory. This is more in line with a standard install and also allows installing from VCS. Use the Bioconductor version for BiocGenerics and future Bioconductor packages. Suffix the package with 'bioc-$version' to indicate which Bioconductor release the package is a part of. This is actually more important than the actual version attached to individual packages although those are subject to change within the Bioconductor branch.
2016-06-16Fix flake8 errorsGlenn Johnson2-3/+4
Use Bioconductor provided Short URL for homepage in BiocGenerics. Wrap description text for utf variant in pcre.
2016-06-16Update version of BiocGenericsGlenn Johnson1-1/+1
The BioConductor repositories only keep the most recent version so this has to be bumped.
2016-06-16Use configure_args rather than optionsGlenn Johnson1-8/+8
Replaced 'options' with 'configure_args'. That seems like a better name and is consistent with the packaging guide.
2016-06-16Add variant for UTF support to pcreGlenn Johnson1-1/+9
This will build PCRE with UTF support by default. That seems to be reasonable for most environments.
2016-06-16Clean up R extensionsGlenn Johnson4-8/+16
Run the existing R extension packages through autopep8 to clean up.
2016-06-16Add version 3.3.0 of RGlenn Johnson1-0/+3
This commit adds the 3.3.0 version of R and adds dependencies on curl and pcre.
2016-06-16Clean up R package filesGlenn Johnson1-25/+19
- remove unused imports - apply pep8 - reformat text strings
2016-06-16Added init_config parameter so we don't initialize the config when user runs ↵Mario Melara2-22/+28
spack compiler add. Should ONLY add what user specifies. Find compilers takes in paths parameter.
2016-06-16Merge pull request #1068 from epfl-scitas/fixes/flake8_no_f405Todd Gamblin1-1/+1
Flake8: ignore F405
2016-06-16Merge pull request #944 from adamjstewart/features/bertiniTodd Gamblin1-0/+50
Add bertini package
2016-06-16Merge pull request #962 from adamjstewart/features/hplTodd Gamblin1-0/+119
Add HPL benchmark package
2016-06-16Replace 2.6-incompatible skipIf with a conditional.Todd Gamblin1-4/+8
- skipIf doesn't work with Python 2.6.
2016-06-16remove dead code, cleanup.Todd Gamblin2-42/+26
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