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2017-04-05Add stress package (#3695)Adam J. Stewart1-0/+37
2017-04-05Add versions 3.2.0 3.1.0 for protobuf. (#3698)健美猫1-7/+9
2017-04-04Add package for open source Shiny Server (#3688)George Hartzell1-0/+77
* The beginnings of a package for shiny-server Just stashing a WIP. This doesn't work. This goes for a while and/but blows up with some OpenSSL related issue. * Make it work! Yay! * shiny-server needs R with X support My environment gets this for "free" from my packages.yaml, but it should be explicity. * Address feedback - python version - gcc dependency - Flake8 comment rules * Richer caveats and warnings. * Convert to CMakePackage and fix python version typo * Fix typo: noqab -> noqa * Ensure proper build location, clean up comments
2017-04-04Avoid null reference in arch concretization (#2596)scheibelp1-3/+18
Fixes #2587 The concretizer falls back on using the root architecture (followed by the default system architecture) to fill in unspecified arch properties for a spec. It failed to check cases where the root could be None.
2017-04-04Convert STREAM to MakefilePackage (#3692)Adam J. Stewart1-4/+2
2017-04-04Add fio package (#3689)Adam J. Stewart1-0/+56
2017-04-04intel-mkl: add 2017.2 (#3687)Denis Davydov1-15/+7
* intel-mkl: add 2017.2 * intel-mkl: add urls, update docstring
2017-04-04Fixes #3675: Abinit: invalid spec on concretization #(3686)Massimiliano Culpo1-1/+1
2017-04-04Update SymEngine package to enable build against LLVM (#3682)Jean-Paul Pelteret1-2/+7
2017-04-04Cppcheck (#3684)Mayeul d'Avezac1-1/+5
* Adds cppcheck version 1.72 * cppcheck installation requires cfg files Without these files, cppcheck does not work correctly
2017-04-04Update tinyxml (#3649)Mayeul d'Avezac1-1/+2
* Update tinyxml * url seems to have changed * spack replaces "_2_6_2" with "_2.6.2" unless the url is explicitly given * copyfile is no longuer available by default * URL version-parsing should work as of #2972
2017-04-04Update getting_started.rst (#3685)Justin Cook1-1/+1
Fixed typo referring to .bashrc file
2017-04-03Add IOzone package (#3679)Adam J. Stewart1-0/+53
2017-04-03Overhaul Spack's URL parsing (#2972)Adam J. Stewart80-807/+1325
* Remove fake URLs from Spack * Ignore long lines for URLs that start with ftp: * Preliminary changes to version regexes * New redesign of version regexes * Allow letters in version-only * Fix detection of versions that end in Final * Rearrange a few regexes and add examples * Add tests for common download repositories * Add test cases for common tarball naming schemes * Finalize version regexes * spack url test -> spack url summary * Clean up comments * Rearrange suffix checks * Use query strings for name detection * Remove no longer necessary url_for_version functions * Strip off extraneous information after package name * Add one more test * Dot in square brackets does not need to be escaped * Move renaming outside of parse_name_offset * Fix versions for a couple more packages * Fix flake8 and doc tests * Correctly parse Python, Lua, and Bio++ package names * Use effective URLs for mfem * Add checksummed version to mitos * Remove url_for_version from STAR-CCM+ package * Revert changes to version numbers with underscores and dashes * Fix name detection for tbb * Correctly parse Ruby gems * Reverted mfem back to shortened URLs. * Updated instructions for better security * Remove preferred=True from newest version * Add tests for new `spack url list` flags * Add tests for strip_name_suffixes * Add unit tests for version separators * Fix bugs related to parseable name but in parseable version * Remove dead code, update docstring * Ignore 'binary' at end of version string * Remove platform from version * Flip libedit version numbers * Re-support weird NCO alpha/beta versions * Rebase and remove one new fake URL * Add / to beginning of regex to avoid picking up similarly named packages * Ignore weird tar versions * Fix bug in url parse --spider when no versions found * Less strict version matching for spack versions * Don't rename Python packages * Be a little more selective, version must begin with a digit * Re-add fake URLs * Fix up several other packages * Ignore more file endings * Add parsing support for Miniconda * Update tab completion * XFAILS are now PASSES for 2 web tests
2017-04-03Add latest version of pkg-config (#3672)Adam J. Stewart1-16/+16
2017-04-03openfst conflicts with intel@16: and gcc@6: . (#3671)健美猫1-10/+5
2017-04-03Fix conflict directives for libpfm4. (#3673)健美猫1-1/+1
2017-04-03Add latest alpha release of MVAPICH2 (#3674)Adam J. Stewart1-1/+6
2017-04-03Add depends_on() new-ish bison (#3661)George Hartzell1-0/+1
* Add depends_on() new-ish bison * Refine dependency, only needed to build.
2017-04-03Add libpfm4 package. (#3667)健美猫1-0/+48
2017-04-03add CUDA_HOME arg to nccl makefile (#3666)Jeffrey Salmond1-0/+4
2017-04-03add gflags as dependency of glog (#3665)Jeffrey Salmond1-0/+2
2017-04-02Hey, I was using that! :) (#3660)George Hartzell1-0/+3
Turns out that we really want 5.22.2 for backward compatibility.
2017-04-02Set default providers for all virtual dependencies (#3634)Adam J. Stewart4-6/+19
* Set default providers for everything * Add default OpenFOAM provider
2017-04-02new directive: conflicts() (#3125)Massimiliano Culpo7-1/+193
* Add conflicts(<spec>) directive * openblas: added conflicts for intel@16 refs #3119 * added brief docs and unit tests
2017-04-01Add epigraph in docs.Todd Gamblin1-1/+5
2017-04-01Add better tests for web.py; fix some bugs found with spidering.Todd Gamblin27-67/+306
- _spider in web.py was actually failing to spider deeper than a certain point. - Fixed multiprocessing pools to not use daemons and to allow recursive spawning. - Added detailed tests for spidering and for finding archive versions. - left some xfail URL finding exercises for the reader. - Fix noqa annotations for some @when decorators
2017-04-01Fix Python 3 support in spack versionsAdam J. Stewart2-4/+5
- Add missing import, fixes spack versions in Python 2 - Fix spack versions in Python 3
2017-04-01fix version specs for EasyBuild packages (#3659)Kenneth Hoste3-3/+3
* fix Python version requirement for easybuild-framework * make 'when' for depends_on('py-easybuild-framework') open-ended
2017-04-01EasyBuild and dependencies (#3658)Kenneth Hoste6-0/+221
* add packages for EasyBuild and dependencies * fix remarks w.r.t. docstrings & download urls, make dependency specs stricter w.r.t. required versions * fix easybuild-* dep specs, should be open-ended * correct dep specs for easybuild and easybuild-easyconfigs using @3.1.2[:]
2017-04-01fix annoying 'fatal: Not a git repository' error message (#3657)Kenneth Hoste2-4/+8
fix annoying 'fatal: Not a git repository' error message produced by 'spack list' when Spack is not run from a Git repository (#3657)
2017-04-01Add a pcakge: libzip. (#3656)健美猫1-0/+35
2017-03-31fix flake8 ignore syntax (use E instead of ignore) (#3651)Gregory Lee1-1/+1
2017-03-31test/package_sanity.py: ported to pytest (#3474)Massimiliano Culpo1-34/+33
2017-03-31test/versions.py: ported to pytest (#3635)Massimiliano Culpo1-403/+443
2017-03-31Spack works with Python 3Todd Gamblin4-5/+6
- Update version guard in spack script to allow python 3 - Update min required version in the docs
2017-03-31Clean up tests and add Python3 to Travis.Todd Gamblin3-90/+172
- Clean up spec_syntax tests: don't dependend on DB order. - spec_syntax hash parsing tests were strongly dependent on the order the DB was traversed. - Tests now specifically grab the specs they want from the mock DB. - Tests are more readable as a result. - Add Python3 versions to Travis tests.
2017-03-31Make packages Python3 compatible.Todd Gamblin6-18/+20
2017-03-31Fix concretization bugs with virtuals and deptypes.Todd Gamblin2-25/+39
1. Fix #2807: Can't depend on virtual and non-virtual package - This is tested by test_my_dep_depends_on_provider_of_my_virtual_dep in the concretize.py test. - This was actually working in the test suite, but it depended on the order the dependencies were resolved in. Resolving non-virtual then virtual worked, but virtual, then non-virtual did not. - Problem was that an unnecessary copy was made of a spec that already had some dependencies set up, and the copy lost half of some of the dependency relationships. This caused the "can'd depend on X twice error". - Fix by eliminating unnecessary copy and ensuring that dep parameter of _merge_dependency is always safe to own -- i.e. it's a defensive copy from somewhere else. 2. Fix bug and simplify concretization of deptypes. - deptypes weren't being accumulated; they were being set on each DependencySpec. This could cause concretization to get into an infinite loop. - Fixed by accumulating deptypes in DependencySpec.update_deptypes() - Also simplified deptype normalization logic: deptypes are now merged in constrain() like everything else -- there is no need to merge them specially or to look at dpeendents in _merge_dependency(). - Add some docstrings to deptype tests.
2017-03-31Use key sorting instead of cmp()Todd Gamblin19-396/+318
- Get rid of pkgsort() usage for preferred variants. - Concretization is now entirely based on key-based sorting. - Remove PreferredPackages class and various spec cmp() methods. - Replace with PackagePrefs class that implements a key function for sorting according to packages.yaml. - Clear package pref caches on config test. - Explicit compare methods instead of total_ordering in Version. - Our total_ordering backport wasn't making Python 3 happy for some reason. - Python 3's functools.total_ordering and spelling the operators out fixes the problem. - Fix unicode issues with spec hashes, json, & YAML - Try to use str everywhere and avoid unicode objects in python 2.
2017-03-31Resolve Python2/Python3 unicode issues by using str()Todd Gamblin7-13/+15
- Remove ascii encoding assumption from spack_yaml - proc.communicate() returns bytes; convert to str before adding. - Fix various byte string/unicode issues for Python 2/3 support - Need to decode subprocess output as utf-8 in from_sourcing_files. - Fix comments in strify()
2017-03-31Convert Python 2 idioms to Python 2/3-compatible ones.Todd Gamblin74-323/+396
- convert print, StringIO, except as, octals, izip - convert print statement to print function - convert StringIO to six.StringIO - remove usage of csv reader in Spec, in favor of simple regex - csv reader only does byte strings - convert 0755 octal literals to 0o755 - convert `except Foo, e` to `except Foo as e` - fix a few places `str` is used. - may need to switch everything to str later. - convert iteritems usages to use six.iteritems - fix urllib and HTMLParser - port metaclasses to use six.with_metaclass - More octal literal conversions for Python 2/3 - Fix a new octal literal. - Convert `basestring` to `six.string_types` - Convert xrange -> range - Fix various issues with encoding, iteritems, and Python3 semantics. - Convert contextlib.nested to explicitly nexted context managers. - Convert use of filter() to list comprehensions. - Replace reduce() with list comprehensions. - Clean up composite: replace inspect.ismethod() with callable() - Python 3 doesn't have "method" objects; inspect.ismethod returns False. - Need to use callable in Composite to make it work. - Update colify to use future division. - Fix zip() usages that need to be lists. - Python3: Use line-buffered logging instead of unbuffered. - Python3 raises an error with unbuffered I/O - See https://bugs.python.org/issue17404
2017-03-31Update externals to work with Python 3Todd Gamblin44-132/+7069
- Update YAML version to support Python 3 - Python 3 support for ordereddict backport - Exclude Python3 YAML from version tests. - Vendor six into Spack. - Make Python version-check tests work with Python 3 - Add ability to add version check exceptions with '# nopyqver' line comments.
2017-03-31PythonPackage: Let There Be Tests! (#2869)Adam J. Stewart6-7/+167
* Run python setup.py test if --run-tests * Attempt to import the Python module after installation * Add testing support to numpy and scipy * Remove duplicated comments * Update to new run-tests callback methodology * Remove unrelated changes for another PR
2017-03-31new and updated PRUNERS tools (#3648)Gregory Lee4-4/+86
2017-03-31Fix mxml (#3639)Michael Kuhn2-2/+6
mxml is now hosted on GitHub.
2017-03-31Add QBank package (#3641)Adam J. Stewart3-5/+128
* Add QBank package * Install the documentation and add it to the MANPATH * Add Perl DBI package * Make sure setup method variables are consistent
2017-03-31Perl: add more versions, add phases (#3640)Adam J. Stewart1-14/+43
2017-03-31CONFIG: add older bison version 2.7 (#3645)Mark Olesen1-0/+1
- for programs that don't yet work with bison 3.x
2017-03-31Included LIBXSMM 1.8 into the list of available versions. (#3646)Hans Pabst1-1/+2
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