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Author SHA1 Message Date
alalazo
d39b666913 plumed : avoid linking with libgslcblas 2016-09-06 11:21:26 +02:00
alalazo
47f6a6d3cf Merge branch 'develop' of https://github.com/LLNL/spack into features/install_with_phases_rebase 
Conflicts:
	lib/spack/spack/build_environment.py
	lib/spack/spack/package.py
	var/spack/repos/builtin/packages/astyle/package.py
	var/spack/repos/builtin/packages/lzo/package.py
	var/spack/repos/builtin/packages/openjpeg/package.py
	var/spack/repos/builtin/packages/swiftsim/package.py
 2016-09-04 10:12:52 +02:00
Axel Huebl
16c5403ab3 spack boostrap: fix missing include (#1657) 
fix a missing include in booststrap.
found on debian 8 with python 2.7
 2016-09-03 09:43:00 -07:00
Massimiliano Culpo
497bbb3ae3 added package : pexsi (#1550) 
* pexsi : added package
* cp2k : added pexsi (works for gcc+openmpi with and without plumed)
 2016-09-03 08:13:47 -07:00
becker33
fa310c825d Merge pull request #1704 from eschnett/eschnett/libiconf-gets 
Make libiconv work with C11
 2016-09-02 16:46:40 -07:00
becker33
6de191a926 Merge pull request #1708 from robertdfrench/globus-toolkit 
Globus Toolkit
 2016-09-02 15:31:34 -07:00
Todd Gamblin
07fa1cd5f8 Attributes for directives need to be set at class construction time. (#1718) 
- moved ensure_dicts() call from Package.__init__ to
  Package.__metaclass__.
 2016-09-02 15:10:30 -07:00
becker33
ea6143402f Merge pull request #1715 from alfredo-gimenez/bugfix/vim 
Fix vim package.
 2016-09-02 14:59:14 -07:00
becker33
83a8a8ed22 Merge pull request #1717 from alfredo-gimenez/features/sbt 
Add sbt (scala build tool) package
 2016-09-02 14:56:44 -07:00
Alfredo Gimenez
19102559f0 Add sbt (scala build tool) package 2016-09-02 14:15:20 -07:00
Alfredo Gimenez
817c120b1c Fix vim package 2016-09-02 14:09:46 -07:00
Erik Schnetter
d78d18c4bd Update OpenMPI description (#1705) 2016-09-02 10:57:35 -07:00
Jeffrey Salmond
5146c64dfc Fixes for the ImageMagick package. (#1709) 
* add pango dependency

* add new package ghostscript-fonts & add to ImageMagick as dependency

also tell ImageMagick's configure where the font dir is!

* refactor to fix flake8

* add homepage to ghostscript-fonts

* use install_tree

* remove unneeded import
 2016-09-02 10:41:35 -07:00
Erik Schnetter
c7bb523c8f Declare qthreads dependency on automake (#1711) 2016-09-02 10:34:07 -07:00
Todd Gamblin
e22ff0d8cd Merge pull request #1707 from eschnett/eschnett/autoconf-old-versions 
Add two famous old versions of autoconf
 2016-09-02 10:32:33 -07:00
Robert.French
d876d9b778 Globus Toolkit 2016-09-02 16:04:26 +00:00
Erik Schnetter
9ceb3f6b49 Add two famous old versions of autoconf 
These old versions are often used because their immediate successors are incompatible in some way.
 2016-09-02 11:23:33 -04:00
Erik Schnetter
0bd63ce8be Make libiconv work with C11 
C11 does not provide gets() any more, so we cannot reference it
 2016-09-02 10:53:59 -04:00
Todd Gamblin
417fe0ec67 Merge pull request #1698 from LLNL/bugfix/hash-collision 
Fix hash collisions, add stable hashing
 2016-09-02 07:29:44 -07:00
Todd Gamblin
c8b4f978e1 Clean up stable hashing so that specs don't contain !!python/object/apply 
- only output basic lists, dicts, etc.
- spec and database now parse and write specs as ordered data.
 2016-09-02 03:03:47 -07:00
Todd Gamblin
674434b0fc Merge branch 'UCL-RITS-hash_stability' into bugfix/hash-collision 2016-09-02 03:03:25 -07:00
Todd Gamblin
9268b7aa7c Fix hash copying in _dup. 
- Spec._dup() incorrectly copied cached hashes and normal/concrete values
  even when dependency structure was not preserved.

- Now these are only copied when *all* dependencies are copied.
 2016-09-02 01:26:19 -07:00
Todd Gamblin
69d45b49e9 Fix hash handling in directory layout 
- Currently, build dependencies are not currently hashed; we are waiting
  to hash these until we have smarter concretization that can reuse more
  installed specs.  The layout needs to account for this when checking
  whethert things are installed.
 2016-09-02 01:26:01 -07:00
Todd Gamblin
f5bc0cbb65 Merge pull request #1535 from LLNL/bugfix/faster-install-db-gh1521 
[WIP] Faster database loading, faster in-memory hashing
 2016-09-01 13:00:21 -07:00
Todd Gamblin
8d755c010d Merge pull request #1658 from LLNL/features/git-lfs 
Add git-lfs package.
 2016-09-01 11:58:18 -07:00
Todd Gamblin
0f26bb9e92 Merge pull request #1688 from LLNL/bugfix/database-issues 
Fix dependency bug with `spack reindex`.
 2016-09-01 11:39:21 -07:00
Todd Gamblin
69b68153a1 Fix spack reindex so that it will work if DB is corrupt (duh). 
- Transaction logic had gotten complicated -- DB would not reindex when
  corrupt, rather the error would be reported (ugh).

- DB will now print the error and force a rebuild when errors are
  detected reading the old databse.
 2016-09-01 11:29:32 -07:00
Todd Gamblin
bee5c05568 Update tests to reflect new in-memory hashing vs. coarser dag_hash. 
- Spack currently not hashing build deps (to allow more reuse of packages
  and less frequent re-installing)

- Fast in-memory hash should still hash *all* deptypes, and installed
  specs will only reflect link and run deps.

- We'll revert this when we can concretize more liberally based on what
  is already installed.
 2016-09-01 11:29:32 -07:00
Todd Gamblin
235a045d08 Add option to copy only certain deptypes to Spec.copy() 
- can now pass these to Spec.copy() and Spec._dup():
  - deps=True
  - deps=False
  - deps=(list of deptypes)

- Makes it easy to filter out only part of a spec.
 2016-09-01 11:29:32 -07:00
Todd Gamblin
409e7a2e64 Faster database loading. 
- use a 3-pass algorithm to load the installed package DAG.

- avoid redundant hashing/comparing on load.
 2016-09-01 11:29:32 -07:00
Todd Gamblin
a8aad95d41 Specs now cache result of "fast" in-memory hash. 
- Hash causes major slowdown for reading/setting up large DBs

- New version caches hash for concrete specs, which includes all specs in
  the install DB
 2016-09-01 11:29:32 -07:00
Todd Gamblin
c46a15b574 Fix dependency bug in database. Fixes #1265, #1320. 2016-09-01 11:25:01 -07:00
Todd Gamblin
4a87d4ab8e Make gh-pages redirect to readthedocs.io 2016-08-31 19:40:22 -07:00
Todd Gamblin
bf8413379f Merge pull request #1593 from eschnett/eschnett/depends_on 
Expand/clarify description of dependency types
 2016-08-31 12:07:11 -07:00
Erik Schnetter
efc570afab Expand/clarify description of dependency types 2016-08-31 14:42:32 -04:00
Todd Gamblin
e3c182a1c4 Merge pull request #1677 from eschnett/eschnett/lzo-hotfix 
Switch lzo download from https to http
 2016-08-31 09:43:16 -07:00
Erik Schnetter
932cd6fa19 Switch lzo download from https to http 
lzo's download server does not present a valid certificate, so that downloads via https are failing. Spack's MD5 checksum still ensure a safe download.

Closes #1675.
 2016-08-31 12:41:04 -04:00
Todd Gamblin
0ff048521b Fix modules.rst doc build warning. 2016-08-30 22:15:13 -07:00
Todd Gamblin
8709e1c1c3 Move docs to readthedocs.io 
- Docs are now visible immediately, and we don't have to push them
  separately.
 2016-08-30 21:19:31 -07:00
Todd Gamblin
9de7e25085 Merge branch 'bugfix/rtd-generation' into develop 2016-08-30 21:13:53 -07:00
Todd Gamblin
3a9388b43a Move sphinx-apidoc into conf.py, too. 2016-08-30 21:02:34 -07:00
Todd Gamblin
32834dd67d fix sys.path in conf.py 2016-08-30 20:50:14 -07:00
Todd Gamblin
05545a2528 test. 2016-08-30 20:49:56 -07:00
Todd Gamblin
41675e5ed6 sorted command index, better colification. 2016-08-30 20:49:56 -07:00
Todd Gamblin
918cb16921 Merge branch 'features/travis' into develop 2016-08-30 20:43:29 -07:00
Todd Gamblin
176a84a828 Don't test sphinx-generated conf.py for flake8 issues. 2016-08-30 20:30:43 -07:00
Todd Gamblin
c470ffe1ac Install graphviz before build. 2016-08-30 20:17:12 -07:00
Todd Gamblin
d9c5191563 Fix issue with path to Spack. 2016-08-30 19:57:33 -07:00
Todd Gamblin
fc748eb3d0 Exclude spack.__all__ from documentation. 
Everything in the __all__ list in the spack module is from some other
module, so only do their documentation in their original location.  This
also avoids issues like the fact that some directive names shadow spack
core module names.
 2016-08-30 16:36:50 -05:00
Adam J. Stewart
1be6267149 Undo changes to trailing triple quotes in docstring 2016-08-30 16:28:55 -05:00