Commit graph

3585 commits

Author SHA1 Message Date
George Hartzell
f532b4c90b Add info for jdk@8u73 (#4137)
* Fix ordering of versions (proper!)

* Add url/digest for jdk@8u73
2017-05-05 13:05:27 -05:00
Todd Gamblin
665e328566 Add OpenCV 3.2.0 checksum (#4138) 2017-05-05 13:05:05 -05:00
George Hartzell
0042b5e856 Add info for r@3.3.3 (#4128) 2017-05-05 13:04:46 -05:00
Massimiliano Culpo
85b4b15d9a SV variants are evaluated correctly in "when=" (#4118)
* SV variants are evaluated correctly in `when=` statements fixes #4113

The problem here was tricky:
```python
spec.satisfies(other)
```
changes already the MV variants in others into SV variants (where
necessary) if spec is concrete. If it is not concrete it does
nothing because we may be acting at a pure syntactical level.

When evaluating a `when=` keyword spec is for sure not concrete
as it is in the middle of the concretization process. In this case we
have to trigger manually the substitution in other to not end up
comparing a MV variant "foo=bar" to a SV variant "foo=bar" and having
False in return. Which is wrong.

* sv variants: improved error message for typos in "when=" statements
2017-05-04 11:01:02 -07:00
Massimiliano Culpo
6a9052bd4d variants: fixed packages reported by @adamjstewart in #4098 (#4105) 2017-05-04 10:58:58 -07:00
Gregory Lee
26a9793148 patch sqlite to work around macro definition (#4117) 2017-05-04 06:43:27 -05:00
Matthew Scott Krafczyk
18db25bb02 Update py-beautifulsoup4 (#4089)
* Update py-beautifulsoup4

* Change beautifulsoup4 url to pypi.io url.
2017-05-03 14:17:04 -05:00
Matthew Scott Krafczyk
07e1597a15 building wget depends on perl > 5.12.0 (#4087)
* building wget depends on perl > 5.12.0

* Remove extra parenthesis
2017-05-03 10:29:55 -05:00
Massimiliano Culpo
7ef46f4f69 hdf5: updated version (#4108) 2017-05-03 08:06:04 -05:00
Massimiliano Culpo
ae9a9e019a spack: no stacktrace if not in debug mode + fix emacs variant (#4098)
* spack: no stacktrace if not in debug mode + fix emacs variant

* emacs: removed dead code
2017-05-03 06:21:37 +02:00
Matthew Scott Krafczyk
72d45f7a44 Add the py-dryscrape package (#4094)
* Add the py-dryscrape package

* Adjust dependencies and change development to develop
2017-05-02 18:47:55 -05:00
Matthew Scott Krafczyk
a651b979ca Update the py-lxml package (#4090) 2017-05-02 16:35:42 -05:00
Matthew Scott Krafczyk
f265eefa22 Add findutils package (#4091) 2017-05-02 16:35:15 -05:00
Matthew Scott Krafczyk
abdb1fb0a0 Add the py-webkit-server package (#4092)
* Add the py-webkit-server package

* Change development to develop
2017-05-02 16:34:28 -05:00
Matthew Scott Krafczyk
2a1301596d Add the py-xvfbwrapper package (#4093) 2017-05-02 15:29:48 -05:00
Matthew Scott Krafczyk
70ea990efd Add py-pyprof2html package (#4095) 2017-05-02 15:28:46 -05:00
Matthew Scott Krafczyk
39ddc7d159 Add py-libconf package (#4096) 2017-05-02 15:28:19 -05:00
Matthew Scott Krafczyk
a0efcaef69 Add the libconfig package (#4097) 2017-05-02 15:27:56 -05:00
Massimiliano Culpo
78c4d0bd20 cgal: updated version (#4081) 2017-05-02 12:27:37 -05:00
Adam J. Stewart
9a3acea759 Allow ghostscript to build with Spack dependencies (#4065) 2017-05-02 09:45:10 -05:00
Adam J. Stewart
0f9059236c Add missing dependencies to emacs (#4068) 2017-05-02 09:44:02 -05:00
Massimiliano Culpo
b32afbbbcb mvapich2: fixed broken reference to spec (#4078) 2017-05-02 11:26:30 +02:00
Adam J. Stewart
c86b53a73f Add latest version of libtiff (#4067) 2017-05-01 15:19:51 -05:00
Massimiliano Culpo
9e4b0eb34a Multi-valued variants (#2386)
Modifications:
- added support for multi-valued variants
- refactored code related to variants into variant.py
- added new generic features to AutotoolsPackage that leverage multi-valued variants
- modified openmpi to use new features
- added unit tests for the new semantics
2017-05-01 13:08:47 -07:00
Adam J. Stewart
5d0d670b72 Add latest version of lcms (#4066) 2017-05-01 14:31:59 -05:00
Adam J. Stewart
2511520b32 Add a WafPackage base class (#3975)
* Add a WafPackage base class

* Correct comment in docstring

* Be more specific about the Python versions supported
2017-05-01 08:00:09 -07:00
Christoph Junghans
9f46bc8997 flecsale: works with python3 (#4058)
Ref laristra/flecsale#41
2017-04-30 19:25:16 -07:00
Massimiliano Culpo
17767bcf25 suite-sparse: updated version (#4055) 2017-04-30 12:01:35 +02:00
Christoph Junghans
110f68a83f Clean up now that submodules are properly supported. (#4053) 2017-04-29 20:43:16 -07:00
Christoph Junghans
0a9beccc4a flecsale: add more features (#4052) 2017-04-29 20:39:22 -05:00
Adam J. Stewart
ce3ab503de Python command, libraries, and headers (#3367)
## Motivation

Python installations are both important and unfortunately inconsistent. Depending on the Python version, OS, and the strength of the Earth's magnetic field when it was installed, the name of the Python executable, directory containing its libraries, library names, and the directory containing its headers can vary drastically. 

I originally got into this mess with #3274, where I discovered that Boost could not be built with Python 3 because the executable is called `python3` and we were telling it to use `python`. I got deeper into this mess when I started hacking on #3140, where I discovered just how difficult it is to find the location and name of the Python libraries and headers.

Currently, half of the packages that depend on Python and need to know this information jump through hoops to determine the correct information. The other half are hard-coded to use `python`, `spec['python'].prefix.lib`, and `spec['python'].prefix.include`. Obviously, none of these packages would work for Python 3, and there's no reason to duplicate the effort. The Python package itself should contain all of the information necessary to use it properly. This is in line with the recent work by @alalazo and @davydden with respect to `spec['blas'].libs` and friends.

## Prefix

For most packages in Spack, we assume that the installation directory is `spec['python'].prefix`. This generally works for anything installed with Spack, but gets complicated when we include external packages. Python is a commonly used external package (it needs to be installed just to run Spack). If it was installed with Homebrew, `which python` would return `/usr/local/bin/python`, and most users would erroneously assume that `/usr/local` is the installation directory. If you peruse through #2173, you'll immediately see why this is not the case. Homebrew actually installs Python in `/usr/local/Cellar/python/2.7.12_2` and symlinks the executable to `/usr/local/bin/python`. `PYTHONHOME` (and presumably most things that need to know where Python is installed) needs to be set to the actual installation directory, not `/usr/local`.

Normally I would say, "sounds like user error, make sure to use the real installation directory in your `packages.yaml`". But I think we can make a special case for Python. That's what we decided in #2173 anyway. If we change our minds, I would be more than happy to simplify things.

To solve this problem, I created a `spec['python'].home` attribute that works the same way as `spec['python'].prefix` but queries Python to figure out where it was actually installed. @tgamblin Is there any way to overwrite `spec['python'].prefix`? I think it's currently immutable.

## Command

In general, Python 2 comes with both `python` and `python2` commands, while Python 3 only comes with a `python3` command. But this is up to the OS developers. For example, `/usr/bin/python` on Gentoo is actually Python 3. Worse yet, if someone is using an externally installed Python, all 3 commands may exist in the same directory! Here's what I'm thinking:

If the spec is for Python 3, try searching for the `python3` command.
If the spec is for Python 2, try searching for the `python2` command.
If neither are found, try searching for the `python` command.

## Libraries

Spack installs Python libraries in `spec['python'].prefix.lib`. Except on openSUSE 13, where it installs to `spec['python'].prefix.lib64` (see #2295 and #2253). On my CentOS 6 machine, the Python libraries are installed in `/usr/lib64`. Both need to work.

The libraries themselves change name depending on OS and Python version. For Python 2.7 on macOS, I'm seeing:
```
lib/libpython2.7.dylib
```
For Python 3.6 on CentOS 6, I'm seeing:
```
lib/libpython3.so
lib/libpython3.6m.so.1.0
lib/libpython3.6m.so -> lib/libpython3.6m.so.1.0
```
Notice the `m` after the version number. Yeah, that's a thing.

## Headers

In Python 2.7, I'm seeing:
```
include/python2.7/pyconfig.h
```
In Python 3.6, I'm seeing:
```
include/python3.6m/pyconfig.h
```
It looks like all Python 3 installations have this `m`. Tested with Python 3.2 and 3.6 on macOS and CentOS 6

Spack has really nice support for libraries (`find_libraries` and `LibraryList`), but nothing for headers. Fixed.
2017-04-29 17:24:13 -07:00
Adam J. Stewart
a32a0eacba Add a new package for dash (#4050) 2017-04-29 12:24:50 -07:00
Adam J. Stewart
90a57cdf8f Add latest version of PGI compilers (#4047)
* Add latest version of PGI compilers

* Add environment variables for PGI
2017-04-29 13:55:00 -05:00
Massimiliano Culpo
89ea5bdd61 A few updates to packages (mostly version updates) (#4049) 2017-04-29 07:44:55 -05:00
George Hartzell
2cfc5eebb5 Bug/make dia build (#4045)
* Make dia build w/ Spack's X bits (and misc)

X related

- need to depend on the +X variant of gtkplus
- need to depend on freetype

misc

- fix path to tarball

* Make freetype a "build" dependency

* Freetype is not just a build dep
2017-04-28 15:30:09 -05:00
Mark Olesen
6814842814 Allow compilation of mgridgen (serial) as well as parmgridgen (parallel) (#3906) 2017-04-28 15:02:05 -05:00
sknigh
15692c5475 ncurses package builds ncurses and ncursesw (#3953)
* ncurses package will build ncurses and ncursesw

* Added libs property to ncurses, added fix for hstr

* flake8 is a harsh mistress

* make libs() more robust

* atop depends on ncurses

* fish depends on ncurses

* libtermkey and nano depend on ncurses

* Adjust url spacing
2017-04-28 14:57:55 -05:00
Brian Van Essen
7f9acfa3b2 Various patches to Openblas for Intel (#4030)
* Added a patch to the openblas package to change the openmp flag for
icc to qopenmp.

* Fixed a linking problem where when using Intel compilers, it was still
pulling in -lgfortran
2017-04-28 14:54:59 -05:00
George Hartzell
529a2ae5fa Depend on readline, remove hardcoded -ltermcap (#4042)
* depend on readline, remove hardcoded -ltermcap

Bowtie should use Spack's readline and not explicitly depend on the
system termcap (which, on CentOS, leads to linking against the
system's tinfo library).

* Add depends_on('zlib')

* Add conflict with gcc@6:

Build seems to have trouble with 6's migration to -std=gnu++14.
2017-04-28 14:47:43 -05:00
Adam J. Stewart
3f6e03d5c1 Add a new package for Cbench (#4043) 2017-04-28 13:44:30 -05:00
Adam J. Stewart
2b6206a504 Add a new package for dos2unix (#4037) 2017-04-28 13:13:42 -05:00
Denis Davydov
a1059b5a6c dealii: fix missing -march=native in flags (#4036) 2017-04-28 12:43:06 -05:00
Adam J. Stewart
d970ef5404 Add a list_url for libpng (#4038) 2017-04-28 10:53:14 -05:00
Massimiliano Culpo
e78e87fd4b python: added version 3.6.1 (#4035) 2017-04-28 09:55:02 -05:00
Christoph Junghans
8d92e26712 New package: portage (#4029) 2017-04-28 07:25:29 +02:00
Adam J. Stewart
091a689cb0 Add new package for PVM (#4028) 2017-04-28 07:24:23 +02:00
Christoph Junghans
e8a814463c New package: flecsale (#4025) 2017-04-27 16:52:26 -05:00
Jeffrey Salmond
510d725b64 add relion package (#4020)
* add relion package

* fix flake8

* add licence
2017-04-27 16:52:05 -05:00
Kelly (KT) Thompson
109a3ed8e9 Dia requires libxml2. (#3976)
* Dia requires libxml2.

* Clean up dependencies for Dia (and add X11 deps).

+ Remove dependencies on cairo and libpng.  The will be satisfied via gtkplus.
+ Add dependencies on X11 libraries: libsm, libuuid, libxinerama, libxrender.
+ From a dependency diagram, it doesn't appear that we need libxml2 since this
  dependency should be come in through cairo (via gtkplus).  However, Dia will
  not build without it.
2017-04-27 14:04:45 -07:00
Christoph Junghans
6f62a4fe36 flecsi: add mpi interoperability (#4000) 2017-04-27 15:10:30 -05:00