Commit graph

5032 commits

Author SHA1 Message Date
Glenn Johnson
81cd458c26 r-curl update and chaged remote archive
This updates to the 1.0 version of r-curl. The remote archive directory
name also changed so change that here as well.
2016-07-24 16:48:07 -05:00
Glenn Johnson
27986c9edf New packages - R htmlwidgets 2016-07-24 16:43:35 -05:00
Glenn Johnson
b7bf88c761 New package - r-googlevis 2016-07-24 16:38:36 -05:00
Adam J. Stewart
29278090eb Fix OpenSSL url_for_version 2016-07-24 15:19:27 -05:00
Glenn Johnson
b1e5ec0573 Make sure package has the url attribute.
In addition to `list_url` make sure the package has the `url` attribute
set before attempting to add urls from a list. This is to cover the case
where there may be a `list_url` specified in tandem with a
`url_for_version`.
2016-07-24 09:21:11 -05:00
Glenn Johnson
4f09e8c975 Only use list if list_url set
This commit will make urls from list_url only checked if `list_url` is
set in the package file. This makes more sense as there is no need to
check for those if the attribute is not present. If `url` is present and
`list_url` is not then it would result in the same url. If
`url_for_version` is used then that will not work anyway.
2016-07-23 22:56:08 -05:00
Glenn Johnson
a8855f48aa Add dependency type tp r- packages
This PR adds the `nolink` dependency type to r- package dependencies.
This is needed due to the new dependency types in Spack. A couple of
packages were updated with new versions as well.
2016-07-23 19:43:55 -05:00
Glenn Johnson
4181fd79cd Fix flake8 errors related to lines
Fixed the flake 8 errors that involved too many blank lines or not
enough blank lines. Basically, all of the flake8 errors except line
length errors.
2016-07-23 19:10:09 -05:00
Glenn Johnson
b51be2bb1b Have fetch use list_url
This PR allows archive file retrieval from urls derived from the
`list_url` setting in a package file. This allows for continued
retrieval of checksummed archive files even when they are moved to a new
remote location when a package is updated upstream.
2016-07-23 19:09:58 -05:00
Greg Lee
773bca159a do not ignore nosetests script in py-nose 2016-07-22 15:49:36 -07:00
Glenn Johnson
ec9959b152 R extension dependencies with compiler wrapper
This commit introduces a mechanism to insure that R package dependencies
are built with the Spack compiler wrapper. A copy of Makeconf is made
before `filter_compilers` is called. This is then pointed to by the
R_MAKEVARS_SITE environment variable set up in
`setup_dependent_environment`. With this the normal compilers are used
outside of spack and the spack wrapper compilers are used inside of
spack.

This commit also standardizes on the `join_path` call. It also sets the
commented build command to reflect what is actually used with the newer
string formatting.
2016-07-22 17:05:01 -05:00
Adam J. Stewart
1be486c90a Add CGNS package 2016-07-22 17:02:45 -05:00
becker33
7220bc1766 Merge pull request #1340 from adamjstewart/features/create
Use example deptypes in newly created packages
2016-07-22 14:25:12 -07:00
Todd Gamblin
395c616a48 Merge pull request #950 from xjrc/packages/python
Enhancement Proposal: Make Python Spack Installs Ignore User Configuration
2016-07-22 13:56:19 -07:00
Adam J. Stewart
ebbcebac62 Use example deptypes in newly created packages 2016-07-22 13:55:00 -05:00
Joseph Ciurej
fa92f58167 Adding temporary script that fixes all Python extensions w/ 'setup_py'. 2016-07-22 11:17:19 -07:00
Joseph Ciurej
ac2e0962ce Improved the build flag construction code in the python install method. 2016-07-22 11:12:02 -07:00
Joseph Ciurej
fb2d2303d6 Fixed a bug that was causing Python installs to be affected by user config. 2016-07-22 11:11:08 -07:00
Todd Gamblin
f5b4664c7c Merge pull request #1336 from glennpj/rcase
Fix alpha case of dependencies for some r-packages
2016-07-22 10:08:14 -07:00
alalazo
00d7fd8e21 test_install : removed commented code 2016-07-22 18:14:36 +02:00
Todd Gamblin
adffba5081 Merge pull request #1230 from hartzell/update-jdk
Add URL and md5 for jdk-8u92.
2016-07-21 22:06:29 -07:00
Glenn Johnson
e083c91d5e Fix alpha case of dependencies.
A while ago I was asked to convert packages to all lowercase. That was
done but some dependencies did not get converted in the specification.
This commit fixes that as well as a couple of urls that need to be made
explicit and a missing dependency on jdk.
2016-07-21 19:58:04 -05:00
Todd Gamblin
ed737cb2a2 Merge pull request #1333 from LLNL/features/no-openssl-pinging
Remove remote website pinging from OpenSSL
2016-07-21 16:46:59 -07:00
Todd Gamblin
488550c2e6 Merge pull request #1334 from hartzell/add-gcc-5.4.0
Update gcc package with info about gcc-5.4.0
2016-07-21 16:37:31 -07:00
Todd Gamblin
8523f75e6c Remove remote website pinging from OpenSSL
- OpenSSL no longer checks remote versions on the openssl site.

- Spack is used on systems that aren't connected to the internet, and
  this check is probably in the wrong place and affects too many
  commands.  We can work on figuring out a better, more configurable
  place to put a check like this.
2016-07-21 16:35:20 -07:00
Todd Gamblin
4707362ccd Merge pull request #1263 from hartzell/lmod-needs-tcl
The lmod package should depend_on('tcl')
2016-07-21 16:32:54 -07:00
becker33
dd5b1ac098 Merge pull request #1335 from LLNL/crayxc-detection
Crayxc detection
2016-07-21 15:06:42 -07:00
Gregory Becker
bcbe9c02da Added cray wrapper names directory to spack_env_paths so the spack compiler wrapper will remove them from the environment (prevents hang) 2016-07-21 14:50:23 -07:00
Gregory Becker
1544f98ee0 fixed flake8 errors 2016-07-21 14:36:10 -07:00
Gregory Becker
f0d5317913 fixed 2016-07-21 14:11:34 -07:00
Gregory Becker
2ae7429b18 Bug fix for cray_xc platform 2016-07-21 14:04:22 -07:00
George Hartzell
4efe022165 Update with info about gcc-5.4.0 2016-07-21 15:36:22 -04:00
Mitchell Devlin
796308ed85 edit 2016-07-21 13:39:27 -05:00
George Hartzell
4c105895ab Fix flake8 violations 2016-07-21 14:24:51 -04:00
George Hartzell
9523e50732 Fix shebang line in tcl scripts
Lmod's configure script goes to the trouble of finding
tclsh.  This change uses that info to rewrite the #! lines
in the tcl scripts so that they call the tclsh that the
configure script discovered.

It needs to massage the existing shebang lines into something
that the sed statement in the makefile can manipulate and
it needs to add the path_to_tclsh info into the set of sed
statements.

Checked with versions 6.4.1 and 6.3.7 (the checksum for 6.0.1 is
incorrect, a fix for another time).
2016-07-21 13:58:16 -04:00
George Hartzell
52f0249c61 tcl is actually a runtime dependency.
lmod uses tclsh at runtime, so adjust the depends_on accordingly
(thanks @davydden!).
2016-07-21 13:51:03 -04:00
George Hartzell
a27cb639d8 The lmod package should depend_on('tcl')
The lmod package needs a tclsh.  Up until now it just assumed
that one was available on the system.

This change adds a depends_on('tcl') to the lmod package.

The tcl package installs a tclsh script with an embedded version
number (e.g. tclsh8.6) but the lmod configuration looks for tclsh.
This change extends the tcl package to symlink tclshX.Y to tclsh in
the tcl package bin directory.
2016-07-21 13:51:03 -04:00
Adam J. Stewart
cf8f14780f MVAPICH2 depends on libpciaccess 2016-07-21 11:13:17 -05:00
Todd Gamblin
098af17971 Merge pull request #1208 from paulhopkins/bugfix/github1196-specify-preferred-variants
Bugfix/github1196 specify preferred variants
2016-07-21 08:36:19 -07:00
Todd Gamblin
5745ede31d Merge pull request #1328 from suraia/fix-recursive-module-load
Fix recursive module loading
2016-07-21 08:34:36 -07:00
Todd Gamblin
0b1d03abe6 Merge pull request #1327 from suraia/update-load-documentation
Update documentation for recursive module loading
2016-07-21 08:33:40 -07:00
Paul Hopkins
00280936da Flake8 fixes to ensure qa tests pass 2016-07-21 13:12:58 +01:00
Paul Hopkins
480fe9cb9a Re-add documentation for variant preferences 2016-07-21 12:32:00 +01:00
Paul Hopkins
bd91dd9d6d Allow users to supply preferred variants via packages.yaml 2016-07-21 12:32:00 +01:00
Michael Kuhn
732c24f603 Fix recursive module loading. 2016-07-21 13:15:53 +02:00
Michael Kuhn
4e1f86881a Update documentation for recursive module loading. 2016-07-21 13:15:10 +02:00
Gregory Lee
07d4c6cf0b Merge pull request #1205 from glennpj/psxe
Setup environment for Intel Parallel Studio
2016-07-20 21:14:34 -07:00
Glenn Johnson
ead1b93f75 MPI related changes
- Redid the code for setting the itac symlink for the cluster edition.
- Removed the *PATH variables for MPI to avoid a conflict with other MPI
  environment modules.
- Added missing test for `+all` when checking variants.
2016-07-20 20:03:05 -05:00
Glenn Johnson
0be4c7dfbd Changes as discussed in PR review
- removed unneeded entry for `debugger/gdb/intel64_mic`
- set `+mpi` directory name to impi
2016-07-20 20:03:05 -05:00
Glenn Johnson
5e5e36a659 Fix flake8 errors. 2016-07-20 19:54:35 -05:00