Commit graph

7695 commits

Author SHA1 Message Date
becker33
b09341d861 binary packages: do post install hooks (#6269) 2017-11-12 17:57:10 -07:00
Massimiliano Culpo
1ab703448d SC17: advanced packaging tutorial (#6148)
* First draft of the advanced packaging tutorial

* advanced packaging tutorial: improved phrasing

Thanks Denis and Hartzell!

* Fixed typos + reworded a couple of sentences
2017-11-12 00:27:57 -08:00
Massimiliano Culpo
fe889124eb SC17: reworked module file tutorial section (#5657)
* Reworked module file tutorial section

First draft for the SC17 update. This includes:

 - adding an introduction on module files + Spack's module
   generation blueprints
 - adding a set-up section and provide a docker image for easy set-up
 - updating all the relevant snippets
 - extending a bit some of the concepts that were already touched

* Added reference to #5582 + committed Dockerfiles

Also fixed a couple of typos spotted by Denis.

* module file tutorial: added section on template customization

* module file tutorial: fixed minor typos + rephrased a sentence

* module file tutorial: made explicit that Docker image comes with software

* module file tutorial: improved phrasing and layout.

Thanks Hartzell!

* module file tutorial: added vim and nano to editors

* module file tutorial: fixed typo

* Fixed typos

Thanks Adam!

* module file tutorial: updated Dockerfile + minor changes in introduction
2017-11-12 00:27:20 -08:00
becker33
1008975bc0 Don't include build-only dependencies in build cache hash (#6262) 2017-11-11 20:54:17 -08:00
Satish Balay
6fd92e4257 petsc: update to version 3.8.2 (#6244)
Includes pkgconfig fix [for mfem static build failure]
2017-11-11 07:16:03 -07:00
Brian Homerding
19f8940c01 Nekbone: Installing data files for example runs (#6243)
* Nekbone: Installing data files for example runs

* Typo Fix
2017-11-10 19:59:33 -07:00
Sergey Kosukhin
263126bc5d Create symlink for 'swig' binary after installation. (#6240) 2017-11-10 19:50:11 -07:00
Aaron Fisher
af06ea0e74 Fixed mfem mpi build issue. (#6254)
* Fixed mfem mpi build issue.

* Fixed a non-mpi build issue and switched to the latest official MFEM release.
2017-11-10 19:49:17 -07:00
Yifan Zhu
e38f31e773 feature/r-reprex: new package (#6257) 2017-11-10 19:47:21 -07:00
Cyrus Harrison
b079e1dbd5 add alpine ascent (#6224)
* add ascent package and and deps

* proper use of site_packages_dir prop

* flake8

* add maitain, small updates

* flake8

* flake8

* fixs for docstrings for sphinx
2017-11-10 17:00:47 -08:00
scheibelp
8c458a856f
Group flags and values separated by space (#6169)
Fixes #6154

For compiler options which set values using the syntax "-flag value"
(with a space between the flag and the flag's value) the flag and
value were treated as separate and reordered. This updates Spack's
logic to treat the flag and value as a single unit, even if there is
a space between them. It assumes that all flags are prefixed with
"-" and that all flag values are not.
2017-11-10 16:33:50 -08:00
becker33
917d021997 Add version 1.04 (#6259) 2017-11-10 15:52:48 -08:00
becker33
a7b817b494 elfutils: add --no-as-needed flag for library ordering issue (#6256)
* add --no-as-needed flag for library ordering issue libelf

* fix syntax error.
2017-11-10 11:42:37 -08:00
Yifan Zhu
f6ed8d856a xclip: created new package (#6248) 2017-11-10 11:13:00 -07:00
Yifan Zhu
a872dc5927 r-clipr: created new package (#6249) 2017-11-10 11:11:45 -07:00
Todd Gamblin
7dea7aad51
Add a code of conduct to Spack (#6251)
We're adopting the contributor covenant for now.  This isn't something we've needed to use yet, but it is good to have in case we actually do have a problem.
2017-11-09 21:18:58 -08:00
Patrick Gartung
124b5fc296 deal with case where symbolic links are copied (#6178)
* deal with case where symbolic links are copied

* Suggested changes
2017-11-09 14:38:12 -08:00
lingnanyuan
acc3817ffc r-purrr: Create new package. (#6241) 2017-11-09 14:51:30 -07:00
lingnanyuan
65a278c927 r-covr: Create new package. (#6239) 2017-11-09 13:19:53 -07:00
lingnanyuan
e43e29209d r-readxl: Create new package. (#6238) 2017-11-09 13:19:43 -07:00
lingnanyuan
0902f58f3d r-cellranger: Create new package. (#6237) 2017-11-09 13:19:25 -07:00
lingnanyuan
5e0e3092f6 r-rematch: Create new package. (#6236) 2017-11-09 13:19:12 -07:00
Satish Balay
2b07379831 petsc: when hdf5 depends on zlib - petsc+hdf5 should also be configur… (#6189)
* petsc: when hdf5 depends on zlib - petsc+hdf5 should also be configured with zlib

* petsc: fix dependency [of zlib to be on hdf5 - and not on petsc]

* petsc: use the fact that hdf5/package.py has a hard dependency on zlib [so no need to check for this dependency in code]

recommended-by: @davydden

* petsc: change hdf5 dependency to 'hdf5+hl' as petsc configure is looing for -lhdf5_hl

https://github.com/spack/spack/issues/5846
2017-11-09 11:34:59 -08:00
Satish Balay
8d512ce9ae magma: cuda updates [from xsdk-0.3.0 branch] (#6160)
- add gcc dependency per cuda versions
- Fix for cuda-9.0  as it does not support sm20

    nvcc fatal   : Unsupported gpu architecture 'compute_20'
2017-11-09 11:34:40 -08:00
Patrick Gartung
1484a94b1e spack buildcache: symlink and relative RPATH fixes (#6140)
* Skip rewriting files that are links (this also avoids issues with parsing
  the output of the 'file' command for symlinks)
* Fail rather than warn for several gpg signing issues (e.g. if there is no
  key available to sign with)
* Installation with 'buildcache install' only retrieves link and run
  dependencies (this matches 'buildcache create' which only creates tarballs
  of link/run dependencies)
* Don't rewrite RPATHs for a binary if the binary cached package was created
  with relative RPATHs
* Refactor relocate_binary to operate on multiple binaries (given as a
  collection of paths). This was likewise done for relocate_text and
  make_binary_relative
2017-11-09 10:53:34 -08:00
lingnanyuan
ee867db5de r-log4r: Create new package. (#6133) 2017-11-09 10:23:48 -07:00
Simone Bnà
c79a0fbbf2 mesa: fixed url for version (#5818) 2017-11-09 10:16:52 -07:00
Benedikt Riedel
266de67c24 ROOT needs to have a consistent version of binutils, as it is very sensitive to the version of libopcodes. You can't move the code from one system (with the same OS) as another. (#6226) 2017-11-09 06:49:27 -08:00
lingnanyuan
935a6b00d7 r-analysispageserver: Create new package. (#6135) 2017-11-09 07:23:10 -07:00
Levi Baber
74d38b3150 py-dlcpar (#6229)
* py-dlcpar: new package

* py-dlcpar: whitespace
2017-11-09 07:21:56 -07:00
baip
acf6653933 pexsi: add version 0.10.2 (#6232) 2017-11-09 07:21:39 -07:00
David Gardner
d9fc26b2a5 add sundials 3.1.0 (#6230) 2017-11-09 14:04:03 +01:00
Luigi Calori
24bb3c61de fix perl dependent modules, #5900 (#5937)
*  FIX perl dependent environmwent setup to avoid void lines in generated modules as #5900

* remove debug prints

* fix flake8
2017-11-08 22:10:50 -07:00
Alfredo Adolfo Gimenez
a754bd7eee Package/sosflow (#6122)
* Added missing deps to libffs

* SOSflow spack package pointing to sos_flow feature/spack branch

* Using tag for spack build

* Change url to spack/spack
2017-11-08 22:07:37 -07:00
David Gardner
a656bc300a add patch for building sundials (#6161)
* add patch for building sundials on mac

* add upper limit on the patch
2017-11-08 22:06:34 -07:00
Yifan Zhu
3159841e33 r-callr: created new package (#6223) 2017-11-08 21:59:21 -07:00
lingnanyuan
72bec9a7a0 r-rex: Create new package. (#6221) 2017-11-08 21:57:09 -07:00
Yifan Zhu
ca2ffd9299 r-rvest: created new package (#6220) 2017-11-08 21:56:50 -07:00
Levi Baber
ef126523f1 fastme: new package (#6219) 2017-11-08 21:56:32 -07:00
Yifan Zhu
edc1e6a0d8 r-selectr: created new package (#6218) 2017-11-08 21:56:02 -07:00
lingnanyuan
e57564e899 r-tseries: Create new package. (#6216) 2017-11-08 21:55:45 -07:00
sknigh
699748a2be Added missing build dependency to json-c (#6211) 2017-11-08 21:55:28 -07:00
lingnanyuan
e2004076b1 r-allelicimbalance: Create new package. (#6044) 2017-11-08 21:52:46 -07:00
Yifan Zhu
ac7f5a1af1 r-mzr: created new package (#6206) 2017-11-08 19:53:00 -07:00
Yifan Zhu
cd4b19ffa8 r-msnbase: new package (#6207) 2017-11-08 19:52:38 -07:00
lingnanyuan
912d39908d r-sqldf: Create new package. (#6208) 2017-11-08 19:52:08 -07:00
lingnanyuan
4585d6426a r-gsubfn: Create new package. (#6209) 2017-11-08 19:51:51 -07:00
Yifan Zhu
b110cd0b12 r-vsn: new package (#6210)
* r-hexbin: updated md5

* r-vsn: created new package
2017-11-08 19:51:35 -07:00
lingnanyuan
7848e0d4b6 r-quantmod: Update version to 0.4-11 (#6212) 2017-11-08 19:51:13 -07:00
Yifan Zhu
ecdaea1c8e r-xml2: created new package (#6217) 2017-11-08 19:50:53 -07:00