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Author SHA1 Message Date
Sinan
02ae944c74 fix typo in version number (#12855) 2019-09-17 20:28:57 -05:00
Peter Scheibel
141a1648e6 implicit rpaths filtering (#12789) 
* implicit_rpaths are now removed from compilers.yaml config and are always instantiated dynamically, this occurs one time in the build_environment module

* per-compiler list required libraries (e.g. libstdc++, libgfortran) and whitelist directories from rpaths including those libraries. Remove non-whitelisted implicit rpaths. Some libraries default for all compilers.

* reintroduce 'implicit_rpaths' as a config variable that can be used to disable Spack insertion of compiler RPATHs generated at build time.
 2019-09-17 17:45:21 -05:00
Christoph Junghans
b11a98abf0
cmake: add v3.15.{2,3} (#12847) 2019-09-17 13:13:39 -06:00
George Hartzell
ae37896800 cryptsetup package: dont vendor libuuid in util-linux (#12839) 
Fixes #12829

This adds a variant to the util-linux package that controls whether it
builds its own libuuid.  Variant defaults to True.  It enables other
packages to choose to get libuuid from the libuuid package instead.

This also changes the cryptsetup package to build util-linux with
~libuuid (so it uses an explicitly-Spack-built instance of libuuid
instead).
 2019-09-17 11:22:10 -07:00
Adam J. Stewart
21e4b1752e Fix generic body during package creation (#12804) 
Fixes incomplete change in #11981 

Use the proper variable (`body_def`) during package creation for package subclasses.
 2019-09-17 09:37:46 -07:00
Adam J. Stewart
dce45aa299 Allow build to proceed with failed compiler lib detection (#12756) 
Fixes #12732
Fixes #12767

c22a145 added automatic detection and RPATHing of compiler libraries
to Spack builds. However, in cases where the parsing/detection logic
fails this was terminating the build. This makes the compiler library
detection "best-effort" and reports an issue when the detection fails
rather than terminating the build.
 2019-09-16 19:09:28 -07:00
Adam J. Stewart
5eac8130b3 Quote shell variable values (#12759) 
This updates logic which sets shell variables to quote the values,
which is necessary when the value contains a space (e.g. PATH).
 2019-09-16 11:10:36 -07:00
Adam J. Stewart
14ef0c238e
Add py-pycbc package (#12823) 2019-09-16 13:10:02 -05:00
Adam J. Stewart
269f34c310
Add py-astropy 2.0.14 (#12816) 2019-09-16 13:09:30 -05:00
Adam J. Stewart
98eb8ef0af
Add py-beautifulsoup4 4.8.0 (#12815) 2019-09-16 13:08:36 -05:00
Adam J. Stewart
94291ebd1a
Add py-mpld3 package (#12822) 2019-09-16 13:08:17 -05:00
Adam J. Stewart
a08a7da413
Add py-asdf package (#12817) 2019-09-16 13:07:48 -05:00
Adam J. Stewart
fea315e274
Add py-bintrees package (#12818) 2019-09-16 13:07:21 -05:00
Adam J. Stewart
0885615e22
Add py-lscsoft-glue package (#12821) 2019-09-16 13:06:59 -05:00
Adam J. Stewart
3b11dfdca0
Add py-jplephem package (#12819) 2019-09-16 13:06:33 -05:00
Adam J. Stewart
947413236b
Add py-ligo-segments package (#12820) 2019-09-16 13:06:09 -05:00
Adam J. Stewart
4cce23d1d3
Add py-pyopenssl package (#12824) 2019-09-16 13:05:37 -05:00
Adam J. Stewart
0d64b12c58
Add py-semantic-version package (#12825) 2019-09-16 13:05:12 -05:00
Adam J. Stewart
b8481d7913
Add py-sortedcontainers package (#12826) 2019-09-16 13:04:50 -05:00
Adam J. Stewart
09e3d6514b
Add py-weave package (#12828) 2019-09-16 12:57:18 -05:00
Adam J. Stewart
321c857d4c
Add py-soupsieve package (#12827) 2019-09-16 12:56:53 -05:00
Adam J. Stewart
e3969e33fd
Relax Python version constraints on py-html5lib (#12811) 2019-09-16 12:56:21 -05:00
Chuck Atkins
76b79c125a
xdmf3: new package (#12778) 2019-09-16 12:02:07 -04:00
Ruben Di Battista
9675db4e7f qt: Fix build with GCC9 for version 4 (#12832) 
* qt: Fix build w/ GCC9 for @4:

* qt: Fix patch filename and qt version

* Fix typo in patch name
 2019-09-14 14:00:46 -05:00
Toyohisa Kameyama
c26a3ff894 flang: build on arm. (#12808) 2019-09-14 11:15:06 -05:00
Scott Wittenburg
1050fa5546 Fixes identified in ecp facilities hackathon fixes: 
- improve mirror git repo management
- minio s3 implementation needs endpoint_url
- Remove image key from rebuild-index job
- Remove image, rely on tags instead
 2019-09-13 22:57:15 -07:00
Scott Wittenburg
6d745a56fd Implement an optional compiler bootstrapping phase 2019-09-13 22:57:15 -07:00
Scott Wittenburg
5323a5cff9 Remove CombinatorialSpecSet in favor of environments + stacks 2019-09-13 22:57:15 -07:00
Scott Wittenburg
0b67f30e21 Add pre-ci job generation for a multi-repo setup 2019-09-13 22:57:15 -07:00
Scott Wittenburg
fabbb3d58a Refactor release-jobs cmd based on use of environments (no docker either) 2019-09-13 22:57:15 -07:00
Scott Wittenburg
73c161b7de Add schema for new gitlab-ci and cdash additions to environment 2019-09-13 22:57:15 -07:00
Adam J. Stewart
5f18696169 py-bleach package: add version 3.1.0 (#12814) 2019-09-13 19:15:54 -07:00
Adam J. Stewart
3a47a6196f py-cython package: fix --test (#12813) 
Fix bug in string conversion of "make_jobs"
 2019-09-13 19:15:06 -07:00
Adam J. Stewart
a3c6b07c96 py-emcee package: add version 2.2.1 (#12812) 2019-09-13 19:13:45 -07:00
Adam J. Stewart
f9b8442e1b wcslib package: add version 6.4 (#12810) 2019-09-13 19:09:54 -07:00
Glenn P Johnson
6937416a65 Add diamond dependency 2019-09-13 19:08:57 -07:00
Glenn P Johnson
09047d76e9 Update braker package 
- add version 2.1.4
- change url to github
- add perl dependencies
- new version has a new source layout
- filter shebang to use spack perl
 2019-09-13 19:08:57 -07:00
Glenn P Johnson
b046ee20f5 Fixes for augustus package 
- add missing perl dependency
- only filter Makefile if referred to dependency is in the spec
- rewrite the shebang line of scripts to use spack perl
- remove tabix dependency as tabix and bgzip are part of htslib
 2019-09-13 19:07:35 -07:00
Glenn P Johnson
2256890d4e Update genemark-et package 
- add version 4.46
- add missing perl dependencies
- new version has different source layout
- filter shebang to use spack perl
 2019-09-13 19:05:02 -07:00
Sinan
6df57bb2d0 New package: py-pykwalify (#12540) 2019-09-13 12:22:08 -07:00
Frédéric Simonis
3f06d5c12a preCICE: added versions 1.6.0 and 1.6.1 (#12809) 2019-09-13 16:04:50 +02:00
Glenn Johnson
3cc95c6427 diamond: added version 0.9.25 (#12805) 2019-09-13 07:37:52 +02:00
Sinan
48e9090252 New package: py-ruamel-yaml (#12543) 2019-09-12 15:46:39 -07:00
Owen Solberg
78f3f4c309 Singularity package: add version 3.4.0 (#12785) 
This version in combination with the included patch can install
without root.
 2019-09-12 13:45:00 -07:00
Owen Solberg
6608876747 New package: cryptsetup (#12762) 
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
 2019-09-12 13:41:53 -07:00
Sinan
b95b4bb9e0 add compilation option to sqlite (#12794) 
* add compilation option to sqlite

* rename variant

* fix bug

* re-rename variant
 2019-09-12 15:31:03 -05:00
ktsai7
96ba5a1265 Update legion gasnet config (#12523) 2019-09-12 13:46:37 -06:00
Tyler Reddy
25dbc9fb8e BUG: recursively load modules with tcsh (#12664) 
* for tcsh and csh, spack load -r package
should now correctly load recursively instead
of only loading the target package without any
dependencies
 2019-09-12 11:11:27 -06:00
Simo Tuomisto
5a6d060b52 py-gpaw: Fixed broken fftw linking in newer versions of py-gpaw (#12795) 2019-09-12 09:36:45 -05:00
brietzke
3269f712f0 fgsl: new version + fix for recent spack commit (#12790) 2019-09-11 20:15:50 -05:00