Commit graph

30304 commits

Author SHA1 Message Date
Adam J. Stewart
3d923fd5b8
py-pillow: add v9.5.0 (#36593) 2023-04-03 20:13:03 -05:00
Adam J. Stewart
a8c400bae0
py-pandas: add v2.0.0 (#36617) 2023-04-03 20:12:48 -05:00
Xavier Delaruelle
7a77ecbdb6
modules: remove default symlink on uninstall (#36454)
When app is uninstalled, if it matches a default, then remove the
default symlink targeting its modulefile.

Until now, when a default were uninstalled, the default symlink were
left pointing to a nonexistent modulefile.
2023-04-03 22:54:18 +02:00
Mikael Simberg
91636f0e9d
Bump required CMake version for stdexec (#36605) 2023-04-03 16:04:14 -04:00
Massimiliano Culpo
f91968cf6f
Improve Dockerfile recipe generation (#35187)
- Update default image to Ubuntu 22.04 (previously was still Ubuntu 18.04)
- Optionally use depfiles to install the environment within the container
- Allow extending Dockerfile Jinja2 template
- Allow extending Singularity definition file Jinja2 template
- Deprecate previous options to add extra instructions
2023-04-03 21:05:19 +02:00
Benjamin Meyers
3d149a7db2
New package py-pycorenlp (#36609) 2023-04-03 13:40:56 -05:00
Cory Bloor
cfea2d1010
hip: mathlibs inherit CudaPackage and ROCmPackage (#34586)
Unless the amdgpu_target is overriden, the libraries will default to
being built for cuda, since amdgpu_target=none is both default and in
conflict with +rocm. This requires a custom Disjoint set to include
both the 'auto' variant used by the rocm mathlibs and the 'none'
variant used by ROCmPackage.

* Fix search for hip+cuda in hipcub@5.1 and later

This patch is not strictly necessary, but it may fix the search for HIP
in certain environments.

* Backport fix for CUDA 11.5 to hipsparse
2023-04-03 20:28:24 +02:00
vijay kallesh
0860139c83
Updated homepage URL (#36519) 2023-04-03 11:21:13 -07:00
Vanessasaurus
182ef042ce
Automated deployment to update package flux-sched 2023-04-01 (#36591)
Co-authored-by: github-actions <github-actions@users.noreply.github.com>
2023-04-03 10:48:27 -07:00
Massimiliano Culpo
9d68100891
Rework error handling within the ASP logic program (#36536)
* Reduce effort on grounding by employing cardinality constraints

If we use a cardinality constraint instead of a rule
using pair of values, we'll end up grounding 1 rule
instead of all the possible pair combinations of the
allowed values.

* Display all errors from concretization, instead of just one

If clingo produces multiple "error" facts, we now print all
of them in the error message. Before we were printing just
the one with the least priority.

Consolidate a few common patterns in concretize.lp to ensure
that certain node attributes have one and only one value
assigned.

All errors are displayed, so use a single criterion
instead of three.

* Account for weights in concretize.lp

To recover the optimization order we had before, account
for weights of errors when minimizing.

The priority is mapped to powers of 10, so to effectively
get back the same results as with priorities.
2023-04-03 19:23:29 +02:00
Axel Huebl
ebffc53b93
openPMD-api: 0.15.1 (#36604)
Latest patch release, fixing build issues.
2023-04-03 16:39:34 +02:00
Robert Cohn
4c3edac454
namd: add oneapi support (#36139) 2023-04-03 16:39:09 +02:00
Matin Raayai
5e33f6bbc5
External Detection for llvm-amdgpu (#36595)
* Added external detection of llvm-amdgpu.

* Style cleaning for llvm-amdgpu.
2023-04-03 14:51:58 +02:00
Harmen Stoppels
a19f13f57a
zstd: fix makefile build, default to makefile (#36606) 2023-04-03 14:50:38 +02:00
Harmen Stoppels
93cad90413
openblas: use "all" target since it's marked sequential (#35905)
openblas likes to concurrently writes to the same archive from different
targets, and solves that through .NOTPARALLEL: all

We run `make x y z` which is not affected by `NOTPARALLEL`, running into
races.
2023-04-03 11:45:38 +02:00
Xavier Delaruelle
7e4927b892
modules: correctly detect explicit installation (#36533)
When generating modulefile, correctly detect software installation asked
by user as explicit installation.

Explicit installation status were previously fetched from database
record of spec, which was only set after modulefile generation.

Code is updated to pass down the explicit status of software
installation to the object that generates modulefiles.

Fixes #34730.
Fixes #12105.

A value for the explicit argument has to be set when creating a new
installation, but for operations on existing installation, this value is
retrieved from database. Such operations are: module rm, module refresh,
module setdefaults or when get_module function is used.

Update on the way tests that mimics an installation, thus explicit
argument has to be set under such situation.
2023-04-03 11:19:18 +02:00
Harmen Stoppels
88548ba76f
binutils 2.40: add missing zstd dep (#36598) 2023-04-03 06:41:38 +02:00
Laura Weber
2117e37a0b
sublime-text: Fix the dependencies of the recent update (#36562) 2023-04-02 19:53:54 +02:00
Tristan Carel
ac62817ba0
petsc: simplify dependencies with hypre (#36573)
* petsc: simplify dependencies with hypre

* add propagation of `complex` variant to hypre
2023-04-02 10:00:10 -05:00
Harmen Stoppels
08cf82b977
papyrus: disable tests (#36599) 2023-04-02 13:34:25 +02:00
Leonard-Anderson-NNL
4242989f22
New package: py-mike and dependency. (#36587)
Co-authored-by: Cloud User <leonardanderson@leonardander004.hzterscemazurawp3xenxzahla.bx.internal.cloudapp.net>
2023-04-01 21:53:48 -05:00
Juan Miguel Carceller
b524351e10
root: vc variant: root accepts only vc version 1.3.0 (#36594)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2023-04-01 21:47:34 +02:00
Alex Richert
b9bde03df5
yafyaml: Add fismahigh variant to comply with FISMA standards (#36471) 2023-04-01 21:12:00 +02:00
Satish Balay
5c3bc36fde
petsc,py-petsc4py,slepc,py-slepc4py: add version 3.19.0 (#36588) 2023-04-01 12:40:19 -05:00
John W. Parent
2a2c9cdf02
CMake: add version 3.26.2 (#36567) 2023-04-01 15:21:13 +02:00
Bernhard Kaindl
8b98564840
libxpm: Fix linking with libintl (#36568)
Original Author of this change: Chris Green <greenc@fnal.gov>

Two changes:
- Remove adding the library path using -L: It is obsolete now
  that we have the library paths in before the system paths.
- Link with -linto only if the gettext recipe provides it:
  When we are on a glibc system, we can use external gettext,
  which means we use the libintl inside libc.so: no -lintl then.

This change was already submitted in #35450 and reviewed but is
stuck in this big PR which is trying to do too in a single PR.
2023-04-01 15:11:14 +02:00
John W. Parent
d79c8179fc
Perl package: change attr to method (#36580)
This fixes a bug in the Windows build of Perl.

An attribute defined in package class is inaccessible from the install
method due to builder: refactor it to be a method.
2023-03-31 21:57:55 -04:00
John W. Parent
1175831203
netcdf-c package: fix patch applied on Windows (#36581) 2023-03-31 20:52:36 -04:00
Rocco Meli
210b2e8caa
MDAnalysis 2.4.3 (#36541)
* mda 2.4.3

* black

* mda update and reshuffle

* add tidynamics
2023-03-31 18:47:56 +00:00
John W. Parent
a8e2961010
Allow configurable stage names (#36509)
Add `config:stage_name` which is a Spec format string that can
customize the names of stages created by Spack. This was primarily
created to allow generating shorter stage names on Windows (along
with `config:build_stage`, this can be used to create stages with
short absolute paths).

By default, this is not set and the prior name stage format is used.

This also removes the username component that is always added to
Stage paths on Windows (if users want to include this, they can
add it to the `build_stage`).
2023-03-31 11:46:47 -07:00
Alec Scott
a6a364d3b8
py-aioitertools: add v0.11.0 (#36540)
* py-aioitertools: add v0.11.0

* Update var/spack/repos/builtin/packages/py-aioitertools/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Update package.py

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-03-31 14:16:12 -04:00
Harmen Stoppels
46bbce1922
compiler wrapper: fix -Xlinker parsing (#35929)
* compiler wrapper: fix -Xlinker parsing
* handle the case of -rpath without value; avoid that we drop the flag
* also handle the -Xlinker -rpath -Xlinker without further args case...
* fix test
* get rid of global $rp var, reduce branching
2023-03-31 09:47:24 -07:00
Satish Balay
14465e61ae
petsc: builds break with gnu-make-4.4.1 (#35906)
Use 'make' detected by spack within petsc build
2023-03-31 09:28:48 -07:00
kwryankrattiger
4064191fbc
Ascent: Drop VTK-h dependency for 0.9 (#36458)
* Ascent: Drop VTK-h dependency for 0.9

* Ascent: Remove duplicate OpenMP constraints

* Ascent: 0.9.0 cannot build with vtk-m@2

* Ascent: Only needs vtkm when using vtkh

* Ascent: Require fides when building with ADIOS2
2023-03-31 11:24:45 -05:00
renjithravindrankannath
7bb64b526f
rocsparse: exclude v5.4 from being patched (#36571) 2023-03-31 18:14:04 +02:00
Cameron Rutherford
4f42092f4f
hiop: add v0.7.2 (#36570) 2023-03-31 11:33:26 -04:00
Tristan Carel
3b5b9e8474
steps: add variants gmsh and kokkos (#36543) 2023-03-31 11:27:58 -04:00
Paul Romano
aabd76cb74
OpenMC: add v0.13.3 (#36564)
* OpenMC: add v0.13.3

* Add missing version in list for py-openmc
2023-03-31 11:18:26 -04:00
H. Joe Lee
fbde853360
hdf5: add a map variant (#35523)
* hdf5: add map variant
* hdf5: add mininum version for map variant
* hdf5: fix black error
2023-03-31 10:48:08 -04:00
Benjamin Meyers
951f691d1b
New: py-dalib, py-qdldl, py-qpsolvers; Update: py-ecos, py-scs, py-osqp (#36549)
* New: py-dalib, py-qdldl, py-qpsolvers; Update: py-ecos, py-scs, py-osqp

* [@spackbot] updating style on behalf of meyersbs

* Update py-qpsolvers homepage

* Add when clause to py-future
2023-03-31 09:34:02 -05:00
Benjamin Meyers
27978fd355
New package py-json2html (#36111)
* New package py-json2html

* Remove deprecated python deps
2023-03-31 09:32:31 -05:00
John W. Parent
349b5d982b
Add latet CMake release (#36119) 2023-03-31 08:28:49 -04:00
Ashwin Kumar Karnad
c2c56c1ca1
octopus: Add sparskit variant (#36494)
Co-authored-by: Hans Fangohr <fangohr@users.noreply.github.com>
Co-authored-by: Bernhard Kaindl <43588962+bernhardkaindl@users.noreply.github.com>
2023-03-31 08:18:53 -04:00
Weston Ortiz
7e06b5bc88
goma: add additional versions up to 7.4.3 (#36561) 2023-03-31 06:49:12 -04:00
Miroslav Stoyanov
17cec3b101
Deprecate old tasmanian (#36534)
* deprecated old versions and deps
* syntax fix

---------

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2023-03-31 06:48:48 -04:00
Harmen Stoppels
b0e7b8c794
typehint a few globals (#36544) 2023-03-31 08:32:56 +02:00
Alec Scott
98ac3acc92
py-aiobotocore: add v2.5.0 (#36538)
* py-aiobotocore: add v2.5.0

* Fix dependencies for v2.5.0

* Add py-botocore@1.29.76
2023-03-30 20:52:37 -05:00
Benjamin Meyers
7d66c3b5d1
New package py-coclust (#36548)
* New package py-coclust

* [@spackbot] updating style on behalf of meyersbs
2023-03-30 20:41:15 -05:00
Benjamin Meyers
ae9a65ae56
New package py-soyclustering (#36550)
* New package py-soyclustering

* [@spackbot] updating style on behalf of meyersbs
2023-03-30 20:33:33 -05:00
Michael Kuhn
996442ea9b
py-h5py: add 3.8.0 (#35960) 2023-03-30 20:20:55 -05:00