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* Bump gatk version to 4.0.4.0.
* Update.
* Fixed.
* Fixed.
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* A new package: py-openslide-python.
* Update.
* Remove py-pytorch package.
* Remove nektar package.
* Remove install_time_test_callbacks
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* Make symlinking python3->python optional
* Added reference to PEP 394
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* sphinx: Updated to v1.7.4
* Update package.py
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* bedops: Create new package
* fix install method
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* Added magma package
* Incorporated Serban's change
* Remove deleted files
* argparse.py
* Sync forked Spack repo in github
* Use reported version of IBM XL Fortran compiler for compiler versions
>= 16.0.
Starting with the April 2018 release, the IBM XL C and Fortran
compilers report the same version, 16.0. Consequently, there is
no need to downgrade the Fortran compiler version to match that
of the C compiler.
* Eliminate blank lines.
* Update the Spectrum MPI package.py file to specify the correct compilation
scripts for the PGI compilers.
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https://github.com/spack/spack/issues/7965#issuecomment-385953224
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* mvapich2: add registration cache and file systems variants, avoid empty --with-pm= if no process manager is specified, add missing leading dash in --disable-silent-rules
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(#7949)
* mpifileutils: roll back to dtcmp v1.0.3 due to API change, add option to build master branch
* add comment to explain why certain dtcmp is required, rename version for git branch
* dtcmp v1.0.2 is missing github tarball
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When building eospac with %clang, spack's Fortran compiler wrapper is called
'flang', which is rejected by the eospac build system..Allow compilation with
%clang by patching the eospac build system.
My testing only covers %clang where flang is actually gfortran. However, this
patch only registers 'flang' as a known Fortran compiler and does not set any
flags or options that are compiler specific.
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* mfem: fix concretization
* Fix hypre deps again
* Update package.py
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Add configurable HTTP, Python and readline support.
Add previously missing dependencies.
Minor patch to improve Python support (see https://github.com/xrootd/xrootd/pull/695).
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* Use GitLab's API endpoint for fetching a git snapshot.
* More GitLab packages use the API.
* find_list_url for GitLab's API URLs.
* Flake8
* Url for 'hacckernels'.
* Check GitLab API regexps before the non-API ones.
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* Add Trinity package
New package to install Trinity - another odd installer (assumes installation to /usr/local/bin and doesn't copy dot files hence deleting them)
* Update package.py
added dependencies from https://github.com/trinityrnaseq/trinityrnaseq/wiki/Installing-Trinity
* Update package.py
Copy tree to prefix.bin so that PATH can correctly be set for the Trinity command - can't split it off as it seems everything needs to stay together.
* Update package.py
Fixed over-length lines and space before comma
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This commit fixes #7900.
In short: in the absence of constraints to the contrary, spack will
download the preferred version of a package, which is usually the most
recent non-develop version. On a clean spack installation without
hypre installed, `spack install mfem` will download hypre 2.14.0,
which is API-incompatible with mfem 3.3.2 (and earlier versions of
mfem), so spack will throw compiler errors re: the API mismatch.
This commit fixes that error by restricting mfem release versions
3.3.2 and earlier to hypre version 2.10.b to 2.13.999 (only 2.13.0
currently exists, but if it has a non-2.14.x maintenance release,
these versions of hypre should also be permitted).
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* A new package: loki.
* Flake8.
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* automake: added version 1.16.1
* lmod: added version 7.7.29
* git: added version 2.17.0
* tmux: added version 2.7
* scala: added version 2.12.5, fixed typo in version 2.10.6
* Added spark@2.3.0, hadoop@3.1.0, jdk@8u172-b11
* picard: added version 2.18.3
* tar: added version 1.30
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* Add boost 1.67.0
* Remove boost 1.67.0 release candidate and the associated patch
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* Add r-bbmisc
* Add r-dicekriging
* Add r-lhs
* Add r-mco
* Add r-misc3d
* Add r-mlr
* Remove boilerplate from r-mlr package
* Add r-mlrMBO
* Add r-parallelmap
* Add r-paramhelpers
* Add r-plot3d
* Add r-rgenoud
* Add r-smoof
* Add r-rinside 0.2.14
* Fix flake8 issues
* Add specific required versions
* Add more up-to-date versions of r-{mco, mlr, mlrMBO, smoof}
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Added OpenMP variant for kokkos that can be disabled to build and test
on platforms where OpenMP is not available or desired. Also updated
version list
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* openmpi: libfabric support, ucx cleanup
* openmpi: remove unnecessary parentheses
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* libfabric: mxm deprecated, adding mlx aka ucx
* libfabric: adding dependencies that we have in spack
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* psm: new package
* psm: setting latest stable to preferred
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* rdma-core: new package
* rdma-core: change to platform conflict
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* libnl: new package
* libnl: change platform constraint to a conflict
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* Committer: sajid <sajid@xrmlite.phys.northwestern.edu>
modified: var/spack/repos/builtin/packages/py-numpy/package.py
* Corrected typo
* removing whitespace
* remove whitespace
* remove whitespace, if not will do this in vim
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* py-testinfra: Create new package
* py-testinfra: flake8 fixes
* py-testinfra: fix pytest version dependency
* py-testinfra: fix py-importlib version dependency
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* fabtests: new package
* fabtests: fix hashes for github archive behavior & add libfabric dep
* fabtests: both versions confirmed working
* fabtests: use developer provided archive
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* Add a new package: gloo.
* Remove dependencies.
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--enable-mpi-thread-multiple option not viable in Open MPI 3.0+
Signed-off-by: Dan Topa <dantopa@lanl.gov>
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* prinseq-lite: Create new package
* prinseq-lite: set variant description and add dependency type
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