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* py-pyfaidx: adding new package * updating the url * identifying dependencies
…all (spack#7760) Fixes spack#2781 This PR introduces a new attribute for packages called `archive_files`, which designates files that should be saved from a package build (e.g. the config.log generated during autotools builds). The attribute contains a list of glob expressions; Any file that matches will be archived in the `<prefix>/.spack/archived-files` directory. Errors that occur when archiving files are collected and reported in a file named `<prefix>/.spack/archived-files/errors.txt`. `AutotoolsPackage` and `CMakePackage` provide a sensible default override for this attribute.
Add variants to control building of many 3rd-party modules in opencv. They are enabled by default, which matches the defaults chosen by opencv when these options are not set explicitly. This also updates the lbann opencv dependency to disable most of these new variants by default in order to build faster.
…7012) * llvm+lldb plaform=darwin: check for lldb_codesign Building LLVM with LLDB requires that the "lldb_codesign" code certificate be created (see https://llvm.org/svn/llvm-project/lldb/trunk/docs/code-signing.txt for details). This commit checks for this certificate on Darwin if LLDB is to be built, and returns an informative error message if this certificate is unavailable.
* perl-extutils-pkgconfig: Add pkg-config dependency * perl-extutils-pkgconfig: fix build dependency * perl-extutils-pkgconfig: fix build dependency
…ack#8069) * Add 3.5.2; Add optional cpp implementation enable for py-protobuf * Make flake8 happy * Give all required install_args
* Add new Sundials versions, update minimum cmake version required * specify which versions require a newer cmake * revise cmake dependency * remove develop, add 4.0.0-dev version
* stop cmake from picking up /usr paths if spack has corresponding packages Change-Id: I7217122562697c7a642cded2b4bfb606d2e35ffb * add libpcap dependency Change-Id: If0d5c2c94b2c2d1cbb9b19e31e44f870b71ba88b * make cmake actually pick up pcap Change-Id: I67b87fd9282c26f5ff4e0a5aedd8bbbae39a5960 * add libtool build dependency Change-Id: I5c6d14dca7ccbe457318903dd170bb19d004e952 * use .libs for pcap Change-Id: Ibe78f8765524385f9da4a8f9963f2c61632cc9f7 * explicitly add bison build dependency Change-Id: I47112778abdf4c0de81789685a7eca4dddb20f77 * add lua explicitly Change-Id: I8e306e1e4cfa0e16138f3a5109ddcfe912120946 * fix libs usage Change-Id: I8c1e03f10df69e3ef74326a13cacaf0e5498e6aa * add minimal version requirement Change-Id: I4dd181389f9a63067df541b982bc0727f974d4ce
For Spectrum MPI, if -np is omitted, the default behavior is to assign one process per process slot, where the default process slot allocation is one per core. On systems with many cores, the number of processes can exceed the size of the grid specified when the testcase is run and the test case fails. This specifies a small number of processes when running the test case to prevent failure.
* gmsh: add netgen and tetgen dealii: require gmsh+netgen+tetgen netgen: use http instead of https * dealii: add oce requirement to gmsh
Fixes spack#8088 spack#7012 added a @when condition for a @run_before check to constrain that check to only run on Darwin. @when is intended to be used to choose one of several different implementations of a given function and cannot be used to conditionally deactivate a check altogether. This replaces the external decorator with a check that executes at the beginning of the function.
* masurca: new version * masurca: reorder versions
Signed-off-by: Howard Pritchard <[email protected]>
* r-cdcfluview: new package * updated package.py
* Add package for "bumpversion" bumpversion is a tool that automagically increments version numbers for projects. It can update files and do other magic along the way. * Remove py- package prefix and use pypi.io URL Renamed the package 'bumpversion'. Fetch the package from pypi.io. * Add version info for [email protected]
* plink: new source version 1.9-beta5 * plink: replace version 1.9 with 1.07
* Create custom PATH that texlive requires in its module. * Updating texlive to 2018 distribution. * Using platform instead of sys for easier portability across linux and osx.
…spack#8104) * added the +numpy variant which enables building the libboost_numpy libraries * Update package.py Added `type=('build', 'run')`
* modified: package.py * add official build reference. * Update package.py * Update package.py * Update package.py * fixed with pep8online.com * update make to make() * change homepage
* Adding nektar++ package * - -> ~ and add explicit conflict with metis * Add messages explaing nektar's conflicts
Also add an nls variant for gettext support.
* make provision to install version 6.4.0beta.2 * drop flang.patch for the newer version per junghans
fixes spack#8083 External specs are supposed to be installed already, so there's no need to try to download a tarball for them.
* Fix digest for [email protected] The digest value for v1.5.2 appears to have changed. This value works for me, today. The existing value v2.0.2 works as is. * Use "download" URL for ABYSS Following the suggestion of the project team, switch to using the release tarballs from the "download" URL instead of the automagically generated ones at the "archive" URL. Converstation here: bcgsc/abyss#232
Line numbers were reported as zero-indexed, but we need to adjust.
* Less sensitive error detection in build logs * Fix test_log_parser unit test
* pybind11: test support Add a test functionality to pybind11. * CMake: test also on "make check" Some projects use non-CTest manual targets for tests.
* clapack: new package * clapack: updated edit phase and fixed flake9 errors * clapack: added description for variant * clapack: updated * removed .package.py.swo
* adding partially completed recipe for phast. will need clapack as dependency * try to install phast * seems to still need CLAPCK * using CLAPACK instead * phast: updated * fixed flake8 error * phast cannot build with clapack built with external blas? * phast: depend on clapack built without external blas * fixed flake8 errors * phast: updated build_directory
version('1.4.1.2', '38c7d33210155e5796b16d536d1b5cfe')
Signed-off-by: Daniel Topa <[email protected]>
Fixes spack#8345 Spack environment modifications are applied before modules are loaded; this includes settings to CC, FC, F77, and CXX, which point to the Spack compiler wrappers. If the loaded modules set CC, this overrides the Spack compiler wrappers. This PR adds a context manager to preserve the values of CC etc. that are set by Spack: any effects on the CC, FC, F77, and CXX variables from modules are undone and their original values are restored.
citibeth
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Aug 19, 2020
Whenever attempting to use any ncurses functionality within cscope, a
page fault would result within the ncurses library.
Program received signal SIGSEGV, Segmentation fault.
0x00007ffff7fad3cf in termattrs_sp () from .../lib/libncursesw.so.6
(gdb) bt
#0 0x00007ffff7fad3cf in termattrs_sp () from .../lib/libncursesw.so.6
#1 0x00007ffff7faa794 in _nc_setupscreen_sp () from .../lib/libncursesw.so.6
#2 0x00007ffff7fa614c in newterm_sp () from .../lib/libncursesw.so.6
#3 0x00007ffff7fa65b9 in newterm () from .../lib/libncursesw.so.6
#4 0x00007ffff7fa2970 in initscr () from .../lib/libncursesw.so.6
spack#5 0x0000000000403dc2 in main (argc=<optimized out>, argv=0x7fffffffcea8) at main.c:574
This is due to a conflict between libtinfo.so and libtinfow.so. Both are
linked into cscope:
$ ldd $(which cscope)
/bin/bash: .../lib/libtinfo.so.6: no version information available (required by /bin/bash)
linux-vdso.so.1 (0x00007fff5dbcb000)
libncursesw.so.6 => .../lib/libncursesw.so.6 (0x00007f435cc69000)
libtinfo.so.6 => .../lib/libtinfo.so.6 (0x00007f435cc2c000)
libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f435ca29000)
libtinfow.so.6 => .../lib/libtinfow.so.6 (0x00007f435c9e8000)
/lib64/ld-linux-x86-64.so.2 (0x00007f435cca7000)
Specifically linking libtinfow.so instead of libtinfo.so resolves the
issue.
All instances of '...' above represent the path to the installed ncurses
for Spack.
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Merged develop as requested (as indicated by the last commit below). Could you do the same ?