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2021-09-06gtk-doc: Fix the testsuite (hangs if gtkdocize was not installed) (#25717)bernhardkaindl1-0/+17
Ensure that testsuite has py-anytree and py-parameterized and finds gtk-doc's gitdocize. Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2021-09-06perl: fix regressions in the end-of-life revisions (#25801)bernhardkaindl1-1/+13
- perl@:5.24.1 needs zlib@:1.2.8 - shown by more than a dozen tests https://rt.cpan.org/Public/Bug/Display.html?id=120134 - perl@:5.26.2 needs gdbm@:1.14.1 - shown by the test suite https://rt-archive.perl.org/perl5/Ticket/Display.html?id=133295 - Fix the test case cpan/Time-Local/t/Local.t to use 4-digit years http://blogs.perl.org/users/tom_wyant/2020/01/my-y2020-bug.html
2021-09-06libunistring: apply upstream fix for test suite (#25691)bernhardkaindl1-0/+20
Simple case of pragma weak not working with --as-needed https://bugs.gentoo.org/688464 https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=925746 Added possiblity to build from git master(new version master)
2021-09-06gxsview: new package, an MCNP viewer (#25637)Olivier Cessenat1-0/+46
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2021-09-06mesa: add v21.2.1 (#25715)Billae1-0/+1
2021-09-06uftrace: add new package (#25710)bernhardkaindl1-0/+71
2021-09-06ccache 4.4 errors for old gcc/clang (#25783)Harmen Stoppels1-0/+4
2021-09-06WarpX/HiPACE/openPMD-api: Use when(...) (#25789)Axel Huebl3-39/+50
Use the new with `when()` syntax for variant dependencies.
2021-09-06elfutils: address external linkage failures in 0.185 (#25769)QuellynSnead1-0/+5
2021-09-06Do not allow cray build system patch for later version of otf2 (#25283)lukebroskop1-6/+7
Co-authored-by: Luke Roskop <lroskop@cedar.head.cm.us.cray.com> Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2021-09-06Ginkgo: add v1.4.0 (#25606)Terry Cojean2-8/+104
* Add a patch to skip unavailable smoke tests.
2021-09-06deal.II: Bump minimum required version for Ginkgo package (#25795)Jean-Paul Pelteret1-0/+1
2021-09-06gzip: add v1.11 (#25797)Michael Kuhn1-0/+1
2021-09-06gdbm: add v1.21 (#25798)Michael Kuhn1-0/+1
2021-09-06fpm: new package (#25799)Sebastian Ehlert1-0/+56
2021-09-06py-pyqt5: don't install files into qt5 install prefix (#25657)Jordan Galby1-0/+5
By default, py-pyqt5 installs qt designer and qml plugins into qt5's install `<prefix>/plugins`. Don't do that.
2021-09-05boost @1.76: set toolset for intel b2 invocation (#25722)Peter Scheibel1-1/+7
and simplify constraint and add explanatory comment
2021-09-03New package: py-anytree (#25718)bernhardkaindl1-0/+18
It is required for running all tests of gtk-doc.
2021-09-03HiOp package: update magma dependency (#25721)Asher Mancinelli1-1/+2
2021-09-03m4: fix glitch in the test suite (#25702)bernhardkaindl1-0/+12
2021-09-03New package: getOrganelle@1.7.5.0 (#25725)Desmond Orton1-0/+33
2021-09-03SLEPc package: add gpu variants (#25760)Jose E. Roman1-1/+3
2021-09-03apcomp package: add versions 0.0.3 and 0.0.2 (#25767)Cyrus Harrison1-0/+2
2021-09-03RELION package: add versions 3.1.3 and 3.1.2 (#25772)pmargara1-0/+2
2021-09-03Mathematica package: add version 12.2.0 (#25791)Paul Spencer1-0/+3
2021-09-03rocblas: use AMDGPU_TARGETS instead of Tensile_ARCHITECTURE (#25778)Harmen Stoppels1-4/+8
2021-09-03update version for rocm-4.3.1 release (#25766)Sreenivasa Murthy Kolam43-70/+108
2021-09-03openssh: add v8.7 (#25774)bernhardkaindl1-1/+2
2021-09-03amrex: 21.09 (#25739)Weiqun Zhang1-0/+1
2021-09-03py-ansi2html: new package (#25741)Desmond Orton1-0/+20
2021-09-03py-cryolobm: add new package (#25748)Desmond Orton1-0/+21
2021-09-03py-lineenhancer: add new package (#25743)Desmond Orton1-0/+22
2021-09-03py-terminaltables: add new package (#25738)Desmond Orton1-0/+22
2021-09-03WarpX: 21.09 (#25771)Axel Huebl2-1/+4
Add the latest WarpX release.
2021-09-03libensemble: add tasmanian as optional dependency (#25762)Stephen Hudson1-0/+2
2021-09-03py-gooey: new package (#25763)Desmond Orton1-0/+25
2021-09-03py-colorclass: add new package (#25747)Desmond Orton1-0/+19
2021-09-03py-mrcfile: add new package (#25742)Desmond Orton1-0/+22
2021-09-03py-pathtools: add new package (#25749)Desmond Orton1-0/+19
2021-09-03silo: add build dependency on m4 (#25770)Olivier Cessenat1-0/+1
2021-09-02Correct typo in r-assertive-data-uk (#25754)jacorvar1-1/+1
`r-assertive-base` version contains a dot instead of a hyphen.
2021-09-02mfem: Update stand-alone test to use test stage directory (#25744)Tamara Dahlgren1-14/+33
2021-09-02py-submitit: add new package (#25699)Gianluca Ficarelli1-0/+21
2021-09-02gromacs: add v2021.3 (#25750)Gilles Gouaillardet1-0/+1
2021-09-02start of work to add spack audit packages-https checker (#25670)Vanessasaurus609-610/+610
This PR will add a new audit, specifically for spack package homepage urls (and eventually other kinds I suspect) to see if there is an http address that can be changed to https. Usage is as follows: ```bash $ spack audit packages-https <package> ``` And in list view: ```bash $ spack audit list generic: Generic checks relying on global variables configs: Sanity checks on compilers.yaml Sanity checks on packages.yaml packages: Sanity checks on specs used in directives packages-https: Sanity checks on https checks of package urls, etc. ``` I think it would be unwise to include with packages, because when run for all, since we do requests it takes a long time. I also like the idea of more well scoped checks - likely there will be other addresses for http/https within a package that we eventually check. For now, there are two error cases - one is when an https url is tried but there is some SSL error (or other error that means we cannot update to https): ```bash $ spack audit packages-https zoltan PKG-HTTPS-DIRECTIVES: 1 issue found 1. Error with attempting https for "zoltan": <urlopen error [SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: Hostname mismatch, certificate is not valid for 'www.cs.sandia.gov'. (_ssl.c:1125)> ``` This is either not fixable, or could be fixed with a change to the url or (better) contacting the site owners to ask about some certificate or similar. The second case is when there is an http that needs to be https, which is a huge issue now, but hopefully not after this spack PR. ```bash $ spack audit packages-https xman Package "xman" uses http but has a valid https endpoint. ``` And then when a package is fixed: ```bash $ spack audit packages-https zlib PKG-HTTPS-DIRECTIVES: 0 issues found. ``` And that's mostly it. :) Signed-off-by: vsoch <vsoch@users.noreply.github.com> Co-authored-by: vsoch <vsoch@users.noreply.github.com>
2021-09-01py-adios: add new version (#25746)Cody Balos1-1/+2
2021-09-01Bump nlohman-json and fix cmake args (#25504)Harmen Stoppels1-21/+18
* Bump nlohman-json and fix cmake args * Rename variant
2021-09-01Update versions for RAJA, CHAI, Umpire and camp (#25528)David Beckingsale4-46/+97
2021-09-01py-jupyterhub: add version: 1.4.1 (#24890)eugeneswalker2-11/+42
* py-jupyterhub: add version: 1.4.1 * dont need mako for latest release * sort dependencies * notebook isnt used for 1.4.1+ * add dependency on py-jupyter-telemetry; create new package py-jupyter-telemetry * py-jupyter-telemetry: declare missing dependencies * py-jupyterhub: need more specific depends_on before less specific * add py-json-logger; py-jupyter-telemetry: add depends_on for py-json-logger * Update var/spack/repos/builtin/packages/py-jupyter-telemetry/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * remove py-json-logger erroneously and duplicatively added * Update var/spack/repos/builtin/packages/py-jupyterhub/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * need py-alembic@1.4: for newest py-jupyterhub Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2021-09-01bugfix: R packages can be concretized together with clingo again (#25730)Harmen Stoppels1-1/+1
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