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2024-04-18cellranger: new manual download package @7.1.0 (#38486)George Young1-0/+38
* cellranger: new manual download package @7.1.0 * cellranger: updating to @7.2.0 * updating website * Adding license url --------- Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2024-04-18xeniumranger: new manual download package @1.7.1 (#42389)George Young1-0/+38
* xeniumranger: new manual download package @1.7.1 * Adding license url --------- Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2024-04-18New package: editorconfig (#43670)James Taliaferro1-0/+22
* New package: editorconfig * remove FIXMEs * add description for editorconfig
2024-04-18CI: remove MXNet (#43704)Adam J. Stewart6-15/+0
2024-04-18gxsview: compiles against system qt and vtk on rhel8 (#43722)Olivier Cessenat1-5/+21
* gxsview: compiles againts system qt and vtk on rhel8 * Update gxsview/package.py for blanks around operator * Update gxsview/package.py import blank line * Update gxsview/package.py for style * Update gxsview/package.py checking vtk version
2024-04-18ML CI: remove extra xgboost (#43709)Adam J. Stewart4-8/+0
2024-04-18Twitter->X: Reflect the name (only) change (#43690)Tamara Dahlgren2-3/+3
2024-04-18Make sure variable is None if exception is raised. (#43707)Kyle Knoepfel1-0/+1
2024-04-18update py-python-fmask to version 0.5.9 (#43698)Sam Gillingham1-0/+3
* update py-python-fmask to version 0.5.9 * add gillins and neilflood as maintainers * remove spaces * remove blank line * put maintainers higher
2024-04-18Associate condition sets from cli to root node (#43710)Massimiliano Culpo2-3/+42
This PR prevents a condition_set from having nodes that are not associated with the corresponding root node through some (transitive) dependencies.
2024-04-18asp.py: do not copyHarmen Stoppels1-21/+38
2024-04-18spec.py: early return in __str__Harmen Stoppels1-0/+5
2024-04-17cvise package: add version 2.10.0 and ncurses constraint (#43319)Mikael Simberg1-1/+8
2024-04-17mkl interface (#43673)Rocco Meli1-1/+5
2024-04-17Added e4s-cl@1.0.3 (#43693)FrederickDeny1-0/+1
2024-04-17xrootd: new version 5.6.9 (#43684)Wouter Deconinck1-1/+10
2024-04-17xerces-c: new version 3.2.5 (#43687)Wouter Deconinck1-0/+1
2024-04-17assimp: new version 5.4.0 (#43689)Wouter Deconinck1-0/+4
2024-04-17package/npm update (#43692)Sinan1-0/+7
* package/npm update * add conflicts to exclude certain version intervals --------- Co-authored-by: sbulut <sbulut@3vgeomatics.com>
2024-04-17py-shapely: add v2.0.4 (#43702)Adam J. Stewart1-1/+3
2024-04-17py-sphinx: add v7.3 (#43703)Adam J. Stewart2-47/+61
2024-04-17[Score-P] Make local with-or-without not use "yes" (#43701)Bill Williams1-0/+3
Score-P does not accept "--with-foo=yes", but only "--with-foo" or "--with-foo=some-valid-specific-choice-or-path". This keeps Spack from generating config flags that will cause Score-P to barf.
2024-04-17Improve `spack find` output in environments (#42334)Todd Gamblin4-40/+68
This adds some improvements to `spack find` output when in environments based around some thoughts about what users want to know when they're in an env. If you're working in an enviroment, you mostly care about: * What are the roots * Which ones are installed / not installed * What's been added that still needs to be concretized So, this PR adds a couple tweaks to display that information more clearly: - [x] We now display install status next to every root. You can easily see which are installed and which aren't. - [x] When you run `spack find -l` in an env, the roots now show their concrete hash (if they've been concretized). They previously would show `-------` (b/c the root spec itself is abstract), but showing the concretized root's hash is a lot more useful. - [x] Newly added/unconcretized specs still show `-------`, which now makes more sense, b/c they are not concretized. - [x] There is a new option, `-r` / `--only-roots` to *only* show env roots if you don't want to look at all the installed specs. - [x] Roots in the installed spec list are now highlighted as bold. This is actually an old feature from the first env implementation , but various refactors had disabled it inadvertently.
2024-04-17py-pyparsing: new version 3.1.2 (#43579)Wouter Deconinck1-0/+3
2024-04-16Python package: fix install of static libs on Windows (#43564)James Smillie1-1/+2
2024-04-16intel-oneapi-dnn-2024.1.0: add DNN package version (#43679)Andrey Perestoronin1-0/+6
* add onednn package * fix style * Update var/spack/repos/builtin/packages/intel-oneapi-dnn/package.py Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com> --------- Co-authored-by: Robert Cohn <rscohn2@gmail.com> Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2024-04-16Windows filesystem utilities (bugfix): improve SFN usage (#43645)John W. Parent2-3/+41
Reduce incidence of spurious errors by: * Ensuring we're passing the buffer by reference * Get the correct short string size from Windows API instead of computing ourselves * Ensure sufficient space for null terminator character Add test for `windows_sfn`
2024-04-16Run after_script aggregator with spack python (#43669)kwryankrattiger1-1/+1
2024-04-16acts: new version 34.0.0 (#43680)Wouter Deconinck1-0/+1
2024-04-16(py-)onnx: new version 1.16.0 (#43675)Wouter Deconinck3-0/+4
2024-04-16zstd: 1.5.6 does not build on Windows (#43677)John W. Parent1-0/+2
Conflict until a fix has been merged upstream
2024-04-16podio: +rntuple requires root +root7 (#43672)Wouter Deconinck1-1/+1
2024-04-16py-bluepyopt: 1.14.11 (#43678)Erik Heeren1-1/+3
2024-04-16pythia8: new version 8.311 (#43667)Wouter Deconinck1-0/+1
2024-04-16jwt-cpp: new version 0.7.0, scitokens-cpp: new versions to 1.1.1 (#43657)Wouter Deconinck2-0/+7
* jwt-cpp: new version 0.7.0, depends_on nlohmann-json * scitokens-cpp: new versions to 1.1.1 * scitokens-cpp: conflicts ^jwt-cpp@0.7: when @:1.1
2024-04-16concretize.lp: fix issue with reuse of conditional variants (#43676)Harmen Stoppels2-6/+18
Currently if you request pkg +example where example is a conditional variant, and you have a pkg in the database for which the condition did not hold (so no +example nor ~example), the solver would reuse it regardless, not imposing +example. The change rules out exactly one thing: variant_set without variant_value, which in practice could only happen when not node_has_variant (i.e. when under the current package.py rules the variant's when condition did not trigger).
2024-04-16wayland: +doc requires graphviz +expat for HTML tables (#43668)Wouter Deconinck1-1/+1
2024-04-16arborx: add v1.6 (#43623)Andrey Prokopenko1-7/+8
2024-04-16gromacs: prevent version conflict after enabling plumed (#43449)Maciej Wójcik1-2/+7
2024-04-16py-black: switch maintainer (#43652)Adam J. Stewart1-2/+1
2024-04-15Damaris: add v1.10.0 (#43664)Josh Bowden1-0/+1
Co-authored-by: Joshua Bowden <joshua-chales.bowden@inria.fr>
2024-04-15octave: add 8.4.0 and 9.1.0 (#43518)Michael Kuhn1-0/+2
2024-04-15[py-pybedtools] added version 0.10.0 (#43625)Jen Herting1-0/+1
2024-04-15crtm: add noaa versions and package mods (#43635)eugeneswalker1-0/+20
* crtm: add noaa versions and package mods * crtm@v2.4.1-jedi: add missing depends_on netcdf-fortran, ecbuild from jcsda spack fork
2024-04-15Add ollama package (#43655)Teague Sterling1-0/+54
* Added package to build Ollama * Update package.py Add license and documentation * [@spackbot] updating style on behalf of teaguesterling
2024-04-15py-morphio: add version 3.3.7, update license (#43420)Tristan Carel1-1/+5
2024-04-15hdf: %oneapi: -Wno-error=implicit-function-declaration (#43631)eugeneswalker1-1/+5
* hdf: %oneapi: -Wno-error=implicit-function-declaration * [@spackbot] updating style on behalf of eugeneswalker
2024-04-15GDAL: fix MDB build (#43665)Adam J. Stewart1-0/+1
2024-04-15glew: remove a few unused options (#43399)Juan Miguel Carceller1-3/+0
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2024-04-15iq-tree: add v2.3.1 (#43442)snehring1-0/+3