stuff

A Gentoo ebuild overlay.

eselect repository enable stuff
emerge --sync stuff

Mirrors

Auto-mirrored on every push:

• github.com/istitov/stuff (primary)
• gitlab.com/istitov/stuff
• codeberg.org/istitov/stuff

Highlights

HyperSpy / 4D-STEM electron-microscopy stack

A full HyperSpy ecosystem that is not in ::gentoo:

hyperspy, hyperspyui, hyperspy-gui-traitsui, hyperspy-gui-ipywidgets, rosettasciio, emdfile, ncempy, exspy, atomap, pyxem, py4dstem.

Packaging follows upstream's split into a core (hyperspy) plus GUI backends and per-domain extensions (exspy for EELS/EDS, atomap for atomic-column analysis, pyxem / py4dstem for 4D-STEM, ncempy/emdfile/rosettasciio for I/O).

SANS / SAXS / XAFS analysis

• sci-physics/mantid 6.15.0.3 — SANS reduction and analysis. Installs under /opt/mantid and keeps building against the current ::gentoo by carrying a few local deps (see Qt5 revivals below).
• sci-physics/sasview + dev-python/sasmodels + dev-python/bumps + dev-python/periodictable — SAS modeling and fitting.
• sci-libs/ausaxs + dev-python/pyausaxs — AUSAXS solvent-scattering calculator and its Python bindings.
• sci-physics/xraylarch — XAFS analysis; modern replacement for the discontinued ifeffit.
• sci-physics/demeter — classic Athena/Artemis XAFS GUIs (Perl).

DeaDBeeF plugin collection

Twenty-five media-plugins/deadbeef-* packages, covering audio format support (opus, vgmstream, vfs-rar, archive-reader, bs2b), visualization (spectrogram, musical-spectrum, vu-meter, dr-meter, waveform-seekbar), playback/session control (playback-order, playback-status, headerbar, quick-search, rating, replaygain-control), file browsing (fb, bookmark-manager), desktop integration (gnome, statusnotifier, discord-presence) and output plumbing (jack, pulse2, stereo-widener, copy-info, customizable-toolbar).

Many carry local patches that track upstream API changes in DeaDBeeF core.

Micromagnetism

sci-physics/mumax (GPU finite-difference, Go + CUDA), sci-physics/oommf (Tcl/Tk reference implementation), and sci-physics/vampire (atomistic spin dynamics).

Design choices

Python 2 preservation

::gentoo removed Python 2 support in 2024, but media-gfx/sk1 (a vector illustrator) is py2-only and has no maintained py3 fork. Rather than drop sk1, this overlay keeps it running:

• Locally-vendored eclasses in eclass/: distutils-r1_py2, python-r1_py2, python-any-r1_py2, python-utils-r1_py2. Inheriting one of these is the signal that a package is intentionally pinned to py2.
• py2 forks of core libs under dev-python/*-python2: numpy-python2, certifi-python2, setuptools-python2, setuptools_scm-python2, pycairo-python2. Named distinctly so they can coexist with the py3 versions from ::gentoo.
• py2-only legacy packages kept as-is: pygobject-2.28.6, pygtk-2.24.0, unittest-or-fail.

Expected pkgcheck warnings from this corner (UnderscoreInUseFlag, PythonMismatchedPackageName, RequiredUseDefaults) are suppressed globally in metadata/pkgcheck.conf with a comment explaining why.

Qt5 revivals for mantid

::gentoo finished its Qt5→Qt6 migration for x11-libs/qscintilla and dev-qt/qthelp, but sci-physics/mantid 6.15.0.3 is still a Qt5 consumer upstream. To keep mantid working, this overlay revives two packages from ::gentoo's attic:

• x11-libs/qscintilla-2.14.1-r1 (the last Qt5-compatible slot), with =x11-libs/qscintilla-2.14.1-r2 (Qt6-only) masked in profiles/package.mask.
• dev-qt/qthelp-5.15.18.

These masks will lift once mantid finishes its own Qt6 port upstream.

Other targeted fixes kept in-tree

• sci-libs/hdf 4.2.16 — local bump carrying a gcc 15 build fix.
• x11-libs/gtk+-2.24.33-r99 — gtk+:2 holdover for apps that still need it.
• dev-python/bokeh — 2.4.2 dropped, 3.4.1 and 3.9.0 kept with the deprecated flaky test dep removed.
• dev-python/py4dstem 0.14.18 — carries upstream PR #712 for numpy 2 compatibility.
• dev-python/cupy 13.6.0 — ROCm USE flag dropped; cupy 13's HIP backend is incompatible with ROCm 7.x hipBLAS, cupy 14 dropped ROCm entirely.
• Several media-plugins/deadbeef-* plugins carry patches for DeaDBeeF's modernized C API.

Also here

• XMPP clients — net-im/profanity, net-im/stabber, net-im/xmppconsole, dev-libs/libstrophe.
• Collaborative editing — app-editors/gobby, net-libs/libinfinity, acct-{group,user}/infinote.
• Kernel / low-level — sys-kernel/pf-sources, sys-apps/dkms-gentoo, sys-kernel/kernel-cleaner.
• Visualization — sci-visualization/gwyddion, sci-visualization/gwyddion3.
• Crystallography / atomistic — sci-physics/bgmn, sci-physics/profex, sci-physics/prismatic, sci-libs/nexus, sci-libs/pycifrw.
• SuiteSparse imports — sci-libs/{amd,camd,cholmod,colamd,ccolamd, umfpack,suitesparseconfig}.
• Retro / fun — x11-terms/cool-retro-term, games-roguelike/adom, games-roguelike/dwarftherapist, games-misc/fortune-mod-lorquotes.
• Niche tools — dev-lang/tcc, dev-vcs/fossil, app-office/mytetra, app-misc/tudu, sys-fs/google-drive-ocamlfuse, app-editors/gobby, app-text/pandoc-crossref-bin.
• Masked but kept: net-misc/ipx-utils (IPX removed from Linux in 4.18), app-portage/portopts (upstream dormant since 2014), sci-physics/ifeffit (upstream deleted; successor in xraylarch). Each mask in profiles/package.mask carries a comment explaining why and when it should lift.

Repository layout and conventions

• Thin manifests, masters = gentoo only. Every package depends on ::gentoo being enabled.
• Profiles under profiles/ follow standard PMS layout.
• Patches live in <category>/<package>/files/ and are applied via PATCHES=() or src_prepare().
• Commit messages use subject + body form (72-char subject, blank line, rationale). Single-line messages only for truly trivial edits.
• metadata/pkgcheck.conf documents which checks are suppressed and why (not just that they're suppressed).
• CI runs pkgcheck scan on every PR and push (delta only), plus a full --net scan every three days via scheduled workflow.

Credits

Originally created by @megabaks; see the contributors list for everyone who has contributed since. Thank you.

License

Ebuilds and associated files are distributed under the GNU General Public License v2, matching ::gentoo. Upstream sources retain their own licenses as declared in each ebuild's LICENSE variable.