diff options
Diffstat (limited to 'reproduce/software/make/python.mk')
| -rw-r--r-- | reproduce/software/make/python.mk | 383 |
1 files changed, 341 insertions, 42 deletions
diff --git a/reproduce/software/make/python.mk b/reproduce/software/make/python.mk index c499996..6153f0a 100644 --- a/reproduce/software/make/python.mk +++ b/reproduce/software/make/python.mk @@ -83,7 +83,11 @@ $(ibidir)/libffi-$(libffi-version): fi echo "Libffi $(libffi-version)" > $@ -$(ibidir)/python-$(python-version): $(ibidir)/libffi-$(libffi-version) +# 2025-05-26 '--with-system-ffi' seems to be obsolete +# TODO: For a recommended list of dependencies, see +# https://github.com/pyenv/pyenv/wiki#suggested-build-environment +$(ibidir)/python-$(python-version): $(ibidir)/libffi-$(libffi-version) \ + $(ibidir)/sqlite-$(sqlite-version) # Download the source. tarball=python-$(python-version).tar.lz @@ -346,12 +350,27 @@ $(ipydir)/astropy-$(astropy-version): \ rm -fv $(idir)/bin/fits{diff,check,header,info,2bitmap} rm -fv $(idir)/bin/{samp_hub,showtable,volint,wcslint} +# Uncomment the 'export' command below only when building from a git +# tarball, e.g. for testing if a bug still occurs: +# export SETUPTOOLS_SCM_PRETEND_VERSION_FOR_ASTROPY=7.2.0.87 + # Do the basic build. $(call pybuild, tar -xf, astropy-$(astropy-version),,, \ GPEP517) cp -pv $(dtexdir)/astropy.tex $(ictdir)/ echo "Astropy $(astropy-version) \citep{astropy2013,astropy2018}" > $@ +$(ipydir)/astropy-healpix-$(astropy-healpix-version): \ + $(ipydir)/extension-helpers-$(extension-helpers-version) \ + $(ipydir)/numpy-$(numpy-version) + tarball=astropy-healpix-$(astropy-healpix-version).tar.lz + $(call import-source, $(astropy-healpix-url), \ + $(astropy-healpix-checksum)) + $(call pybuild, tar -xf, \ + astropy-healpix-$(astropy-healpix-version),,, \ + GPEP517) + echo "Astropy-healpix $(astropy-healpix-version)" > $@ + $(ipydir)/astropy-iers-data-$(astropy-iers-data-version): \ $(ipydir)/setuptools-$(setuptools-version) tarball=astropy-iers-data-$(astropy-iers-data-version).tar.lz @@ -360,7 +379,7 @@ $(ipydir)/astropy-iers-data-$(astropy-iers-data-version): \ $(call pybuild, tar -xf, \ astropy-iers-data-$(astropy-iers-data-version),,, \ GPEP517) - echo "Astropy-Iers-Data $(astropy-iers-data-version)" > $@ + echo "Astropy-IERS-data $(astropy-iers-data-version)" > $@ $(ipydir)/beautifulsoup4-$(beautifulsoup4-version): \ $(ipydir)/soupsieve-$(soupsieve-version) @@ -400,6 +419,13 @@ $(ipydir)/chardet-$(chardet-version): \ $(call pybuild, tar -xf, chardet-$(chardet-version), , \ Chardet $(chardet-version)) +$(ipydir)/colorama-$(colorama-version): \ + $(ipydir)/hatchling-$(hatchling-version) + tarball=colorama-$(colorama-version).tar.lz + $(call import-source, $(colorama-url), $(colorama-checksum)) + $(call pybuild, tar -xf, \ + colorama-$(colorama-version),,, GPEP517) + $(ipydir)/contourpy-$(contourpy-version): \ $(ipydir)/pybind11-$(pybind11-version) \ $(ipydir)/meson-python-$(meson-python-version) @@ -417,6 +443,15 @@ $(ipydir)/corner-$(corner-version): $(ipydir)/matplotlib-$(matplotlib-version) cp $(dtexdir)/corner.tex $(ictdir)/ echo "Corner $(corner-version) \citep{corner}" > $@ +$(ipydir)/cosmodesi-mpytools-$(cosmodesi-mpytools-version): \ + $(ipydir)/numpy-$(numpy-version) \ + $(ipydir)/scipy-$(scipy-version) + tarball=cosmodesi-mpytools-$(cosmodesi-mpytools-version).tar.lz + $(call import-source, $(cosmodesi-mpytools-url), $(cosmodesi-mpytools-checksum)) + $(call pybuild, tar -xf, cosmodesi-mpytools-$(cosmodesi-mpytools-version), , \ + Cosmodesi-mpytools $(cosmodesi-mpytools-version), GPEP517) + echo "Cosmodesi-mpytools $(cosmodesi-mpytools-version)" > $@ + $(ipydir)/cppy-$(cppy-version): \ $(ipydir)/setuptools-scm-$(setuptools-scm-version) tarball=cppy-$(cppy-version).tar.lz @@ -482,6 +517,15 @@ $(ipydir)/entrypoints-$(entrypoints-version): \ $(call pybuild, tar -xf, entrypoints-$(entrypoints-version), , \ EntryPoints $(entrypoints-version)) +$(ipydir)/exceptiongroup-$(exceptiongroup-version): \ + $(ipydir)/setuptools-$(setuptools-version) \ + $(ipydir)/flit-scm-$(flit-scm-version) + tarball=exceptiongroup-$(exceptiongroup-version).tar.lz + $(call import-source, $(exceptiongroup-url), $(exceptiongroup-checksum)) + $(call pybuild, tar -xf, exceptiongroup-$(exceptiongroup-version), , \ + Exceptiongroup $(exceptiongroup-version), GPEP517) + + $(ipydir)/extension-helpers-$(extension-helpers-version): \ $(ipydir)/setuptools-scm-$(setuptools-scm-version) tarball=extension-helpers-$(extension-helpers-version).tar.lz @@ -507,6 +551,16 @@ $(ipydir)/flit-core-$(flit-core-version): \ $(call pybuild, tar -xf, flit-core-$(flit-core-version), , \ Flit-core $(flit-core-version), GPEP517) + +$(ipydir)/flit-scm-$(flit-scm-version): \ + $(ipydir)/flit-core-$(flit-core-version) \ + $(ipydir)/setuptools-scm-$(setuptools-scm-version) + tarball=flit-scm-$(flit-scm-version).tar.lz + $(call import-source, $(flit-scm-url), $(flit-scm-checksum)) + $(call pybuild, tar -xf, flit-scm-$(flit-scm-version), , \ + flit-scm $(flit-scm-version), GPEP517) + + # Although cython is not an obligatory prerequisite of fonttools, we force # it as a prerequisite for reproducibility; otherwise build parallelism may # lead to some builds with and some builds without cython, depending on how @@ -558,6 +612,23 @@ $(ipydir)/gpep517-$(gpep517-version): \ BOOT_GPEP517) echo "gpep517 $(gpep517-version)" > $@ +$(ipydir)/hatchling-$(hatchling-version): \ + $(ipydir)/packaging-$(packaging-version) \ + $(ipydir)/pathspec-$(pathspec-version) \ + $(ipydir)/pluggy-$(pluggy-version) \ + $(ipydir)/trove-classifiers-$(trove-classifiers-version) + tarball=hatchling-$(hatchling-version).tar.lz + $(call import-source, $(hatchling-url), $(hatchling-checksum)) + $(call pybuild, tar -xf, \ + hatchling-$(hatchling-version),,, GPEP517) + +$(ipydir)/hatch-vcs-$(hatch-vcs-version): \ + $(ipydir)/hatchling-$(hatchling-version) + tarball=hatch-vcs-$(hatch-vcs-version).tar.lz + $(call import-source, $(hatch-vcs-url), $(hatch-vcs-checksum)) + $(call pybuild, tar -xf, hatch-vcs-$(hatch-vcs-version), , \ + Hatch-vcs $(hatch-vcs-version), GPEP517) + $(ipydir)/h5py-$(h5py-version): \ $(ipydir)/six-$(six-version) \ $(ibidir)/hdf5-$(hdf5-version) \ @@ -572,15 +643,38 @@ $(ipydir)/h5py-$(h5py-version): \ $(call pybuild, tar -xf, h5py-$(h5py-version), , \ h5py $(h5py-version)) -# 'healpy' is actually installed as part of the HEALPix package. It will be -# installed with its C/C++ libraries if any other Python library is -# requested with HEALPix. So actually calling for 'healpix' (when 'healpix' -# is requested) is not necessary. But some users might not know about this -# and just ask for 'healpy'. To avoid confusion in such cases, we'll just -# set 'healpy' to be dependent on 'healpix' and not download any tarball -# for it, or write anything in the final target. -$(ipydir)/healpy-$(healpy-version): $(ibidir)/healpix-$(healpix-version) - touch $@ +# As of 2025-05-20, there are at least three python healpix packages at +# pypi.org, with versions: +# +# https://pypi.org/project/healpy 1.18.1 +# https://pypi.org/project/healpix 2024.2 +# https://pypi.org/project/astropy-healpix 1.1.2 +# +# Maneage provides both 'healpy' and 'astropy-healpix', independently. We +# ignore pypix 'healpix', whose name risks confusion with the C/C++/fortran +# version of healpix. +# +# For simplicity and error tracing, you should best install either healpy +# or astropy-healpix, not both. For example, astropy_healpix/healpy.py has +# an interface to provide 'healpy' type function names. However, it may be +# possible to use both if your python imports avoid namespace clashes. See +# the documentation and source code of the respective packages to study how +# they relate to one another. +# +# The 'healpy' package requires the C/C++ 'healpix' package to be built +# in order to use the shared 'libsharp' library. +$(ipydir)/healpy-$(healpy-version): \ + $(ibidir)/healpix-$(healpix-version) \ + $(ipydir)/matplotlib-$(matplotlib-version) \ + $(ipydir)/scipy-$(scipy-version) + tarball=healpy-$(healpy-version).tar.lz + $(call import-source, $(healpy-url), \ + $(healpy-checksum)) + $(call pybuild, tar -xf, \ + healpy-$(healpy-version),,, \ + GPEP517) + echo "Healpy $(healpy-version)" > $@ + $(ipydir)/html5lib-$(html5lib-version): \ $(ipydir)/six-$(six-version) \ @@ -612,6 +706,13 @@ $(ipydir)/jinja2-$(jinja2-version): $(ipydir)/markupsafe-$(markupsafe-version) $(call pybuild, tar -xf, jinja2-$(jinja2-version), , \ Jinja2 $(jinja2-version)) +$(ipydir)/joblib-$(joblib-version): \ + $(ipydir)/setuptools-$(setuptools-version) + tarball=joblib-$(joblib-version).tar.lz + $(call import-source, $(joblib-url), $(joblib-checksum)) + $(call pybuild, tar -xf, \ + joblib-$(joblib-version),,, GPEP517) + $(ipydir)/keyring-$(keyring-version): \ $(ipydir)/entrypoints-$(entrypoints-version) \ $(ipydir)/secretstorage-$(secretstorage-version) \ @@ -631,6 +732,48 @@ $(ipydir)/kiwisolver-$(kiwisolver-version): \ cp -pv $(dtexdir)/kiwisolver.tex $(ictdir)/ echo "Kiwisolver $(kiwisolver-version) \citep{cassowary2001}" > $@ +# 2025-05-21: As of Feb 2025, it appears the lscsoft group is not maintaining +# python-ligo-lw and ligo-segments; the LIGO Computing Group forked these +# to igwn-ligolw and igwn-segments, respectively [1]. +# [1] https://github.com/ahnitz/ligo-segments/issues/1 +$(ipydir)/igwn-segments-$(igwn-segments-version): \ + $(ipydir)/setuptools-$(setuptools-version) + tarball=igwn-segments-$(igwn-segments-version).tar.lz + $(call import-source, $(igwn-segments-url), $(igwn-segments-checksum)) + $(call pybuild, tar -xf, \ + igwn-segments-$(igwn-segments-version),, \ + Igwn-segments $(igwn-segments-version), GPEP517) + + +$(ipydir)/iniconfig-$(iniconfig-version): \ + $(ipydir)/hatch-vcs-$(hatch-vcs-version) + tarball=iniconfig-$(iniconfig-version).tar.lz + $(call import-source, $(iniconfig-url), $(iniconfig-checksum)) + $(call pybuild, tar -xf, iniconfig-$(iniconfig-version), , \ + Iniconfig $(iniconfig-version), GPEP517) + +# Upstream this is called ligo.skymap with a full stop '.'; we replace it +# by a hyphen '-' to reduce the chance of regex errors. +# +# 2025-05-19 Warning: this might have some undetected dependencies. +$(ipydir)/ligo-skymap-$(ligo-skymap-version): \ + $(ibidir)/gsl-$(gsl-version) \ + $(ipydir)/tqdm-$(tqdm-version) \ + $(ibidir)/sqlite-$(sqlite3-version) \ + $(ipydir)/astropy-$(astropy-version) \ + $(ipydir)/lalsuite-$(lalsuite-version) \ + $(ipydir)/igwn-ligolw-$(igwn-ligolw-version) \ + $(ipydir)/igwn-segments-$(igwn-segments-version) \ + $(ipydir)/astropy-healpix-$(astropy-healpix-version) + tarball=ligo-skymap-$(ligo-skymap-version).tar.lz + $(call import-source, $(ligo-skymap-url), \ + $(ligo-skymap-checksum)) + $(call pybuild, tar -xf, \ + ligo-skymap-$(ligo-skymap-version),,, \ + GPEP517) + echo "ligo-skymap $(ligo-skymap-version)" > $@ + + $(ipydir)/lmfit-$(lmfit-version): \ $(ipydir)/six-$(six-version) \ $(ipydir)/scipy-$(scipy-version) \ @@ -644,6 +787,14 @@ $(ipydir)/lmfit-$(lmfit-version): \ $(call pybuild, tar -xf, lmfit-$(lmfit-version), , \ LMFIT $(lmfit-version)) +$(ipydir)/lscsoft-glue-$(lscsoft-glue-version): \ + $(ipydir)/gpep517-$(gpep517-version) \ + $(ipydir)/python-installer-$(python-installer-version) + tarball=lscsoft-glue-$(lscsoft-glue-version).tar.lz + $(call import-source, $(lscsoft-glue-url), $(lscsoft-glue-checksum)) + $(call pybuild, tar -xf, \ + lscsoft-glue-$(lscsoft-glue-version),,, GPEP517) + $(ipydir)/lsstdesccoord-$(lsstdesccoord-version): \ $(ipydir)/cffi-$(cffi-version) \ $(ipydir)/numpy-$(numpy-version) \ @@ -661,11 +812,19 @@ $(ipydir)/markupsafe-$(markupsafe-version): \ $(call pybuild, tar -xf, markupsafe-$(markupsafe-version), , \ MarkupSafe $(markupsafe-version)) +# As of 2026-04-19: Matplotlib needs internet to download and build its +# custom versions of 'freetype' and 'qhull'. The proposed option to 'python +# -m pip instsall' in [1] for using system libraries was tested, but did +# not work in this setup (our 'pybuild' uses 'python -m gpep517 +# install-from-source', not 'pip'). +# +# [1] https://matplotlib.org/stable/install/dependencies.html $(ipydir)/matplotlib-$(matplotlib-version): \ $(itidir)/texlive \ $(ipydir)/numpy-$(numpy-version) \ $(ipydir)/cycler-$(cycler-version) \ $(ipydir)/pillow-$(pillow-version) \ + $(ibidir)/freetype-$(freetype-version) \ $(ipydir)/fonttools-$(fonttools-version) \ $(ipydir)/contourpy-$(contourpy-version) \ $(ipydir)/kiwisolver-$(kiwisolver-version) \ @@ -706,12 +865,11 @@ $(ipydir)/meson-python-$(meson-python-version): \ echo "Meson-Python $(meson-python-version)" > $@ $(ipydir)/mpi4py-$(mpi4py-version): \ - $(ipydir)/gpep517-$(gpep517-version) \ $(ibidir)/openmpi-$(openmpi-version) \ - $(ipydir)/python-installer-$(python-installer-version) + $(ipydir)/cython-$(cython-version) tarball=mpi4py-$(mpi4py-version).tar.lz $(call import-source, $(mpi4py-url), $(mpi4py-checksum)) - $(call pybuild, tar -xf, mpi4py-$(mpi4py-version)) + $(call pybuild, tar -xf, mpi4py-$(mpi4py-version),,, GPEP517) cp $(dtexdir)/mpi4py.tex $(ictdir)/ echo "mpi4py $(mpi4py-version) \citep{mpi4py2011}" > $@ @@ -723,8 +881,17 @@ $(ipydir)/mpmath-$(mpmath-version): \ $(call pybuild, tar -xf, mpmath-$(mpmath-version), , \ mpmath $(mpmath-version)) -# Until 2025-02-22: we had 'export CFLAGS="--std=c99 $$CFLAGS"' before -# calling pybuild; but that doesn't seem to be necessary. +$(ipydir)/networkx-$(networkx-version): \ + $(ipydir)/setuptools-$(setuptools-version) + tarball=networkx-$(networkx-version).tar.lz + $(call import-source, $(networkx-url), $(networkx-checksum)) + $(call pybuild, tar -xf, \ + networkx-$(networkx-version),,, \ + GPEP517) + echo "networkx $(networkx-version)" > $@ + +# Numpy's MacOS builds using Xcode prior to 26.3 needed the following flags +# added to 'LDFLAGS': '-undefined dynamic_lookup -bundle'. $(ipydir)/numpy-$(numpy-version): \ $(ipydir)/cython-$(cython-version) \ $(ibidir)/openblas-$(openblas-version) \ @@ -732,9 +899,6 @@ $(ipydir)/numpy-$(numpy-version): \ $(ipydir)/meson-python-$(meson-python-version) tarball=numpy-$(numpy-version).tar.lz $(call import-source, $(numpy-url), $(numpy-checksum)) - if [ x$(on_mac_os) = xyes ]; then - export LDFLAGS="$(LDFLAGS) -undefined dynamic_lookup -bundle" - fi conf="$$(pwd)/reproduce/software/config/numpy-scipy.cfg" $(call pybuild, tar -xf, numpy-$(numpy-version),$$conf, \ Numpy $(numpy-version), GPEP517) @@ -748,6 +912,23 @@ $(ipydir)/packaging-$(packaging-version): \ $(call pybuild, tar -xf, packaging-$(packaging-version), , \ Packaging $(packaging-version), GPEP517) +$(ipydir)/pandas-$(pandas-version): \ + $(ipydir)/numpy-$(numpy-version) \ + $(ipydir)/versioneer-$(versioneer-version) \ + $(ipydir)/pytz-$(pytz-version) + tarball=pandas-$(pandas-version).tar.lz + $(call import-source, $(pandas-url), $(pandas-checksum)) + $(call pybuild, tar -xf, pandas-$(pandas-version), , \ + Pandas $(pandas-version), GPEP517) + echo "pandas $(pandas-version)" > $@ + +$(ipydir)/pathspec-$(pathspec-version): \ + $(ipydir)/setuptools-$(setuptools-version) + tarball=pathspec-$(pathspec-version).tar.lz + $(call import-source, $(pathspec-url), $(pathspec-checksum)) + $(call pybuild, tar -xf, \ + pathspec-$(pathspec-version),,, GPEP517) + $(ipydir)/pexpect-$(pexpect-version): \ $(ipydir)/gpep517-$(gpep517-version) \ $(ipydir)/python-installer-$(python-installer-version) @@ -773,6 +954,13 @@ $(ipydir)/pillow-$(pillow-version): $(ibidir)/libjpeg-$(libjpeg-version) \ # $(call pybuild, tar -xf, pip-$(pip-version), , \ # PiP $(pip-version)) +$(ipydir)/pluggy-$(pluggy-version): \ + $(ipydir)/setuptools-$(setuptools-version) + tarball=pluggy-$(pluggy-version).tar.lz + $(call import-source, $(pluggy-url), $(pluggy-checksum)) + $(call pybuild, tar -xf, \ + pluggy-$(pluggy-version),,, GPEP517) + $(ipydir)/ply-$(ply-version): \ $(ipydir)/gpep517-$(gpep517-version) \ $(ipydir)/python-installer-$(python-installer-version) @@ -828,6 +1016,13 @@ $(ipydir)/pyflakes-$(pyflakes-version): \ $(call pybuild, tar -xf, pyflakes-$(pyflakes-version), , \ pyflakes $(pyflakes-version)) +$(ipydir)/pygments-$(pygments-version): \ + $(ipydir)/hatchling-$(hatchling-version) + tarball=pygments-$(pygments-version).tar.lz + $(call import-source, $(pygments-url), $(pygments-checksum)) + $(call pybuild, tar -xf, pygments-$(pygments-version), , \ + Pygments $(pygments-version), GPEP517) + $(ipydir)/pyparsing-$(pyparsing-version): \ $(ipydir)/gpep517-$(gpep517-version) \ $(ipydir)/flit-core-$(flit-core-version) \ @@ -854,8 +1049,26 @@ $(ipydir)/pyproject-metadata-$(pyproject-metadata-version): \ $(call pybuild, tar -xf, \ pyproject-metadata-$(pyproject-metadata-version),,, GPEP517) + +$(ipydir)/pytest-$(pytest-version): \ + $(ipydir)/setuptools-scm-$(setuptools-scm-version) \ + $(ipydir)/colorama-$(colorama-version) \ + $(ipydir)/exceptiongroup-$(exceptiongroup-version) \ + $(ipydir)/iniconfig-$(iniconfig-version) \ + $(ipydir)/packaging-$(packaging-version) \ + $(ipydir)/pluggy-$(pluggy-version) \ + $(ipydir)/pygments-$(pygments-version) + tarball=pytest-$(pytest-version).tar.lz + $(call import-source, $(pytest-url), $(pytest-checksum)) + $(call pybuild, tar -xf, \ + pytest-$(pytest-version),,, \ + GPEP517) + echo "pytest $(pytest-version)" > $@ + + $(ipydir)/python-dateutil-$(python-dateutil-version): \ - $(ipydir)/setuptools-scm-$(setuptools-scm-version) + $(ipydir)/setuptools-scm-$(setuptools-scm-version) \ + $(ipydir)/six-$(six-version) tarball=python-dateutil-$(python-dateutil-version).tar.lz $(call import-source, $(python-dateutil-url), $(python-dateutil-checksum)) $(call pybuild, tar -xf, python-dateutil-$(python-dateutil-version), , \ @@ -885,6 +1098,37 @@ $(ipydir)/python-installer-$(python-installer-version): \ BOOT_INSTALLER) echo "Python-installer $(python-installer-version)" > $@ +# 2025-05-21: As of Feb 2025, it appears the lscsoft group is not maintaining +# python-ligo-lw and ligo-segments; the LIGO Computing Group forked these +# to igwn-ligolw and igwn-segments, respectively [1]. +# [1] https://github.com/ahnitz/ligo-segments/issues/1 +$(ipydir)/igwn-ligolw-$(igwn-ligolw-version): \ + $(ipydir)/setuptools-scm-$(setuptools-scm-version) + tarball=igwn-ligolw-$(igwn-ligolw-version).tar.lz + $(call import-source, $(igwn-ligolw-url), \ + $(igwn-ligolw-checksum)) + $(call pybuild, tar -xf, \ + igwn-ligolw-$(igwn-ligolw-version),,, \ + GPEP517) + echo "igwn-ligolw $(igwn-ligolw-version)" > $@ + +$(ipydir)/pyfftw-$(pyfftw-version): $(ipydir)/numpy-$(numpy-version) \ + $(ibidir)/fftw-$(fftw-version) + tarball=pyfftw-$(pyfftw-version).tar.lz + $(call import-source, $(pyfftw-url), $(pyfftw-checksum)) + $(call pybuild, tar -xf, pyfftw-$(pyfftw-version), , \ + Pyfftw $(pyfftw-version), GPEP517) + + +# Called 'fitsio' in pypi.org: https://pypi.org/project/fitsio +$(ipydir)/python3-fitsio-$(python3-fitsio-version): \ + $(ibidir)/patch-$(patch-version) \ + $(ipydir)/numpy-$(numpy-version) + tarball=python3-fitsio-$(python3-fitsio-version).tar.lz + $(call import-source, $(python3-fitsio-url), $(python3-fitsio-checksum)) + $(call pybuild, tar -xf, python3-fitsio-$(python3-fitsio-version), , \ + Python3 Fitsio $(python3-fitsio-version), GPEP517) + $(ipydir)/pythran-$(pythran-version): \ $(ipydir)/ply-$(ply-version) \ $(ipydir)/gast-$(gast-version) \ @@ -904,6 +1148,13 @@ $(ipydir)/pyyaml-$(pyyaml-version): \ $(call pybuild, tar -xf, pyyaml-$(pyyaml-version), , \ PyYAML $(pyyaml-version), GPEP517) +$(ipydir)/pytz-$(pytz-version): \ + $(ipydir)/setuptools-$(setuptools-version) + tarball=pytz-$(pytz-version).tar.lz + $(call import-source, $(pytz-url), $(pytz-checksum)) + $(call pybuild, tar -xf, pytz-$(pytz-version), , \ + Pytz $(pytz-version), GPEP517) + $(ipydir)/requests-$(requests-version): $(ipydir)/idna-$(idna-version) \ $(ipydir)/numpy-$(numpy-version) \ $(ipydir)/certifi-$(certifi-version) \ @@ -914,41 +1165,39 @@ $(ipydir)/requests-$(requests-version): $(ipydir)/idna-$(idna-version) \ $(call pybuild, tar -xf, requests-$(requests-version), , \ Requests $(requests-version)) -# 'pythran' is disabled in the build of Scipy because of complications it -# caused on some systems. We explicitly disable it using a preprocessor -# directive. 'Pythran' can in principle speed up compilation of scientific -# software [1][2]. +# Scipy building notes: +# +# 1. 'pythran' is disabled in the build of Scipy because of complications +# it caused on some systems. 'Pythran' can in principle speed up +# compilation of scientific software [1][2]. We explicitly disable it by +# modifying the source. Technically it should also be possible to pass +# the following option to the gpep517 build recipes with correct +# escaping of single and double quotes, but this has not tried as of +# 2025-02-25. +# --config-json='{"setup-args":"-Duse-pythran=false"}' +# +# 2. Scipy's MacOS builds using Xcode prior to 26.3 needed the following +# flags added to 'LDFLAGS': '-undefined dynamic_lookup -bundle'. +# # [1] https://pythran.readthedocs.io/en/latest -# [2] https://docs.scipy.org/doc/scipy-1.15.2/dev/roadmap-detailed.html +# [2] https://docs.scipy.org/doc/scipy-1.15.2/dev/roadmap-detailed.html#use-of-pythran $(ipydir)/scipy-$(scipy-version): \ $(ipydir)/numpy-$(numpy-version) \ $(ipydir)/pybind11-$(pybind11-version) + +# Import the tarball. tarball=scipy-$(scipy-version).tar.lz $(call import-source, $(scipy-url), $(scipy-checksum)) - if [ x$(on_mac_os) = xyes ]; then - export LDFLAGS="$(LDFLAGS) -undefined dynamic_lookup -bundle" - else -# Same question as for 'numpy': why '-shared'? This obstructs -# the meson build. -# export LDFLAGS="$(LDFLAGS) -shared" - : - fi - conf="$$(pwd)/reproduce/software/config/numpy-scipy.cfg" -# Disable pythran: see -# https://docs.scipy.org/doc/scipy-1.15.2/dev/roadmap-detailed.html#use-of-pythran -# export SCIPY_USE_PYTHRAN=0 # deprecated(?) -# Option 1: Hack the source: +# Disable pythran (see above). pyhook_before() { mv -iv meson.options meson.options.orig; \ sed -e 's/\(use-pythran.*value: *\)true/\1false/' \ meson.options.orig > meson.options } -# Option 2: pass the string -# --config-json='{"setup-args": "-Duse-pythran=false"}' -# to gpep517 with correct escaping of single and double quotes. -# Not tried as of 2025-02-25. +# Build Scipy. + conf="$$(pwd)/reproduce/software/config/numpy-scipy.cfg" $(call pybuild, tar -xf, scipy-$(scipy-version),$$conf,, GPEP517) cp $(dtexdir)/scipy.tex $(ictdir)/ echo "Scipy $(scipy-version) \citep{scipy2020}" > $@ @@ -1003,6 +1252,26 @@ $(ipydir)/sip_tpv-$(sip_tpv-version): \ cp $(dtexdir)/sip_tpv.tex $(ictdir)/ echo "sip_tpv $(sip_tpv-version) \citep{sip-tpv}" > $@ +$(ipydir)/scikit-base-$(scikit-base-version): \ + $(ipydir)/gpep517-$(gpep517-version) \ + $(ipydir)/python-installer-$(python-installer-version) + tarball=scikit-base-$(scikit-base-version).tar.lz + $(call import-source, $(scikit-base-url), $(scikit-base-checksum)) + $(call pybuild, tar -xf, scikit-base-$(scikit-base-version), , \ + Scikit-base $(scikit-base-version), GPEP517) + echo "scikit-base $(scikit-base-version)" > $@ + +$(ipydir)/scikit-learn-$(scikit-learn-version): \ + $(ipydir)/joblib-$(joblib-version) \ + $(ipydir)/threadpoolctl-$(threadpoolctl-version) \ + $(ipydir)/numpy-$(numpy-version) \ + $(ipydir)/scipy-$(scipy-version) + tarball=scikit-learn-$(scikit-learn-version).tar.lz + $(call import-source, $(scikit-learn-url), $(scikit-learn-checksum)) + $(call pybuild, tar -xf, scikit-learn-$(scikit-learn-version), , \ + Scikit-learn $(scikit-learn-version), GPEP517) + echo "scikit-learn $(scikit-learn-version)" > $@ + $(ipydir)/six-$(six-version): \ $(ipydir)/setuptools-$(setuptools-version) tarball=six-$(six-version).tar.lz @@ -1026,6 +1295,29 @@ $(ipydir)/sympy-$(sympy-version): $(ipydir)/mpmath-$(mpmath-version) cp $(dtexdir)/sympy.tex $(ictdir)/ echo "SymPy $(sympy-version) \citep{sympy}" > $@ +$(ipydir)/threadpoolctl-$(threadpoolctl-version): \ + $(ipydir)/flit-core-$(flit-core-version) + tarball=threadpoolctl-$(threadpoolctl-version).tar.lz + $(call import-source, $(threadpoolctl-url), $(threadpoolctl-checksum)) + $(call pybuild, tar -xf, threadpoolctl-$(threadpoolctl-version), , \ + threadpoolctl $(threadpoolctl-version), GPEP517) + echo "threadpoolctl $(threadpoolctl-version)" > $@ + +$(ipydir)/tqdm-$(tqdm-version): \ + $(ipydir)/setuptools-scm-$(setuptools-scm-version) + tarball=tqdm-$(tqdm-version).tar.lz + $(call import-source, $(tqdm-url), $(tqdm-checksum)) + $(call pybuild, tar -xf, \ + tqdm-$(tqdm-version),, \ + Tqdm $(tqdm-version), GPEP517) + +$(ipydir)/trove-classifiers-$(trove-classifiers-version): \ + $(ipydir)/setuptools-$(setuptools-version) + tarball=trove-classifiers-$(trove-classifiers-version).tar.lz + $(call import-source, $(trove-classifiers-url), $(trove-classifiers-checksum)) + $(call pybuild, tar -xf, \ + trove-classifiers-$(trove-classifiers-version),,, GPEP517) + $(ipydir)/uncertainties-$(uncertainties-version): $(ipydir)/numpy-$(numpy-version) tarball=uncertainties-$(uncertainties-version).tar.lz $(call import-source, $(uncertainties-url), $(uncertainties-checksum)) @@ -1040,6 +1332,13 @@ $(ipydir)/urllib3-$(urllib3-version): \ $(call pybuild, tar -xf, urllib3-$(urllib3-version), , \ Urllib3 $(urllib3-version)) +$(ipydir)/versioneer-$(versioneer-version): \ + $(ipydir)/setuptools-$(setuptools-version) + tarball=versioneer-$(versioneer-version).tar.lz + $(call import-source, $(versioneer-url), $(versioneer-checksum)) + $(call pybuild, tar -xf, versioneer-$(versioneer-version), , \ + Versioneer $(versioneer-version), GPEP517) + $(ipydir)/webencodings-$(webencodings-version): \ $(ipydir)/setuptools-$(setuptools-version) \ $(ipydir)/setuptools-scm-$(setuptools-scm-version) |