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docs(constraints): point dark matter pipeline pages to `simulationsAnalyze.py` The per-statistic preprocessing scripts (`haloMassFunctionPreProcess.py`, `progenitorMassFunctionPreProcess.pl`, `spinConcentrationPreProcess.pl`) have been consolidated into a single `simulationsAnalyze.py`, so update the wiki references accordingly.
docs: redirect Contributing and Coding-Conventions to the consolidated docs These pages are now maintained in the repository CONTRIBUTING.md and the ReadTheDocs developer guide; replace them with pointers. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
docs: consolidate wiki into the ReadTheDocs documentation Migrate the substantive wiki pages (installation, troubleshooting, tutorials, developer tutorials, dataset specs, physics overviews, analysis tools, python interface) to galacticus.readthedocs.io and replace each with a short pointer to its new ReadTheDocs page. Delete 10 empty 'Coming soon' stub pages. Rewrite the Home landing page and add a ReadTheDocs banner to the sidebar. Repoint the remaining retired-PDF manual links (in the kept Constraints pages) to ReadTheDocs. Kept on the wiki: the Constraints calibration pages (figure-heavy), Reference-Library, Galacticus-Metrics, and Contributing/Coding-Conventions. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
docs: update wiki for GCC 16, Homebrew, and `/` parameter paths Bump recommended GCC from 12 to 16 (and gfortran/gcc relinker suffixes from 11.2 to 16) across the source and MacOS install guides, switch the MacOS instructions from MacPorts to Homebrew, and note the missing GCC 16 bottle workaround. Document the new `/` and `./`/`../` parameter path separators replacing `::`/`.::`/`..::`, and drop the obsolete `analysis-perl` steps from the release guide.
fix: Remove references to obsoleted scripts
fix: Remove patch files
feat: Update install/build/troubleshooting pages for Perl-to-Python port
doc: point users to Dendros for Galacticus output analysis Analysis and visualization functionality previously provided by scripts in the main galacticus repo (analysesPlot.py, MCMC convergence / acceptance-rate / posterior-predictive / projection-pursuit / multivariate-normal / maximum-likelihood scripts, KDE and corner-plot scripts) has been reimplemented in the Dendros package (https://github.com/galacticusorg/dendros, available on PyPI). This commit: * Rewrites Analysis-Tools.md to lead with Dendros. * Adds an "Analyzing the chains" section to the "Constraining Galacticus parameters" tutorial pointing to Dendros for convergence diagnostics, maximum-likelihood extraction, posterior predictive checks, and corner plots. * Adds a brief "Analyzing Galacticus output" section to Home.md.
fix: Switch `caterpillar.org` websiter to WebArchive link as it no longer seems to be accessible
Updated Installation from source on MacOS (markdown)
Updated Installation from source (markdown)
fix: Update `zlib` to 1.3.2
feat: Update installation instructions to `guile-3.0`
feat: Update install instructions for `libmatheval` to refer to `v1.1.13`
Updated Tutorial: Instanteous and Non Instantaneous Recycling (markdown)
Updated Tutorial: Introduction to Galacticus parameter files (markdown)
Updated Troubleshooting: Debugging tree deadlocks (markdown)
The previous version of HDF5 (1.8.10) does not work anymore. We need to use version 1.12.1 instead.
Updated Reference Library (markdown)
Updated _Sidebar (markdown)