More updates to radmeth#284

Merged

andrewdavidsmith merged 7 commits intomasterfrom

more-radmeth-updates

Aug 11, 2025

Commits on Aug 11, 2025

src/radmeth/radmeth_model.hpp: holding the max_r_count to avoid recomputing it and changed thename of log1p_fact_v as this cache will be used for multiple things
andrewdavidsmith
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src/radmeth/radmeth.cpp: added code to time the run
andrewdavidsmith
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src/radmeth/radmeth_optimize.cpp: doing caching for values used in the derivative wrt the dispersion parameter
andrewdavidsmith
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src/radmeth/radmeth_model.cpp: updating the default parameters for step size to 0.01 and for tolerance to 1e-4
andrewdavidsmith
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src/radmeth/radmeth_model.hpp: replaced the chrom, position, strand and context with just rowname. The parsing will replace colon with tab, allowing colons to separate fields, but still allowing ro…
andrewdavidsmith
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src/radmeth/radmeth_model.cpp: parsing initial part of rowname as just one field 'rowname' but with parts separated by colons converted to tabs in the output; previous behavior retained but rowname…
andrewdavidsmith
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src/radmeth/radmeth.cpp: printing the rowname for each site as just a string which it now is
andrewdavidsmith
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