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v0.5.19f0127fd · ·
Version v0.5.1 - Parallel tweaks Tweaks/Bugfixes: - limit (BLAS') sub-threads spwaned by each parallel process (we rely on parallel process per location, not BLAS' multithreading) - optioni `--pb` to disable progress bars when running parallel and/or turn off tqdm tweaks for Mac OS
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v0.5.03c5a732f · ·
Version v0.5.0 - Parallel processing New features: - support processing multiple location in parallel (--n-cores) - support other input than tally of SVN mutation, e.g., use tables produced by COJAC. - option to specify a column to use as 'names' for the entries in tally table. By default, if 'pos' and 'base' exist a column 'mutations' will be created and used as name. Bootstraping needs such names for the entries. Results altering change: - The random seed initialisation has changed since 0.4.x Results between this version v0.5.0 and v0.4.x aren't bit-perfect Seed is re-initialised per locataion so parallel and sequencial runs are identical. Each location gets a different seed.
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v0.3.03e57e5e2 · ·
Version 0.3.0 - Converted to a proper python package with poetry and click - Command format has changed and uses subcommands - Integrated into V-pipe - Outputs JSON for dashboard uploads - Tools for generating input to deconvolution (tallymut) - nodate mode (for benchmarks w/o timeline) - Presets and examples - Automatic test (does first/fastest curve from preprint) - Partial support for aarch64 - Optionnal BCBio still missing on bioconda Bugfixes: - half-height curves if a variant in the var_date interval and one not being considered are very close to each other, there is a risk that bootstraping will attribute only half to the variant and half to "undetermined" Publication: - Notebook graphs can now be replicated from command line
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