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  • v0.5.1
    9f0127fd · Unpack using '**' ·
    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
    
  • v0.5.0
    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.
    
  • v0.4.1
    v0.4.1
    
    bugfixes in the filter engine
    
  • v0.4.0
    bc7d1cd0 · [feature] filters ·
    v0.4.0 - more general
    
    Feature:
    
    - configurable filters to remove problematic mutations from the table
    - supports runing LolliPop on other generic type of timeseries,
      not necessarily single point mutations
    
    Bugfix:
    
    - ruamel >= 0.15
    
  • v0.3.0
    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
    
  • v0.3.0rc0
    d0763205 · Images for documentation ·
    Test pre-release
  • v0.2.0
  • v0.1.0