CovertLab / vEcoli

Whole cell model of E. coli implemented with Vivarium
https://covertlab.github.io/vEcoli/
MIT License
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Option to skip baseline variant sim_data #239

Closed thalassemia closed 1 month ago

thalassemia commented 1 month ago

This is most useful when running many batches of simulations using the same variant function. In these cases, the baseline lineage(s) will always lead to the same simulation outputs (wasted computation).

github-actions[bot] commented 1 month ago
Package Line Rate Complexity Health
. 31% 0
analysis 100% 0
analysis.antibiotics_colony 11% 0
analysis.antibiotics_colony.subgen_gene_plots 20% 0
analysis.causality_network 18% 0
analysis.colony 11% 0
analysis.multidaughter 100% 0
analysis.multiexperiment 100% 0
analysis.multigeneration 23% 0
analysis.multiseed 17% 0
analysis.multivariant 17% 0
analysis.single 15% 0
composites 34% 0
composites.ecoli_configs 90% 0
composites.environment 26% 0
debug 17% 0
ecoli 9% 0
ecoli.compendium 18% 0
ecoli.dataclasses 31% 0
ecoli.dataclasses.process 22% 0
ecoli.dataclasses.state 32% 0
ecoli.scripts 43% 0
ecoli.scripts.fold_changes 15% 0
ecoli.scripts.metabolism_kinetics 36% 0
ecoli.scripts.metabolite_concentrations 26% 0
ecoli.scripts.nca 10% 0
ecoli.scripts.protein_half_lives 29% 0
ecoli.scripts.rna_half_lives 21% 0
experiments 36% 0
io 52% 0
library 48% 0
library.cell_wall 14% 0
processes 43% 0
processes.antibiotics 27% 0
processes.chemotaxis 14% 0
processes.environment 29% 0
processes.listeners 78% 0
processes.membrane 27% 0
processes.spatiality 19% 0
processes.stubs 45% 0
tests 22% 0
tests.io 24% 0
tests.utils 25% 0
utils 28% 0
utils._netflow 45% 0
variants 36% 0
Summary 28% (8430 / 29920) 0