Small suggestions - #29

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corneliusroemer wants to merge 23 commits into

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Commits on May 5, 2025

fix: remove .snakemake dir from clean
corneliusroemer
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77ecf62
Add default snakemake profile for ergonomics
corneliusroemer
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0da48e0
Add basic "running the workflow" to README
corneliusroemer
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ba93a59
Fix precommit exclude
corneliusroemer
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9585334
precommit fixes
corneliusroemer
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d9c8599
snakemake ergonomics
corneliusroemer
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82b0263
nextclade readme edit
corneliusroemer
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f3a7772
Remove .snakemake dir from clean
corneliusroemer
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29a9cc0
force `rm -rf` is a typo away from bad things, maybe unnecessary as well?
corneliusroemer
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72a1eb9
E712 has false positives for pandas so let's just disable
corneliusroemer
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3fc85d0
Fix Nextclade tree title, add extra (free) metadata to coloring
corneliusroemer
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14ecd2b
Print export output, helpful for debugging
corneliusroemer
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3d0e98f
fix forgotten trailing \
corneliusroemer
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9dbb8ac
Systematic logging to logfile and stdout
corneliusroemer
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495d298
don't clean .snakemake with snakemake
corneliusroemer
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acf9166
add default profile
corneliusroemer
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f16bedc
fix missing trailing \
corneliusroemer
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c8d3527
Add sample sequences to nextclade defaults to make the dataset properly testable
corneliusroemer
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51611fe
Add how to test the nextclade dataset
corneliusroemer
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6e61385
Try different clade E1 tsv
corneliusroemer
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6264414

Commits on May 6, 2025

General phylogenetic improvements
corneliusroemer
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337ebee
Clades tweaks
corneliusroemer
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846bcf0
Fix precommit
corneliusroemer
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ff3f4b4