Adopt pathogen-repo-guide file structure #14
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First thing I did was copy the pathogen-repo-guide files into the repo
root. Command:
curl -L https://github.com/nextstrain/pathogen-repo-guide/archive/b4001735fa55448f1426ff90cca93c667ca121ce.zip -o repo.zip && tar -xf repo.zip --strip-components=1 && rm repo.zip
Then I moved existing files to phylogenetic/ and split Snakefile into the
separate rules files. Notes:
1. I completely dropped the Fauna download/parse steps as those are
replaced by the ingest workflow.
2. The phylogenetic and nextclade workflows do not work as-is. These
will be addressed by future changes.
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Description of proposed changes
First thing I did was copy the pathogen-repo-guide files into the repo root. Command:
Then I moved existing files to phylogenetic/ and split Snakefile into the separate rules files. Notes:
Related issue(s)
#10
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