<commit_before># steps:

- split_fasta_into_individual_bins makes individual bins
	- calls ag to pull out the names from Fauzi's bins at data/genome_bins.fasta
		- saves results as DNA_names.txt
	- runs summarise_bins.py to convert those names to file names
		- also writes bin_summary.csv 
- mummer_all_bins runs mummer on all bins (using envoy) 
	- runs compare_two_bins.sh
- coords_to_csv takes a mummer3 .coords file and parses it to the relevant .tsv
<commit_msg>noted files were moved to support_files dir<commit_after># steps:

- split_fasta_into_individual_bins makes individual bins
	- calls ag to pull out the names from Fauzi's bins at data/genome_bins.fasta
		- saves results as DNA_names.txt (in support_files dir)
	- runs summarise_bins.py (in support_files dir) to convert those names to file names
		- also writes bin_summary.csv (to support_files dir)
- mummer_all_bins runs mummer on all bins (using envoy) 
	- runs compare_two_bins.sh
- coords_to_csv takes a mummer3 .coords file and parses it to the relevant .tsv

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{'dir': 'git-commits-cleaned', 'id': '3064213', 'n_tokens_mistral': 358, 'n_tokens_neox': 327, 'n_words': 129}