<commit_before>####################################################################
# 1. Test CADD scores (default)
####################################################################
gemini load -v test.cadd.vcf --skip-gerp-bp test.cadd.db > /dev/null 2>&1

path=`gemini_python ../gemini/anno_info.py`
file="whole_genome_SNVs.tsv.compressed.gz"

if [[ -n $(find $path -name "$file" -maxdepth 1) ]]; then

echo "    cadd.t01...\c"
echo "chrom	start	end	ref	alt	cadd_raw	cadd_scaled
chr1	30859	30860	G	C	-0.92	0.39
chr1	69269	69270	A	G	-1.34	0.03
chr1	69510	69511	A	G	-1.72	0.01
chr1	874815	874816	C	CT	None	None
chr1	879675	879676	G	A	0.56	7.02
chr1	935491	935492	G	T	0.79	8.17
chr1	1334051	1334057	CTAGAG	C	None	None
chr3	60830533	60830534	A	T	0.18	4.98
chr3	60830762	60830763	G	T	-1.65	0.01" > exp

else

echo "    cadd.t01...\c"
echo "chrom	start	end	ref	alt	cadd_raw	cadd_scaled
chr1	30859	30860	G	C	None	None<commit_msg>fix  warning<commit_after>####################################################################
# 1. Test CADD scores (default)
####################################################################
gemini load -v test.cadd.vcf --skip-gerp-bp test.cadd.db > /dev/null 2>&1

path=`gemini_python ../gemini/anno_info.py`
file="whole_genome_SNVs.tsv.compressed.gz"

if [[ -n $(find $path -maxdepth 1 -name "$file") ]]; then

echo "    cadd.t01...\c"
echo "chrom	start	end	ref	alt	cadd_raw	cadd_scaled
chr1	30859	30860	G	C	-0.92	0.39
chr1	69269	69270	A	G	-1.34	0.03
chr1	69510	69511	A	G	-1.72	0.01
chr1	874815	874816	C	CT	None	None
chr1	879675	879676	G	A	0.56	7.02
chr1	935491	935492	G	T	0.79	8.17
chr1	1334051	1334057	CTAGAG	C	None	None
chr3	60830533	60830534	A	T	0.18	4.98
chr3	60830762	60830763	G	T	-1.65	0.01" > exp

else

echo "    cadd.t01...\c"
echo "chrom	start	end	ref	alt	cadd_raw	cadd_scaled
chr1	30859	30860	G	C	None	None
{'fraction_non_alphanumeric': 0.23987034035656402, 'fraction_numerical': 0.19665045921123717, 'mean_word_length': 3.9124668435013263, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 9, 'https://': 0, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '4287945', 'n_tokens_mistral': 1032, 'n_tokens_neox': 825, 'n_words': 236}