<jupyter_start><jupyter_text>```jupyter nbconvert 4_make_annot_ldscore.ipynb --to script && python 4_make_annot_ldscore.py 64 bppython 4_make_annot_ldscore.py bp 300```<jupyter_code>if scale!=0:
    for chrN in range(1,22+1):
        save_annot_chr_cm(mode+str(scale),chrN,scale=scale,mode=mode)
if scale==0:
    estimate_ldscore_parallel('uni','univariate')
else:
    estimate_ldscore_parallel(mode+str(scale),'annot')<jupyter_output>ldsc.py --l2 --bfile data/1000G_plink_EUR/EUR_phase3_chr1 --ld-wind-cm 1 --out data/out_annot_/uni.1 --print-snps data/hapmap3_snps/hm.1.snp
ldsc.py --l2 --bfile data/1000G_plink_EUR/EUR_phase3_chr22 --ld-wind-cm 1 --out data/out_annot_/uni.22 --print-snps data/hapmap3_snps/hm.22.snp
ldsc.py --l2 --bfile data/1000G_plink_EUR/EUR_phase3_chr2 --ld-wind-cm 1 --out data/out_annot_/uni.2 --print-snps data/hapmap3_snps/hm.2.snp
ldsc.py --l2 --bfile data/1000G_plink_EUR/EUR_phase3_chr3 --ld-wind-cm 1 --out data/out_annot_/uni.3 --print-snps data/hapmap3_snps/hm.3.snp
ldsc.py --l2 --bfile data/1000G_plink_EUR/EUR_phase3_chr4 --ld-wind-cm 1 --out data/out_annot_/uni.4 --print-snps data/hapmap3_snps/hm.4.snp
ldsc.py --l2 --bfile data/1000G_plink_EUR/EUR_phase3_chr5 --ld-wind-cm 1 --out data/out_annot_/uni.5 --print-snps data/hapmap3_snps/hm.5.snp
ldsc.py --l2 --bfile data/1000G_plink_EUR/EUR_phase3_chr6 --ld-wind-cm 1 --out data/out_annot_/uni.6 --print-snps data/hapmap3_snps/hm.6.snp
ldsc.py --[...]
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{'chain_length': '1', 'dir': 'jupyter-structured-clean-dedup', 'id': '329455', 'license': 'MIT', 'n_tokens_mistral': 715, 'n_tokens_neox': 669, 'n_words': 93, 'path': '4_make_annot_ldscore.ipynb', 'repo_name': 'ch6845/regional_heritability_analysis', 'size': '1440'}