Merge pull request #169 from AlexandrovLab/i161_pt2

Add ReferenceGenomeManager that: 1. Downloads reference genomes from UCSD or Sanger ftp server (ftplib or curl) 2. Prints all reference genomes available 3. Prints md5 file check for a reference genome
AlexandrovLab · Jan 10, 2024 · 8cdab46 · 8cdab46
2 parents e84a5ed + 84425f5
commit 8cdab46
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diff --git a/MANIFEST.in b/MANIFEST.in
@@ -5,10 +5,6 @@ include README.md
 recursive-include SigProfilerMatrixGenerator/references/CNV *
 recursive-include SigProfilerMatrixGenerator/references/SV *
 
-# VCF Files
-include SigProfilerMatrixGenerator/references/vcf_files/*_bench/input/*.vcf
-include SigProfilerMatrixGenerator/references/vcf_files/BRCA_example/SNV/*.txt
-
 # Transcripts
 recursive-include SigProfilerMatrixGenerator/references/chromosomes/exome *
 recursive-include SigProfilerMatrixGenerator/references/chromosomes/transcripts *