46bdaa51aa44a800eda5961cd2a9ff3c3c700869
jnavarr5
  Wed Dec 3 10:11:00 2025 -0800
Fixing a typo from code review, refs #36786

diff --git src/hg/utils/otto/clinvar/clinVarToBed src/hg/utils/otto/clinvar/clinVarToBed
index 8463933a900..afaba972c6d 100755
--- src/hg/utils/otto/clinvar/clinVarToBed
+++ src/hg/utils/otto/clinvar/clinVarToBed
@@ -643,39 +643,39 @@
 
     # get the summary file
     summUrl = baseUrl+"submission_summary.txt.gz"
     summFname = join(downDir, "submission_summary.txt.gz")
 
     # get the new VCF file
     vcfUrl = "https://ftp.ncbi.nlm.nih.gov/pub/clinvar/vcf_GRCh38/clinvar.vcf.gz"
     vcfFname = join(downDir, "GRCh38.clinvar.vcf.gz")
 
     versionFname = join(downDir, "version.txt")
 
     if doDownload:
         logging.info("Creating %s" % versionFname)
         open(versionFname, "w").write(clinvarVersion)
 
-        logging.info("Downlading %s to %s" % (vcfUrl, vcfFname))
+        logging.info("Downloading %s to %s" % (vcfUrl, vcfFname))
         open(vcfFname, "wb").write(urllib.request.urlopen(vcfUrl).read())
-        logging.info("Downlading %s to %s" % (url, outFname))
+        logging.info("Downloading %s to %s" % (url, outFname))
         open(outFname, "wb").write(urllib.request.urlopen(url).read())
-        logging.info("Downlading %s to %s" % (hgvsUrl, hgvsFname))
+        logging.info("Downloading %s to %s" % (hgvsUrl, hgvsFname))
         open(hgvsFname, "wb").write(urllib.request.urlopen(hgvsUrl).read())
-        logging.info("Downlading %s to %s" % (varUrl, varFname))
+        logging.info("Downloading %s to %s" % (varUrl, varFname))
         open(varFname, "wb").write(urllib.request.urlopen(varUrl).read())
-        logging.info("Downlading %s to %s" % (summUrl, summFname))
+        logging.info("Downloading %s to %s" % (summUrl, summFname))
         open(summFname, "wb").write(urllib.request.urlopen(summUrl).read())
 
     return filename, varFname, hgvsFname, vcfFname, summFname, versionFname
 
 def parseVcf(vcfFname):
     " parse VCF and return as dict alleleId -> (molConseq) "
     logging.info("Parsing %s" % vcfFname)
     ret = {}
     for line in gzip.open(vcfFname, "rt", encoding="utf_8"):
         # #CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO
         #1       930248  789256  G       A       .       .       ALLELEID=707587;CLNDISDB=MedGen:CN517202;CLNDN=not_provided;CLNHGVS=
         if line.startswith("#"):
             continue
         chrom, start, end, ref, alt, qual, filter, info = line.rstrip("\n").split("\t")
         infoParts = info.split(";")