b6aee4c6471cddebd638fec8dbb988c29a69bc22 markd Thu Apr 23 21:58:41 2026 -0700 import of GENCODE V50, MV39, and V50lift37; added a command to do import with a single command diff --git src/hg/makeDb/outside/gencode/bin/gencodeBackMapMetadataIds src/hg/makeDb/outside/gencode/bin/gencodeBackMapMetadataIds index b6d7ad052dd..23e50d95a1d 100755 --- src/hg/makeDb/outside/gencode/bin/gencodeBackMapMetadataIds +++ src/hg/makeDb/outside/gencode/bin/gencodeBackMapMetadataIds @@ -1,22 +1,22 @@ #!/usr/bin/env python3 import sys import os myBinDir = os.path.normpath(os.path.dirname(sys.argv[0])) -sys.path.append(os.path.join(myBinDir, "../lib")) -sys.path.append(os.path.expanduser("/hive/groups/browser/pycbio/lib")) +sys.path.insert(0, os.path.join(myBinDir, "../lib")) +sys.path.insert(0, os.path.expanduser("/hive/groups/browser/pycbio/lib")) from collections import defaultdict import argparse from pycbio.sys import fileOps from pycbio.tsv import TsvReader, TabFileReader # Note: # hg19 backmap generates join errors because of this transcript # missing # ENSG00000168939.6 / ENST00000302805.2 / SPRY3 # # This is the case of SPRV3 which has now has a transcript past the PAR. # While addressed in hg38, the state of GENCODE V19 causes issues, # so we added these to the metadata. #