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/gencodePolyaGxfToGenePred src/hg/makeDb/outside/gencode/bin/gencodePolyaGxfToGenePred index 8e925df9f3a..0715b3a72d0 100755 --- src/hg/makeDb/outside/gencode/bin/gencodePolyaGxfToGenePred +++ src/hg/makeDb/outside/gencode/bin/gencodePolyaGxfToGenePred @@ -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")) import argparse from pycbio.sys import fileOps from gencode import gencodeGxfParserFactory import pipettor from gencode.gencodeProcess import GencodeLiftOver, getEditIdCmd # This currently produces an extended genePred due to historic reasons, however # bed would be more appropriate. def parseArgs(): desc = """%prog [options] polyAGxf ensemblToUcscChain outGp Create a genePred for the GENCODE polyAGxf. """ parser = argparse.ArgumentParser(description=desc)