bx.misc package

Submodules

• bx.misc.bgzf module
  • BGZFFile
    • BGZFFile.close()
    • BGZFFile.read()
    • BGZFFile.seek()
    • BGZFFile.tell()
• bx.misc.bgzf_tests module
  • test_bgzf()
• bx.misc.binary_file module
  • BadMagicNumber
  • BinaryFileReader
    • BinaryFileReader.read()
    • BinaryFileReader.read_and_unpack()
    • BinaryFileReader.read_c_string()
    • BinaryFileReader.read_float()
    • BinaryFileReader.read_raw_array()
    • BinaryFileReader.read_uint16()
    • BinaryFileReader.read_uint32()
    • BinaryFileReader.read_uint64()
    • BinaryFileReader.read_uint8()
    • BinaryFileReader.seek()
    • BinaryFileReader.skip()
    • BinaryFileReader.tell()
    • BinaryFileReader.unpack()
  • BinaryFileWriter
    • BinaryFileWriter.pack()
    • BinaryFileWriter.pack_and_write()
    • BinaryFileWriter.seek()
    • BinaryFileWriter.skip()
    • BinaryFileWriter.tell()
    • BinaryFileWriter.write()
    • BinaryFileWriter.write_c_string()
    • BinaryFileWriter.write_raw_array()
    • BinaryFileWriter.write_uint16()
    • BinaryFileWriter.write_uint32()
    • BinaryFileWriter.write_uint64()
    • BinaryFileWriter.write_uint8()
  • bytesify()
• bx.misc.cdb module
  • FileCDBDict
    • FileCDBDict.to_file()
  • cdbhash()
• bx.misc.cdb_tests module
  • test()
• bx.misc.filecache module
  • FileCache
    • FileCache.close()
    • FileCache.fix_dirty()
    • FileCache.get_block_and_offset()
    • FileCache.load_block()
    • FileCache.readline()
    • FileCache.seek()
• bx.misc.filecache_tests module
• bx.misc.readlengths module
  • read_lengths_file()
• bx.misc.seekbzip2 module
  • SeekableBzip2File
    • SeekableBzip2File.close()
    • SeekableBzip2File.fix_dirty()
    • SeekableBzip2File.flush()
    • SeekableBzip2File.get_chunk_and_offset()
    • SeekableBzip2File.init_bz2()
    • SeekableBzip2File.init_table()
    • SeekableBzip2File.read()
    • SeekableBzip2File.readable()
    • SeekableBzip2File.readline()
    • SeekableBzip2File.readlines()
    • SeekableBzip2File.seek()
    • SeekableBzip2File.seekable()
    • SeekableBzip2File.tell()
    • SeekableBzip2File.writable()
    • SeekableBzip2File.xreadlines()
• bx.misc.seekbzip2_tests module
• bx.misc.seeklzop module
  • SeekableLzopFile
    • SeekableLzopFile.close()
    • SeekableLzopFile.fix_dirty()
    • SeekableLzopFile.flush()
    • SeekableLzopFile.get_block_and_offset()
    • SeekableLzopFile.init_table()
    • SeekableLzopFile.load_block()
    • SeekableLzopFile.read()
    • SeekableLzopFile.readable()
    • SeekableLzopFile.readline()
    • SeekableLzopFile.seek()
    • SeekableLzopFile.seekable()
    • SeekableLzopFile.tell()
    • SeekableLzopFile.writable()
  • UnpackWrapper
    • UnpackWrapper.get()
    • UnpackWrapper.read()
• bx.misc.seeklzop_tests module

Module contents

Various utilities.

bx.misc.open_compressed(filename, mode='r')