mhctools/parsing.py
def split_stdout_lines(stdout):
    """
    Given the standard output from NetMHC/NetMHCpan/NetMHCcons tools,
    drop all {comments, lines of hyphens, empty lines} and split the
    remaining lines by whitespace.
    """
    # all the NetMHC formats use lines full of dashes before any actual
    # binding results
    seen_dash = False
    for l in stdout.split("\n"):
        l = l.strip()
        # wait for a line like '----------' before trying to parse entries
        # have to include multiple dashes here since NetMHC 4.0 sometimes
        # gives negative positions in its "peptide" input mode
        if l.startswith("---"):
            seen_dash = True
            continue
        if not seen_dash:
            continue
        # ignore empty lines and comments
        if not l or l.startswith("#"):
            continue
        # beginning of headers in NetMHC
        if any(l.startswith(word) for word in NETMHC_TOKENS):
            continue
        yield l.split()
def split_stdout_lines(stdout):
    """
    Given the standard output from NetMHC/NetMHCpan/NetMHCcons tools,
    drop all {comments, lines of hyphens, empty lines} and split the
    remaining lines by whitespace.
    """
    # all the NetMHC formats use lines full of dashes before any actual
    # binding results
    seen_dash = False
    for l in stdout.split("\n"):
        l = l.strip()
        # wait for a line like '----------' before trying to parse entries
        # have to include multiple dashes here since NetMHC 4.0 sometimes
        # gives negative positions in its "peptide" input mode
        if l.startswith("---"):
            seen_dash = True
            continue
        if not seen_dash:
            continue
        # ignore empty lines and comments
        if not l or l.startswith("#"):
            continue
        # beginning of headers in NetMHC
        if any(l.startswith(word) for word in NETMHC_TOKENS):
            continue
        yield l.split()
def split_stdout_lines ( stdout ) : # all the NetMHC formats use lines full of dashes before any actual # binding results seen_dash = False for l in stdout . split ( "\n" ) : l = l . strip ( ) # wait for a line like '----------' before trying to parse entries # have to include multiple dashes here since NetMHC 4.0 sometimes # gives negative positions in its "peptide" input mode if l . startswith ( "---" ) : seen_dash = True continue if not seen_dash : continue # ignore empty lines and comments if not l or l . startswith ( "#" ) : continue # beginning of headers in NetMHC if any ( l . startswith ( word ) for word in NETMHC_TOKENS ) : continue yield l . split ( )
Given the standard output from NetMHC/NetMHCpan/NetMHCcons tools,
    drop all {comments, lines of hyphens, empty lines} and split the
    remaining lines by whitespace.
Given the standard output from NetMHC / NetMHCpan / NetMHCcons tools drop all { comments lines of hyphens empty lines } and split the remaining lines by whitespace .