comparison get_data/kegg_glycan/linkKEGG.py @ 1:0a5e0df17054 draft default tip

Uploaded

0:89592faa2875

__author__ = 'cbarnett'
__license__ = "MIT"
__version = "0.3"
# http://www.kegg.jp/kegg/rest/keggapi.html


def linked_entries_from_kegg(targetdb="glycan", sourcedb="pathway"):
    """

    :return: string  of linked entries
    """
    import urllib2

    uri = 'http://rest.kegg.jp/link/'
    fulluri = uri + targetdb + "/" + sourcedb
    try:
        response = urllib2.urlopen(fulluri).read()
    except Exception as e:
        raise urllib2.HTTPError(e.url, e.code, e.msg, e.hdrs, e.fp)

1:0a5e0df17054

__author__ = 'cbarnett'
__license__ = "MIT"
__version = "0.3.1"
# http://www.kegg.jp/kegg/rest/keggapi.html


def linked_entries_from_kegg(targetdb="glycan", sourcedb="pathway"):
    """

    :return: string  of linked entries
    """
    import urllib2

    uri = 'http://rest.kegg.jp/link/'

    import re
    p = re.compile(' *\+ *') # ensure no unneccessary space in an AND query
    sdbfix = p.subn('+', sourcedb)
    sourcedb=sdbfix[0]

    if ' ' in sourcedb:
        sourcedb = sourcedb.replace(' ', '%20')  # previous behaviour was ignoring text after a space, rather convert to '%20' and pass on to KEGG REST service

    fulluri = uri + targetdb + "/" + sourcedb
    try:
        response = urllib2.urlopen(fulluri).read()
    except Exception as e:
        raise urllib2.HTTPError(e.url, e.code, e.msg, e.hdrs, e.fp)