def save_NLMSA_downloaders(url, fileFilter=lambda x: x.endswith(".txt.gz"),
resourceStem='Bio.MSA.UCSC.',
fileDocumenter=None, fileNamer=None):
'save NLMSA downloader / builder objects for a set of downloadable textdump files'
if fileDocumenter is None:
fileDocumenter = lambda x: 'NLMSA alignment '+x
if fileNamer is None: # a default resource naming function
fileNamer = lambda x:resourceStem+x[:-3] # remove .gz suffix
from pygr.nlmsa_utils import NLMSABuilder
from pygr.downloader import SourceURL
d = catalog_downloads(url, fileFilter, fileNamer,
fileDocumenter, SourceURL)
for resID,o in d.items():
nlmsa = NLMSABuilder(o)
nlmsa.__doc__ = fileDocumenter(resID)
d[resID[:-4]] = nlmsa # remove .txt suffix
from pygr import worldbase
worldbase.add_resource(d)
worldbase.commit()
return d # just in case the user wants to see what was saved
def save_NLMSA_downloaders(url,
fileFilter=lambda x: x.endswith(".txt.gz"),
resourceStem='Bio.MSA.UCSC.',
fileDocumenter=None,
fileNamer=None):
'''save NLMSA downloader / builder objects for a set
of downloadable textdump files'''
if fileDocumenter is None:
fileDocumenter = lambda x: 'NLMSA alignment ' + x
if fileNamer is None: # a default resource naming function
fileNamer = lambda x: resourceStem + x[:-3] # remove .gz suffix
from pygr.nlmsa_utils import NLMSABuilder
from pygr.downloader import SourceURL
d = catalog_downloads(url, fileFilter, fileNamer, fileDocumenter,
SourceURL)
for resID, o in d.items():
nlmsa = NLMSABuilder(o)
nlmsa.__doc__ = fileDocumenter(resID)
d[resID[:-4]] = nlmsa # remove .txt suffix
from pygr import worldbase
worldbase.add_resource(d)
worldbase.commit()
return d # just in case the user wants to see what was saved
def create_downloadable_resource(url, mdb, name, doc):
dfile = SourceURL(url)
nbuilder = NLMSABuilder(dfile)
nbuilder.__doc__ = doc
mdb.add_resource(name, nbuilder)
mdb.commit()
def create_downloadable_resource(url, mdb, name, doc):
dfile = SourceURL(url)
nbuilder = NLMSABuilder(dfile)
nbuilder.__doc__ = doc
mdb.add_resource(name, nbuilder)
mdb.commit()
