def testEvalFormatDetail(self):
rodir = self.setupEvalFormat()
options = { 'detail': "full" }
stream = StringIO.StringIO()
ro_eval_minim.format(self.eval_result, options, stream)
outtxt = stream.getvalue()
log.debug("---- Result:\n%s\n----"%(outtxt))
expect = (
[ "Research Object file://%s/:"%rodir
, "Nominally complete for %(purpose)s of resource %(target)s"%(self.eval_result)
# , "Unsatisfied MUST requirements:"
# , "Unsatisfied SHOULD requirements:"
, "Unsatisfied MAY requirements:"
, " No synonym is present"%(self.eval_result['missingMay'][0][0]['querytestrule'])
, "Satisfied requirements:"
, " ChemSpider identifier is present"
, " InChI identifier is present"
, "Research object URI: %(rouri)s"%(self.eval_result)
, "Minimum information URI: %(minimuri)s"%(self.eval_result)
])
stream.seek(0)
for expect_line in expect:
line = stream.readline()
self.assertEquals(line, expect_line+"\n")
return
def evaluate(progname, configbase, options, args):
"""
Evaluate RO
ro evaluate checklist [ -d <dir> ] <minim> <purpose> [ <target> ]"
"""
log.debug("evaluate: progname %s, configbase %s, args %s" %
(progname, configbase, repr(args)))
ro_config = getroconfig(configbase, options)
ro_options = (
{ "rodir": options.rodir or ""
, "function": args[2]
})
log.debug("ro_options: " + repr(ro_options))
ro_ref = ro_root_reference(progname + " annotations", ro_config, None, ro_options['rodir'])
if not ro_ref: return 1
# Evaluate...
if ro_options["function"] == "checklist":
if len(args) not in [5, 6]:
print ("%s evaluate checklist: wrong number of arguments provided" % (progname))
print ("Usage: %s evaluate checklist [ -d <dir> ] [ -a | -l <level> ] <minim> <purpose> [ <target> ]" % (progname))
return 1
levels = ["summary", "must", "should", "may", "full"]
if options.level not in ["summary", "must", "should", "may", "full"]:
print ("%s evaluate checklist: invalid reporting level %s, must be one of %s" %
(progname, options.level, repr(levels)))
return 1
ro_options["minim"] = ((len(args) > 3) and args[3]) or "minim.rdf"
ro_options["purpose"] = ((len(args) > 4) and args[4]) or "create"
ro_options["target"] = ((len(args) > 5) and args[5]) or "."
if options.verbose:
print "ro evaluate %(function)s -d \"%(rodir)s\" %(minim)s %(purpose)s %(target)s" % ro_options
rometa = ro_metadata(ro_config, ro_ref)
(minimgraph, evalresult) = ro_eval_minim.evaluate(rometa,
ro_options["minim"], ro_options["target"], ro_options["purpose"])
if options.verbose:
print "== Evaluation result =="
print json.dumps(evalresult, indent=2)
if options.outformat and options.outformat.upper() in RDFTYPSERIALIZERMAP:
# RDF output
graph = ro_eval_minim.evalResultGraph(minimgraph, evalresult)
graph.serialize(destination=sys.stdout,
format=RDFTYPSERIALIZERMAP[options.outformat.upper()])
else:
ro_eval_minim.format(evalresult,
{ "detail" : "full" if options.all else options.level },
sys.stdout)
# elif ... other functions here
else:
print ("%s evaluate: unrecognized function provided (%s)" % (progname, ro_options["function"]))
print ("Usage:")
print (" %s evaluate checklist [ -d <dir> ] [ -a | -l <level> ] <minim> <purpose> [ <target> ]" % (progname))
return 1
return 0
def testEvalFormatSummary(self):
rodir = self.setupEvalFormat()
options = { 'detail': "summary" }
stream = StringIO.StringIO()
ro_eval_minim.format(self.eval_result, options, stream)
outtxt = stream.getvalue()
expect = (
"Research Object file://%s/:\n"%rodir +
"Nominally complete for %(purpose)s of resource %(target)s\n"%(self.eval_result)
)
self.assertEquals(outtxt, expect)
return
def testEvalFormatDetail(self):
rodir = self.setupEvalFormat()
options = { 'detail': "full" }
stream = StringIO.StringIO()
ro_eval_minim.format(self.eval_result, options, stream)
expect = (
[ "Research Object file://%s/:"%rodir
, "Nominally complete for %(purpose)s of resource %(target)s"%(self.eval_result)
, "Unsatisfied MUST requirements:"
, " Aggregates resource %s"%(self.eval_result['missingMust'][0][0]['datarule']['aggregates'])
, "Unsatisfied SHOULD requirements:"
, " Aggregates resource %s"%(self.eval_result['missingShould'][0][0]['datarule']['aggregates'])
, "Unsatisfied MAY requirements:"
, " Aggregates resource %s"%(self.eval_result['missingMay'][0][0]['datarule']['aggregates'])
, "Research object URI: %(rouri)s"%(self.eval_result)
, "Minimum information URI: %(minimuri)s"%(self.eval_result)
])
stream.seek(0)
for expect_line in expect:
line = stream.readline()
self.assertEquals(line, expect_line+"\n")
return
