1.6beta2 checkin, report fixed, irods partial audit patch, sample python code as well

git-svn-id: https://subversion.umiacs.umd.edu/ace/trunk@66 f1b3a171-7291-4a19-a512-95ad0ad9394a

INSTALL

@@ -21,7 +21,7 @@ In this file you should find the following:
     use aceam;
     source ace-am.sql;
 
------
+----- Example -----
 Welcome to the MySQL monitor.  Commands end with ; or \g.
 Your MySQL connection id is 2 to server version: 4.1.20
 

ace-cli/acestore.py

+#!/usr/local/stow/python-2.7.1/bin/python
+#
+# ACE Token store tool
+#
+import hashlib
+import binascii
+import string
+import getopt
+import sys
+import time
+from urlparse import urlparse
+from suds.client import Client
+from suds.sax.date import DateTime
+
+class TokenStore:
+    """Ace Token Store"""
+    
+    def __init__(self,infile,trimid=0):
+        self.entries = {}
+        self.roundlist = {}
+        while 1:
+            header = readHeader(infile)
+            if not header:
+                break
+            albName = header[0]
+            identifiers = readIdentifiers(infile)
+            proof = readProof(infile)
+            entry = TokenStoreEntry(proof,header)
+            for id in identifiers:
+                self.entries[id[trimid:]] = entry
+
+    def get_round(self,round):
+        if round not in self.roundlist:
+            url='http://ims.umiacs.umd.edu:8080/ace-ims/IMSWebService?wsdl'
+            client = Client(url)
+            response = client.service.getRoundSummaries(round)
+            for resp in response:
+                self.roundlist[resp.id] = resp.hashValue;
+        return self.roundlist[round]
+
+    def validate(self,file,identifier):
+        if identifier not in self.entries:
+            return None
+        token = self.entries[identifier]
+        roundhash = self.get_round(token.round)
+        prevhash = digestFile(file)
+        for proofLine in token.proof:
+            prevhash = calculateLevel(prevhash,proofLine,token.algorithm)
+        if (binascii.b2a_hex(prevhash) != roundhash):
+            return False
+        else:
+            return True
+        
+        
+class TokenStoreEntry:
+    """Token Store Entry"""
+    def __init__(self,proof,headerparts):
+        self.proof = proof
+        self.algorithm,self.server,self.service,self.round,self.date,self.length = headerparts
+        self.round = int(self.round)
+
+   
+def createTokens(digestlist,outfile,wsdl='http://ims.umiacs.umd.edu:8080/ace-ims/IMSWebService?wsdl'):
+    print 'start_create ' + str(time.time())
+    urlparts = urlparse(wsdl)
+    client = Client(wsdl)
+    requestlist = []
+    for digestpair in digestlist:
+        request = client.factory.create('tokenRequest')
+        request.hashValue = digestpair[1]
+        request.name = digestpair[0]
+        requestlist.append(request)
+    #request._tokenClassName = "SHA-256-0"
+    print 'before call' + str(time.time())
+    response = client.service.requestTokensImmediate('SHA-256-0',requestlist)
+    #response = portType.requestTokensImmediate(request)
+    print 'after call ' + str(time.time())
+    for item in response:
+        lines = [item.name,'']
+        for proofelement in item.proofElements:
+            proofelement.hashes.insert(proofelement.index,'X')
+            lines.append( ":".join(proofelement.hashes))
+        lines.append('')
+        lines.append('')
+        result = '\n'.join(lines)
+        outfile.write(item.digestService + ' ' + urlparts.hostname + ' ' + item.tokenClassName + ' ' + str(item.roundId) + ' ' +DateTime(item.timestamp).__unicode__()+ ' ' + str(len(result)) + "\n")
+        outfile.write(result)
+    print 'return ' + str(time.time())
+
+
+def getAlgorithm(algName):
+    if (algName == "SHA-256"):
+       return hashlib.sha256()
+    elif (algName == "SHA-512"):
+       return hashlib.sha512()
+    elif (algName == "SHA-384"):
+       return hashlib.sha384()
+    elif (algName == "MD5"):
+       return hashlib.md5()
+    elif (algName == "SHA1"):
+       return hashlib.sha1()
+    return None
+
+def calculateLevel(lowerHash,rowString, algName):
+    """Calculate a level given a token store string, and the hash and index
+    of the previously calculated level's (or file) hash"""
+    hashAlg = getAlgorithm(algName)
+    for hash in string.split(rowString,":"):
+        if (hash == "X"):
+            hashAlg.update(lowerHash)
+        else:
+            hashAlg.update(binascii.a2b_hex(hash))
+    return hashAlg.digest()
+
+def readHeader(file):
+    currLine = file.readline()
+    if not currLine:
+        return False
+    headerParts = string.split(currLine)
+    if (len(headerParts) != 6):
+        print "Bad header: " + currLine
+        return False
+    return headerParts
+
+def readIdentifiers(infile):
+    line = infile.readline().rstrip("\n")
+    ids = []
+    while line != "":
+        ids.append(line)        
+        line = infile.readline().rstrip("\n")
+    return ids
+
+def readProof(infile):
+    line = infile.readline().rstrip("\n")
+    proof = []
+    while line != "":
+        proof.append(line)        
+        line = infile.readline().rstrip("\n")
+    return proof
+
+def digestFile(file,alg="SHA-256"):
+    hashAlg = getAlgorithm(alg)
+    with open(file,'rb') as digFile:
+        bytes_read = digFile.read(1024*1024)
+        while bytes_read:
+            hashAlg.update(bytes_read)
+            bytes_read = digFile.read(1024*1024)
+    digFile.close()
+    fileDigest = hashAlg.digest()
+    return fileDigest 
+

ace-cli/createstore.py

+#!/usr/bin/python
+#
+#
+#
+import acestore
+import os
+import sys
+import binascii
+import argparse
+
+class TrollSettings:
+    outfile = sys.stdout
+    requestlist = []
+
+def processDir(settings,directory,files):
+    for f in files:
+        fullPath = os.path.join(directory,f)
+        if os.path.isfile(fullPath):
+            settings.requestlist.append((fullPath,binascii.b2a_hex(acestore.digestFile(fullPath))))
+        if len(settings.requestlist) > 1000:
+           acestore.createTokens(settings.requestlist,settings.outfile)
+           del(settings.requestlist[:])
+
+
+def main():
+    parser = argparse.ArgumentParser(description='Validate Files using a token store.')
+    parser.add_argument('files',nargs='+',help='Files or directories to scan');
+    parser.add_argument('-v','--verbose',action='store_true')
+    parser.add_argument('-r','--recurse',action='store_true',help='recurse into any listed directories')
+    parser.add_argument('-f','--file',nargs='?', type=argparse.FileType('w'), default=sys.stdout,help='File to write token store into, default std out')        
+    parser.add_argument('-d','--digest',nargs='?',default='SHA-256',help='Digest algorithm to use (default SHA-256)')
+
+    args = parser.parse_args()
+    if acestore.getAlgorithm(args.digest) is None:
+        print 'Invalid digest algorithm ' + args.digest
+        parser.print_help()
+        sys.exit(2)
+
+    settings = TrollSettings()
+
+    settings.outfile = args.file
+    
+    for file in args.files:
+        if not (os.path.isfile(file) or args.recurse and os.path.isdir(file)):
+           if not args.recurse and os.path.isdir(file):
+               print file + " is a directory and -r, or --recurse has not been specified"
+           elif not os.path.isfile(file):
+               print file + " does not exist"
+           parser.print_help()
+           sys.exit(2)
+
+    for file in args.files:
+        if os.path.isdir(file):
+            os.path.walk(file,processDir, settings)
+        else:
+            settings.requestlist.append((file,binascii.b2a_hex(acestore.digestFile(file))))
+
+    if len(settings.requestlist) > 0:
+        acestore.createTokens(settings.requestlist,settings.outfile)
+
+    settings.outfile.close()
+
+if __name__ == "__main__":
+    main()
+
+    
+
+
+    
+

ace-cli/pysimplesoap/__init__.py

+#!/usr/bin/env python
+# -*- coding: utf-8 -*-
+"Contributed modules"

ace-cli/pysimplesoap/server.py

+#!/usr/bin/python
+# -*- coding: latin-1 -*-
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU Lesser General Public License as published by the
+# Free Software Foundation; either version 3, or (at your option) any later
+# version.
+#
+# This program is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTIBILITY
+# or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General Public License
+# for more details.
+
+"Simple SOAP Server implementation"
+
+__author__ = "Mariano Reingart (reingart@gmail.com)"
+__copyright__ = "Copyright (C) 2010 Mariano Reingart"
+__license__ = "LGPL 3.0"
+__version__ = "1.02c"
+
+from simplexml import SimpleXMLElement, TYPE_MAP, DateTime, Date, Decimal
+
+DEBUG = False
+
+
+class SoapDispatcher(object):
+    "Simple Dispatcher for SOAP Server"
+    
+    def __init__(self, name, documentation='', action='', location='', 
+                 namespace=None, prefix=False, 
+                 soap_uri="http://schemas.xmlsoap.org/soap/envelope/", 
+                 soap_ns='soap',
+                 **kwargs):
+        self.methods = {}
+        self.name = name
+        self.documentation = documentation
+        self.action = action # base SoapAction
+        self.location = location
+        self.namespace = namespace # targetNamespace
+        self.prefix = prefix
+        self.soap_ns = soap_ns
+        self.soap_uri = soap_uri
+    
+    def register_function(self, name, fn, returns=None, args=None, doc=None):
+        self.methods[name] = fn, returns, args, doc or getattr(fn,"__doc__","")
+        
+    def dispatch(self, xml, action=None):
+        "Receive and proccess SOAP call"
+        # default values:
+        prefix = self.prefix
+        ret = fault = None
+        soap_ns, soap_uri = self.soap_ns, self.soap_uri
+        soap_fault_code = 'VersionMismatch'
+
+        try:
+            request = SimpleXMLElement(xml, namespace=self.namespace)
+
+            # detect soap prefix and uri (xmlns attributes of Envelope)
+            for k, v in request[:]:
+                if v in ("http://schemas.xmlsoap.org/soap/envelope/",
+                                  "http://www.w3.org/2003/05/soap-env",):
+                    soap_ns = request.attributes()[k].localName
+                    soap_uri = request.attributes()[k].value
+            
+            soap_fault_code = 'Client'
+            
+            # parse request message and get local method            
+            method = request('Body', ns=soap_uri).children()(0)
+            if action:
+                # method name = action 
+                name = action[len(self.action)+1:-1]
+                prefix = self.prefix
+            if not action or not name:
+                # method name = input message name
+                name = method.get_local_name()
+                prefix = method.get_prefix()
+
+            if DEBUG: print "dispatch method", name
+            function, returns_types, args_types, doc = self.methods[name]
+        
+            # de-serialize parameters (if type definitions given)
+            if args_types:
+                args = method.children().unmarshall(args_types)
+            elif args_types is None:
+                args = {'request':method} # send raw request
+            else:
+                args = {} # no parameters
+ 
+            soap_fault_code = 'Server'
+            # execute function
+            ret = function(**args)
+            if DEBUG: print ret
+
+        except Exception, e:
+            import sys
+            etype, evalue, etb = sys.exc_info()
+            if DEBUG: 
+                import traceback
+                detail = ''.join(traceback.format_exception(etype, evalue, etb))
+                detail += '\n\nXML REQUEST\n\n' + xml
+            else:
+                detail = None
+            fault = {'faultcode': "%s.%s" % (soap_fault_code, etype.__name__), 
+                     'faultstring': unicode(evalue), 
+                     'detail': detail}
+
+        # build response message
+        if not prefix:
+            xml = """<%(soap_ns)s:Envelope xmlns:%(soap_ns)s="%(soap_uri)s"/>"""  
+        else:
+            xml = """<%(soap_ns)s:Envelope xmlns:%(soap_ns)s="%(soap_uri)s"
+                       xmlns:%(prefix)s="%(namespace)s"/>"""  
+            
+        xml = xml % {'namespace': self.namespace, 'prefix': prefix,
+                     'soap_ns': soap_ns, 'soap_uri': soap_uri}
+
+        response = SimpleXMLElement(xml, namespace=self.namespace,
+                                    prefix=prefix)
+    
+        response['xmlns:xsi'] = "http://www.w3.org/2001/XMLSchema-instance"
+        response['xmlns:xsd'] = "http://www.w3.org/2001/XMLSchema"
+
+        body = response.add_child("%s:Body" % soap_ns, ns=False)
+        if fault:
+            # generate a Soap Fault (with the python exception)
+            body.marshall("%s:Fault" % soap_ns, fault, ns=False)
+        else:
+            # return normal value
+            res = body.add_child("%sResponse" % name, ns=prefix)
+            if not prefix:
+                res['xmlns'] = self.namespace # add target namespace
+
+            # serialize returned values (response) if type definition available
+            if returns_types:
+                if not isinstance(ret, dict):
+                    res.marshall(returns_types.keys()[0], ret, )
+                else:
+                    for k,v in ret.items():
+                        res.marshall(k, v)
+            elif returns_types is None:
+                # merge xmlelement returned
+                res.import_node(ret)
+
+        return response.as_xml()
+
+    # Introspection functions:
+
+    def list_methods(self):
+        "Return a list of aregistered operations"
+        return [(method, doc) for method, (function, returns, args, doc) in self.methods.items()] 
+
+    def help(self, method=None):
+        "Generate sample request and response messages"
+        (function, returns, args, doc) = self.methods[method]
+        xml = """
+<soap:Envelope xmlns:soap="http://schemas.xmlsoap.org/soap/envelope/">
+<soap:Body><%(method)s xmlns="%(namespace)s"/></soap:Body>
+</soap:Envelope>"""  % {'method':method, 'namespace':self.namespace}
+        request = SimpleXMLElement(xml, namespace=self.namespace, prefix=self.prefix)
+        if args:
+            items = args.items()
+        elif args is None:
+            items = [('value', None)]
+        else:
+            items = []
+        for k,v in items:
+            request(method).marshall(k, v, add_comments=True, ns=False)
+
+        xml = """
+<soap:Envelope xmlns:soap="http://schemas.xmlsoap.org/soap/envelope/">
+<soap:Body><%(method)sResponse xmlns="%(namespace)s"/></soap:Body>
+</soap:Envelope>"""  % {'method':method, 'namespace':self.namespace}
+        response = SimpleXMLElement(xml, namespace=self.namespace, prefix=self.prefix)
+        if returns:
+            items = returns.items()
+        elif args is None:
+            items = [('value', None)]
+        else:
+            items = []
+        for k,v in items:
+            response('%sResponse'%method).marshall(k, v, add_comments=True, ns=False)
+
+        return request.as_xml(pretty=True), response.as_xml(pretty=True), doc
+
+
+    def wsdl(self):
+        "Generate Web Service Description v1.1"
+        xml = """<?xml version="1.0"?>
+<wsdl:definitions name="%(name)s" 
+          targetNamespace="%(namespace)s"
+          xmlns:tns="%(namespace)s"
+          xmlns:soap="http://schemas.xmlsoap.org/wsdl/soap/"
+          xmlns:wsdl="http://schemas.xmlsoap.org/wsdl/"
+          xmlns:xsd="http://www.w3.org/2001/XMLSchema">
+    <wsdl:documentation xmlns:wsdl="http://schemas.xmlsoap.org/wsdl/">%(documentation)s</wsdl:documentation>
+
+    <wsdl:types>
+       <xsd:schema targetNamespace="%(namespace)s"
+              elementFormDefault="qualified"
+              xmlns:xsd="http://www.w3.org/2001/XMLSchema">
+       </xsd:schema>
+    </wsdl:types>
+
+</wsdl:definitions>
+""" % {'namespace': self.namespace, 'name': self.name, 'documentation': self.documentation}
+        wsdl = SimpleXMLElement(xml)
+
+        for method, (function, returns, args, doc) in self.methods.items():
+            # create elements:
+                
+            def parse_element(name, values, array=False, complex=False):
+                if not complex:
+                    element = wsdl('wsdl:types')('xsd:schema').add_child('xsd:element')
+                    complex = element.add_child("xsd:complexType")
+                else:
+                    complex = wsdl('wsdl:types')('xsd:schema').add_child('xsd:complexType')
+                    element = complex
+                element['name'] = name
+                if values:
+                    items = values
+                elif values is None:
+                    items = [('value', None)]
+                else:
+                    items = []
+                if not array and items:
+                    all = complex.add_child("xsd:all")
+                elif items:
+                    all = complex.add_child("xsd:sequence")
+                for k,v in items:
+                    e = all.add_child("xsd:element")
+                    e['name'] = k
+                    if array:
+                        e[:]={'minOccurs': "0", 'maxOccurs': "unbounded"}
+                    if v in TYPE_MAP.keys():
+                        t='xsd:%s' % TYPE_MAP[v]
+                    elif v is None:
+                        t='xsd:anyType'
+                    elif isinstance(v, list):
+                        n="ArrayOf%s%s" % (name, k)
+                        l = []
+                        for d in v:
+                            l.extend(d.items())
+                        parse_element(n, l, array=True, complex=True)
+                        t = "tns:%s" % n
+                    elif isinstance(v, dict): 
+                        n="%s%s" % (name, k)
+                        parse_element(n, v.items(), complex=True)
+                        t = "tns:%s" % n
+                    e.add_attribute('type', t)
+            
+            parse_element("%s" % method, args and args.items())
+            parse_element("%sResponse" % method, returns and returns.items())
+
+            # create messages:
+            for m,e in ('Input',''), ('Output','Response'):
+                message = wsdl.add_child('wsdl:message')
+                message['name'] = "%s%s" % (method, m)
+                part = message.add_child("wsdl:part")
+                part[:] = {'name': 'parameters', 
+                           'element': 'tns:%s%s' % (method,e)}
+
+        # create ports
+        portType = wsdl.add_child('wsdl:portType')
+        portType['name'] = "%sPortType" % self.name
+        for method, (function, returns, args, doc) in self.methods.items():
+            op = portType.add_child('wsdl:operation')
+            op['name'] = method
+            if doc:
+                op.add_child("wsdl:documentation", doc)
+            input = op.add_child("wsdl:input")
+            input['message'] = "tns:%sInput" % method
+            output = op.add_child("wsdl:output")
+            output['message'] = "tns:%sOutput" % method
+
+        # create bindings
+        binding = wsdl.add_child('wsdl:binding')
+        binding['name'] = "%sBinding" % self.name
+        binding['type'] = "tns:%sPortType" % self.name
+        soapbinding = binding.add_child('soap:binding')
+        soapbinding['style'] = "document"
+        soapbinding['transport'] = "http://schemas.xmlsoap.org/soap/http"
+        for method in self.methods.keys():
+            op = binding.add_child('wsdl:operation')
+            op['name'] = method
+            soapop = op.add_child('soap:operation')
+            soapop['soapAction'] = self.action + method
+            soapop['style'] = 'document'
+            input = op.add_child("wsdl:input")
+            ##input.add_attribute('name', "%sInput" % method)
+            soapbody = input.add_child("soap:body")
+            soapbody["use"] = "literal"
+            output = op.add_child("wsdl:output")
+            ##output.add_attribute('name', "%sOutput" % method)
+            soapbody = output.add_child("soap:body")
+            soapbody["use"] = "literal"
+
+        service = wsdl.add_child('wsdl:service')
+        service["name"] = "%sService" % self.name
+        service.add_child('wsdl:documentation', text=self.documentation)
+        port=service.add_child('wsdl:port')
+        port["name"] = "%s" % self.name
+        port["binding"] = "tns:%sBinding" % self.name
+        soapaddress = port.add_child('soap:address')
+        soapaddress["location"] = self.location
+        return wsdl.as_xml(pretty=True)
+    
+
+from BaseHTTPServer import BaseHTTPRequestHandler, HTTPServer
+class SOAPHandler(BaseHTTPRequestHandler):
+    def do_GET(self):
+        "User viewable help information and wsdl"
+        args = self.path[1:].split("?")
+        print "serving", args
+        if self.path != "/" and args[0] not in self.server.dispatcher.methods.keys():
+            self.send_error(404, "Method not found: %s" % args[0])
+        else:
+            if self.path == "/":
+                # return wsdl if no method supplied
+                response = self.server.dispatcher.wsdl()
+            else:
+                # return supplied method help (?request or ?response messages)
+                req, res, doc = self.server.dispatcher.help(args[0])
+                if len(args)==1 or args[1]=="request":
+                    response = req
+                else:
+                    response = res                
+            self.send_response(200)
+            self.send_header("Content-type", "text/xml")
+            self.end_headers()
+            self.wfile.write(response)
+
+    def do_POST(self):
+        "SOAP POST gateway"
+        self.send_response(200)
+        self.send_header("Content-type", "text/xml")
+        self.end_headers()
+        request = self.rfile.read(int(self.headers.getheader('content-length')))
+        response = self.server.dispatcher.dispatch(request)
+        self.wfile.write(response)
+
+
+if __name__=="__main__":
+    import sys
+
+    dispatcher = SoapDispatcher(
+        name = "PySimpleSoapSample",
+        location = "http://localhost:8008/",
+        action = 'http://localhost:8008/', # SOAPAction
+        namespace = "http://example.com/pysimplesoapsamle/", prefix="ns0",
+        documentation = 'Example soap service using PySimpleSoap',
+        trace = True,
+        ns = True)
+    
+    def adder(p,c, dt=None):
+        "Add several values"
+        print c[0]['d'],c[1]['d'],