Mercurial > repos > ganjoo > webservice_toolsuite

annotate WebServiceToolWorkflow/getMethods1.py~ @ 0:e7482c82796e default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
author ganjoo
date Tue, 07 Jun 2011 17:34:26 -0400
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
1 import warnings
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
2
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
3 with warnings.catch_warnings():
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
4 warnings.simplefilter("ignore")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
5 import platform
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
6
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
7 from jpype._jpackage import JPackage
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
8 from jpype import *
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
9 import os.path
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
10 import sys
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
11
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
12 class Document1(object):
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
13
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
14 def getWADLMethods(self, wadlUrl, outputFileUrl ):
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
15 javahome = os.environ.get('JAVA_HOME')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
16 galaxyhome=os.environ.get('GALAXY_HOME')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
17 classpath= galaxyhome + '/tools/WebServiceToolWorkflow/ParserForWADL/bin'
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
18 jarpath = galaxyhome + '/tools/WebServiceToolWorkflow/ParserForWADL/lib/'
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
19 machine = platform.machine()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
20 if machine == 'x86_64' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
21 startJVM("%s/jre/lib/amd64/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath,"-Djava.ext.dirs=%s" % jarpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
22 elif machine == 'i686' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
23 startJVM("%s/jre/lib/i386/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath,"-Djava.ext.dirs=%s" % jarpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
24 elif machine == 'sun4u' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
25 startJVM("%s/jre/lib/sparc/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath,"-Djava.ext.dirs=%s" % jarpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
26 else :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
27 System.exit("Could not identify machine, please specify path to libjvm.so")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
28 pkg=JPackage('lsdis')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
29 urlToPass=java.net.URL(wadlUrl)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
30
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
31 outputfile=open(outputFileUrl,'w')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
32 outputfile.seek(0,0)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
33
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
34 urls = []
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
35 methods = []
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
36
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
37 WADLParserDriver=pkg.WADLParserDriver
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
38 wPD=WADLParserDriver()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
39 wPD.parse(urlToPass)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
40 urls = wPD.getUrl()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
41 methods = wPD.getCompleteMethodList()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
42
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
43 i=0
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
44 for url in urls:
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
45 outputfile.write(wadlUrl+"\t")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
46 outputfile.write(str(methods[i].getId())+"\t")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
47 outputfile.write(str(url)+"\n")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
48 i=i+1
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
49
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
50
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
51
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
52 def getWSDLMethods(self, wsdlUrl, outputFileUrl ):
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
53 javahome = os.environ.get('JAVA_HOME')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
54 galaxyhome=os.environ.get('GALAXY_HOME')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
55 classpath= galaxyhome + '/tools/WebServiceToolWorkflow/WodenWSDLParser/bin'
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
56 jarpath = galaxyhome + '/tools/WebServiceToolWorkflow/WodenWSDLParser/lib/'
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
57 machine = platform.machine()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
58 if machine == 'x86_64' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
59 startJVM("%s/jre/lib/amd64/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath,"-Djava.ext.dirs=%s" % jarpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
60 elif machine == 'i686' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
61 startJVM("%s/jre/lib/i386/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath,"-Djava.ext.dirs=%s" % jarpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
62 elif machine == 'sun4u' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
63 startJVM("%s/jre/lib/sparc/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath,"-Djava.ext.dirs=%s" % jarpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
64 else :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
65 System.exit("Could not identify machine, please specify path to libjvm.so")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
66
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
67 pkg=JPackage('lsdis')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
68
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
69 outputfile=open(outputFileUrl,'w')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
70 outputfile.seek(0,0)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
71 length=(len(sys.argv))
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
72
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
73 urls = []
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
74 methods = []
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
75
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
76 WSDLParserDriver=pkg.WSDLParserDriver
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
77 wPD=WSDLParserDriver()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
78 wPD.parse(wsdlUrl)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
79 urls = wPD.getUrl()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
80 methods = wPD.getCompleteMethodList()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
81
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
82 i=0
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
83 for url in urls:
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
84 outputfile.write(wsdlUrl+"\t")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
85 outputfile.write(str(methods[i].getName().getLocalPart())+"\t")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
86 outputfile.write(str(url)+"\n")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
87 i=i+1
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
88
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
89
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
90
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
91
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
92 def getSAWADLMethods(self, sawadlUrl, outputFileUrl ):
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
93 javahome = os.environ.get('JAVA_HOME')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
94 galaxyhome=os.environ.get('GALAXY_HOME')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
95 classpath= galaxyhome + '/tools/restclientSAWADL/lib/SAWADLParser/bin'
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
96
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
97 machine = platform.machine()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
98 if machine == 'x86_64' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
99 startJVM("%s/jre/lib/amd64/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
100 elif machine == 'i686' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
101 startJVM("%s/jre/lib/i386/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
102 elif machine == 'sun4u' :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
103 startJVM("%s/jre/lib/sparc/server/libjvm.so" % javahome,"-ea", "-Djava.class.path=%s" % classpath)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
104 else :
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
105 System.exit("Could not identify machine, please specify path to libjvm.so")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
106
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
107 pkg=JPackage('edu.uga.cs.lsdis.meteors.wadls')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
108
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
109
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
110
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
111 outputfile=open(outputFileUrl,'w')
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
112 outputfile.seek(0,0)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
113
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
114
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
115 urls = []
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
116 methods = []
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
117
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
118 SAWADLParserDriver=pkg.SAWADLParserDriver
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
119 sawPD=SAWADLParserDriver()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
120 sawPD.parse(sawadlUrl)
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
121 urls = sawPD.getUrl()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
122 methods = sawPD.getCompleteMethodList()
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
123
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
124 i=0
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
125 for url in urls:
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
126 outputfile.write(sawadlUrl+"\t")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
127 outputfile.write(str(methods[i].getName())+"\t")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
128 outputfile.write(str(url)+"\n")
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
129 i=i+1
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
130
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
131
e7482c82796e Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
ganjoo
parents:
diff changeset
132