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annotate venv/lib/python2.7/site-packages/planemo/xml/validation.py @ 0:d67268158946 draft

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planemo upload commit a3f181f5f126803c654b3a66dd4e83a48f7e203b
author bcclaywell
date Mon, 12 Oct 2015 17:43:33 -0400
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1 import abc
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2 from collections import namedtuple
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3 import subprocess
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4
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5 from galaxy.tools.deps.commands import which
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6
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7 try:
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8 from lxml import etree
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9 except ImportError:
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10 etree = None
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11
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12 XMLLINT_COMMAND = "xmllint --noout --schema {0} {1} 2>&1"
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13 INSTALL_VALIDATOR_MESSAGE = ("This feature requires an external dependency "
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14 "to function, pleaes install xmllint (e.g 'brew "
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15 "install libxml2' or 'apt-get install "
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16 "libxml2-utils'.")
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17
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18
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19 class XsdValidator(object):
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20 __metaclass__ = abc.ABCMeta
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21
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22 @abc.abstractmethod
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23 def validate(self, schema_path, target_path):
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24 """ Validate ``target_path`` against ``schema_path``.
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25
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26 :return type: ValidationResult
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27 """
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28
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29 @abc.abstractmethod
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30 def enabled(self):
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31 """ Return True iff system has dependencies for this validator.
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32
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33 :return type: bool
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34 """
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35
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36 ValidationResult = namedtuple("ValidationResult", ["passed", "output"])
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37
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38
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39 class LxmlValidator(XsdValidator):
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40 """ Validate XSD files using lxml library. """
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41
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42 def validate(self, schema_path, target_path):
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43 try:
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44 xsd_doc = etree.parse(schema_path)
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45 xsd = etree.XMLSchema(xsd_doc)
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46 xml = etree.parse(target_path)
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47 passed = xsd.validate(xml)
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48 return ValidationResult(passed, xsd.error_log)
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49 except etree.XMLSyntaxError as e:
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50 return ValidationResult(False, str(e))
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51
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52 def enabled(self):
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53 return etree is not None
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54
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55
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56 class XmllintValidator(XsdValidator):
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57 """ Validate XSD files with the external tool xmllint. """
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58
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59 def validate(self, schema_path, target_path):
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60 command = XMLLINT_COMMAND.format(schema_path, target_path)
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61 p = subprocess.Popen(command, stdout=subprocess.PIPE, shell=True)
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62 stdout, _ = p.communicate()
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63 passed = p.returncode == 0
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64 return ValidationResult(passed, stdout)
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65
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66 def enabled(self):
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67 return bool(which("xmllint"))
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68
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69
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70 VALIDATORS = [LxmlValidator(), XmllintValidator()]
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71
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72
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73 def get_validator(require=True):
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74 for validator in VALIDATORS:
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75 if validator.enabled():
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76 return validator
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77
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78 if require:
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79 raise Exception(INSTALL_VALIDATOR_MESSAGE)
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80
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81 return None