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annotate env/lib/python3.7/site-packages/planemo/xml/validation.py @ 0:26e78fe6e8c4 draft

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"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
author shellac
date Sat, 02 May 2020 07:14:21 -0400
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1 """Module describing abstractions for validating XML content."""
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2 import abc
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3 import subprocess
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4 from collections import namedtuple
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5
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6 from galaxy.tool_util.deps.commands import which
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7 from galaxy.util import unicodify
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8 try:
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9 from lxml import etree
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10 except ImportError:
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11 etree = None
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12
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13 XMLLINT_COMMAND = "xmllint --noout --schema {0} {1} 2>&1"
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14 INSTALL_VALIDATOR_MESSAGE = ("This feature requires an external dependency "
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15 "to function, pleaes install xmllint (e.g 'brew "
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16 "install libxml2' or 'apt-get install "
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17 "libxml2-utils'.")
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18
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19
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20 class XsdValidator(object):
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21 """Class allowing validation of XML files against XSD schema."""
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22
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23 __metaclass__ = abc.ABCMeta
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24
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25 @abc.abstractmethod
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26 def validate(self, schema_path, target_path):
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27 """Validate ``target_path`` against ``schema_path``.
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28
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29 :return type: ValidationResult
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30 """
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31
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32 @abc.abstractmethod
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33 def enabled(self):
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34 """Return True iff system has dependencies for this validator.
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35
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36 :return type: bool
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37 """
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38
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39
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40 ValidationResult = namedtuple("ValidationResult", ["passed", "output"])
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41
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42
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43 class LxmlValidator(XsdValidator):
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44 """Validate XSD files using lxml library."""
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45
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46 def validate(self, schema_path, target_path):
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47 try:
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48 xsd_doc = etree.parse(schema_path)
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49 xsd = etree.XMLSchema(xsd_doc)
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50 xml = etree.parse(target_path)
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51 passed = xsd.validate(xml)
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52 return ValidationResult(passed, xsd.error_log)
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53 except etree.XMLSyntaxError as e:
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54 return ValidationResult(False, unicodify(e))
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55
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56 def enabled(self):
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57 return etree is not None
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58
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59
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60 class XmllintValidator(XsdValidator):
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61 """Validate XSD files with the external tool xmllint."""
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62
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63 def validate(self, schema_path, target_path):
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64 command = XMLLINT_COMMAND.format(schema_path, target_path)
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65 p = subprocess.Popen(command, stdout=subprocess.PIPE, shell=True)
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66 stdout, _ = p.communicate()
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67 passed = p.returncode == 0
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68 return ValidationResult(passed, stdout)
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69
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70 def enabled(self):
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71 return bool(which("xmllint"))
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72
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73
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74 VALIDATORS = [LxmlValidator(), XmllintValidator()]
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75
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76
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77 def get_validator(require=True):
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78 """Return a :class:`XsdValidator` object based on available dependencies."""
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79 for validator in VALIDATORS:
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80 if validator.enabled():
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81 return validator
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82
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83 if require:
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84 raise Exception(INSTALL_VALIDATOR_MESSAGE)
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85
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86 return None
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87
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88
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89 __all__ = (
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90 "get_validator",
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91 "XsdValidator",
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92 )