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How to use optional_in method in pandera

Best Python code snippet using pandera_python
metavar.py
Source:metavar.py
1#!/usr/bin/env python2#3# Class to hold all information on a CCPP metadata variable4#5# Python library imports6from __future__ import print_function7import re8import xml.etree.ElementTree as ET9from collections import OrderedDict10# CCPP framework imports11from parse_tools import check_fortran_ref, check_fortran_type, context_string12from parse_tools import FORTRAN_DP_RE, FORTRAN_ID13from parse_tools import registered_fortran_ddt_name14from parse_tools import check_dimensions, check_cf_standard_name15from parse_tools import ParseContext, ParseSource16from parse_tools import ParseInternalError, ParseSyntaxError, CCPPError17###############################################################################18real_subst_re = re.compile(r"(.*\d)p(\d.*)")19list_re = re.compile(r"[(]([^)]*)[)]\s*$")20########################################################################21def standard_name_to_long_name(prop_dict, context=None):22########################################################################23    """Translate a standard_name to its default long_name24    >>> standard_name_to_long_name({'standard_name':'cloud_optical_depth_layers_from_0p55mu_to_0p99mu'})25    'Cloud optical depth layers from 0.55mu to 0.99mu'26    >>> standard_name_to_long_name({'local_name':'foo'}) #doctest: +IGNORE_EXCEPTION_DETAIL27    Traceback (most recent call last):28    CCPPError: No standard name to convert foo to long name29    >>> standard_name_to_long_name({}) #doctest: +IGNORE_EXCEPTION_DETAIL30    Traceback (most recent call last):31    CCPPError: No standard name to convert to long name32    >>> standard_name_to_long_name({'local_name':'foo'}, context=ParseContext(linenum=3, filename='foo.F90')) #doctest: +IGNORE_EXCEPTION_DETAIL33    Traceback (most recent call last):34    CCPPError: No standard name to convert foo to long name at foo.F90:335    >>> standard_name_to_long_name({}, context=ParseContext(linenum=3, filename='foo.F90')) #doctest: +IGNORE_EXCEPTION_DETAIL36    Traceback (most recent call last):37    CCPPError: No standard name to convert to long name at foo.F90:338    """39    # We assume that standar_name has been checked for validity40    # Make the first char uppercase and replace each underscore with a space41    if 'standard_name' in prop_dict:42        standard_name = prop_dict['standard_name']43        if len(standard_name) > 0:44            long_name = standard_name[0].upper() + re.sub("_", " ", standard_name[1:])45        else:46            long_name = ''47        # End if48        # Next, substitute a decimal point for the p in [:digit]p[:digit]49        match = real_subst_re.match(long_name)50        while match is not None:51            long_name = match.group(1) + '.' + match.group(2)52            match = real_subst_re.match(long_name)53        # End while54    else:55        long_name = ''56        if 'local_name' in prop_dict:57            lname = ' {}'.format(prop_dict['local_name'])58        else:59            lname = ''60        # End if61        ctxt = context_string(context)62        raise CCPPError('No standard name to convert{} to long name{}'.format(lname, ctxt))63    # End if64    return long_name65########################################################################66def default_kind_val(prop_dict, context=None):67########################################################################68    """Choose a default kind based on a variable's type69    >>> default_kind_val({'type':'REAL'})70    'kind_phys'71    >>> default_kind_val({'type':'complex'})72    'kind_phys'73    >>> default_kind_val({'type':'double precision'})74    'kind_phys'75    >>> default_kind_val({'type':'integer'})76    ''77    >>> default_kind_val({'type':'character'})78    ''79    >>> default_kind_val({'type':'logical'})80    ''81    >>> default_kind_val({'local_name':'foo'}) #doctest: +IGNORE_EXCEPTION_DETAIL82    Traceback (most recent call last):83    CCPPError: No type to find default kind for foo84    >>> default_kind_val({}) #doctest: +IGNORE_EXCEPTION_DETAIL85    Traceback (most recent call last):86    CCPPError: No type to find default kind87    >>> default_kind_val({'local_name':'foo'}, context=ParseContext(linenum=3, filename='foo.F90')) #doctest: +IGNORE_EXCEPTION_DETAIL88    Traceback (most recent call last):89    CCPPError: No type to find default kind for foo at foo.F90:390    >>> default_kind_val({}, context=ParseContext(linenum=3, filename='foo.F90')) #doctest: +IGNORE_EXCEPTION_DETAIL91    Traceback (most recent call last):92    CCPPError: No type to find default kind at foo.F90:393    """94    if 'type' in prop_dict:95        vtype = prop_dict['type'].lower()96        if vtype == 'real':97            kind = 'kind_phys'98        elif vtype == 'complex':99            kind = 'kind_phys'100        elif FORTRAN_DP_RE.match(vtype) is not None:101            kind = 'kind_phys'102        else:103            kind = ''104        # End if105    else:106        kind = ''107        if 'local_name' in prop_dict:108            lname = ' {}'.format(prop_dict['local_name'])109        else:110            lname = ''111        # End if112        ctxt = context_string(context)113        raise CCPPError('No type to find default kind for {}{}'.format(lname, ctxt))114    # End if115    return kind116########################################################################117def ddt_modules(variable_list):118########################################################################119    ddt_mods = set()120    for var in variable_list:121        if var.is_ddt():122            module = var.get_prop_value('module')123            if len(module) > 0:124                ddt_mods.add((module, var.get_prop_value('type')))125            # End if126        # End if127    # End for128    return ddt_mods129########################################################################130class VariableProperty(object):131    """Class to represent a single property of a metadata header entry132    >>> VariableProperty('local_name', str) #doctest: +ELLIPSIS133    <__main__.VariableProperty object at ...>134    >>> VariableProperty('standard_name', str) #doctest: +ELLIPSIS135    <__main__.VariableProperty object at ...>136    >>> VariableProperty('long_name', str) #doctest: +ELLIPSIS137    <__main__.VariableProperty object at ...>138    >>> VariableProperty('units', str) #doctest: +ELLIPSIS139    <__main__.VariableProperty object at ...>140    >>> VariableProperty('dimensions', list) #doctest: +ELLIPSIS141    <__main__.VariableProperty object at ...>142    >>> VariableProperty('type', str) #doctest: +ELLIPSIS143    <__main__.VariableProperty object at ...>144    >>> VariableProperty('kind', str) #doctest: +ELLIPSIS145    <__main__.VariableProperty object at ...>146    >>> VariableProperty('state_variable', str, valid_values_in=['True',   'False', '.true.', '.false.' ], optional_in=True, default_in=False) #doctest: +ELLIPSIS147    <__main__.VariableProperty object at ...>148    >>> VariableProperty('intent', str, valid_values_in=['in', 'out', 'inout']) #doctest: +ELLIPSIS149    <__main__.VariableProperty object at ...>150    >>> VariableProperty('optional', str, valid_values_in=['True',   'False', '.true.', '.false.' ], optional_in=True, default_in=False) #doctest: +ELLIPSIS151    <__main__.VariableProperty object at ...>152    >>> VariableProperty('local_name', str).name153    'local_name'154    >>> VariableProperty('standard_name', str).type155    <type 'str'>156    >>> VariableProperty('units', str).is_match('units')157    True158    >>> VariableProperty('units', str).is_match('UNITS')159    True160    >>> VariableProperty('units', str).is_match('type')161    False162    >>> VariableProperty('value', int, valid_values_in=[1, 2 ]).valid_value('2')163    2164    >>> VariableProperty('value', int, valid_values_in=[1, 2 ]).valid_value('3')165    >>> VariableProperty('value', int, valid_values_in=[1, 2 ]).valid_value('3', error=True) #doctest: +IGNORE_EXCEPTION_DETAIL166    Traceback (most recent call last):167    CCPPError: Invalid value variable property, '3'168    >>> VariableProperty('dimensions', list, check_fn_in=check_dimensions).valid_value('()')169    []170    >>> VariableProperty('dimensions', list, check_fn_in=check_dimensions).valid_value('(x)')171    ['x']172    >>> VariableProperty('dimensions', list, check_fn_in=check_dimensions).valid_value('x')173    >>> VariableProperty('dimensions', list, check_fn_in=check_dimensions).valid_value('(x:y)')174    ['x:y']175    >>> VariableProperty('dimensions', list, check_fn_in=check_dimensions).valid_value('(w:x,y:z)')176    ['w:x', 'y:z']177    >>> VariableProperty('dimensions', list, check_fn_in=check_dimensions).valid_value('(w:x,x:y:z:q)', error=True) #doctest: +IGNORE_EXCEPTION_DETAIL178    Traceback (most recent call last):179    CCPPError: 'x:y:z:q' is an invalid dimension range180    >>> VariableProperty('dimensions', list, check_fn_in=check_dimensions).valid_value('(x:3y)', error=True) #doctest: +IGNORE_EXCEPTION_DETAIL181    Traceback (most recent call last):182    CCPPError: '3y' is not a valid Fortran identifier183    """184    __true_vals = ['t', 'true', '.true.']185    __false_vals = ['f', 'false', '.false.']186    def __init__(self, name_in, type_in, valid_values_in=None, optional_in=False, default_in=None, default_fn_in=None, check_fn_in=None):187        self._name = name_in188        self._type = type_in189        if self._type not in [ bool, int, list, str ]:190            raise CCPPError("{} has invalid VariableProperty type, '{}'".format(name_in, type_in))191        # End if192        self._valid_values = valid_values_in193        self._optional = optional_in194        if self.optional:195            if (default_in is None) and (default_fn_in is None):196                raise CCPPError('default_in or default_fn_in is a required property for {} because it is optional'.format(name_in))197            if (default_in is not None) and (default_fn_in is not None):198                raise CCPPError('default_in and default_fn_in cannot both be provided')199            self._default = default_in200            self._default_fn = default_fn_in201        elif default_in is not None:202            raise CCPPError('default_in is not a valid property for {} because it is not optional'.format(name_in))203        elif default_in is not None:204            raise CCPPError('default_fn_in is not a valid property for {} because it is not optional'.format(name_in))205        self._check_fn = check_fn_in206    @property207    def name(self):208        'Return the name of the property'209        return self._name210    @property211    def type(self):212        'Return the type of the property'213        return self._type214    def get_default_val(self, prop_dict, context=None):215        if self._default_fn is not None:216            return self._default_fn(prop_dict, context)217        elif self._default is not None:218            return self._default219        else:220            ctxt = context_string(context)221            raise CCPPError('No default for variable property {}{}'.format(self.name, ctxt))222        # End if223    @property224    def optional(self):225        return self._optional226    def is_match(self, test_name):227        "Return True iff <test_name> is the name of this property"228        return self.name.lower() == test_name.lower()229    def valid_value(self, test_value, error=False):230        'Return a sanitized version of test_value if valid, otherwise return None or abort'231        valid_val = None232        if self.type is int:233            try:234                tv = int(test_value)235                if self._valid_values is not None:236                    if tv in self._valid_values:237                        valid_val = tv238                    else:239                        valid_val = None # i.e. pass240                else:241                    valid_val = tv242            except CCPPError:243                valid_val = None # Redundant but more expressive than pass244        elif self.type is list:245            if isinstance(test_value, str):246                match = list_re.match(test_value)247                if match is None:248                    tv = None249                else:250                    tv = [x.strip() for x in match.group(1).split(',')]251                    if (len(tv) == 1) and (len(tv[0]) == 0):252                        # Scalar253                        tv = list()254                    # End if255                # End if256            else:257                tv = test_value258            # End if259            if isinstance(tv, list):260                valid_val = tv261            elif isinstance(tv, tuple):262                valid_val = list(tv)263            else:264                valid_val = None265            # End if266            if (valid_val is not None) and (self._valid_values is not None):267                # Special case for lists, _valid_values applies to elements268                for item in valid_val:269                    if item not in self._valid_values:270                        valid_val = None271                        break272                    # End if273                # End for274            else:275                pass276        elif self.type is bool:277            if isinstance(test_value, str):278                if test_value.lower() in VariableProperty.__true_vals + VariableProperty.__false_vals:279                    valid_val = test_value.lower() in VariableProperty.__true_vals280                else:281                    valid_val = None # i.e., pass282            else:283                valid_val = not not test_value284        elif self.type is str:285            if isinstance(test_value, str):286                if self._valid_values is not None:287                    if test_value in self._valid_values:288                        valid_val = test_value289                    else:290                        valid_val = None # i.e., pass291                else:292                    valid_val = test_value293                # End if294            # End if295        # End if296        # Call a check function?297        if valid_val and (self._check_fn is not None):298            valid_val = self._check_fn(valid_val, error=error)299        elif (valid_val is None) and error:300            raise CCPPError("Invalid {} variable property, '{}'".format(self.name, test_value))301        # End if302        return valid_val303###############################################################################304class Var(object):305    """ A class to hold a metadata variable306    >>> Var.get_prop('standard_name') #doctest: +ELLIPSIS307    <__main__.VariableProperty object at 0x...>308    >>> Var.get_prop('standard')309    >>> Var.get_prop('type').is_match('type')310    True311    >>> Var.get_prop('type').is_match('long_name')312    False313    >>> Var.get_prop('type').valid_value('character')314    'character'315    >>> Var.get_prop('type').valid_value('char')316    >>> Var.get_prop('long_name').valid_value('hi mom')317    'hi mom'318    >>> Var.get_prop('dimensions').valid_value('hi mom')319    >>> Var.get_prop('dimensions').valid_value(['Bob', 'Ray'])320    ['Bob', 'Ray']321    >>> Var.get_prop('active')322    '.true.'323    >>> Var.get_prop('active').valid_value('flag_for_aerosol_physics')324    'flag_for_aerosol_physics'325    >>> Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext())).get_prop_value('long_name')326    'Hi mom'327    >>> Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext())).get_prop_value('intent')328    'in'329    >>> Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'ttype' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext()))330    Traceback (most recent call last):331    ParseSyntaxError: Invalid metadata variable property, 'ttype', in <standard input>332    >>> Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext()))333    Traceback (most recent call last):334    ParseSyntaxError: Required property, 'units', missing, in <standard input>335    >>> Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'inout', 'constant' : '.true.'}, ParseSource('vname', 'SCHEME', ParseContext())) #doctest: +IGNORE_EXCEPTION_DETAIL336    Traceback (most recent call last):337    ParseSyntaxError: foo is marked constant but is intent inout, at <standard input>:1338    >>> Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'ino'}, ParseSource('vname', 'SCHEME', ParseContext())) #doctest: +IGNORE_EXCEPTION_DETAIL339    Traceback (most recent call last):340    ParseSyntaxError: Invalid intent variable property, 'ino', at <standard input>:1341    """342    # __spec_props are for variables defined in a specification343    __spec_props = [VariableProperty('local_name', str,344                                     check_fn_in=check_fortran_ref),345                    VariableProperty('standard_name', str,346                                     check_fn_in=check_cf_standard_name),347                    VariableProperty('long_name', str, optional_in=True,348                                     default_fn_in=standard_name_to_long_name),349                    VariableProperty('units', str),350                    VariableProperty('dimensions', list,351                                     check_fn_in=check_dimensions),352                    VariableProperty('type', str,353                                     check_fn_in=check_fortran_type),354                    VariableProperty('kind', str,355                                     optional_in=True,356                                     default_fn_in=default_kind_val),357                    VariableProperty('state_variable', bool,358                                     optional_in=True, default_in=False),359                    VariableProperty('constant', bool,360                                     optional_in=True, default_in=False),361                    VariableProperty('allocatable', bool,362                                     optional_in=True, default_in=False),363                    VariableProperty('persistence', str, optional_in=True,364                                     valid_values_in=['timestep', 'run'],365                                     default_in='timestep'),366                    VariableProperty('active', str, optional_in=True,367                                     default_in='.true.')]368    # __var_props contains properties which are not in __spec_props369    __var_props = [VariableProperty('optional', bool,370                                     optional_in=True, default_in=False),371                   VariableProperty('intent', str,372                                    valid_values_in=['in', 'out', 'inout'])]373    __spec_propdict = {}374    __var_propdict = {}375    __required_spec_props = list()376    __required_var_props = list()377    for p in __spec_props:378        __spec_propdict[p.name] = p379        __var_propdict[p.name] = p380        if not p.optional:381            __required_spec_props.append(p.name)382            __required_var_props.append(p.name)383        # End if384    # End for385    for p in __var_props:386        __var_propdict[p.name] = p387        if not p.optional:388            __required_var_props.append(p.name)389        # End if390    # End for391    def __init__(self, prop_dict, source, invalid_ok=False, logger=None):392        """NB: invalid_ok=True is dangerous because it allows creation393        of a Var object with invalid properties.394        In order to prevent silent failures, invalid_ok requires a logger395        in order to take effect."""396        if source.type == 'SCHEME':397            required_props = Var.__required_var_props398            master_propdict = Var.__var_propdict399        else:400            required_props = Var.__required_spec_props401            master_propdict = Var.__spec_propdict402        # End if403        self._source = source404        # Grab a frozen copy of the context405        self._context = ParseContext(context=source.context)406        # First, check the input407        if 'ddt_type' in prop_dict:408            # Special case to bypass normal type rules409            if 'type' not in prop_dict:410                prop_dict['type'] = prop_dict['ddt_type']411            # End if412            if 'units' not in prop_dict:413                prop_dict['units'] = ""414            # End if415            prop_dict['kind'] = prop_dict['ddt_type']416            del prop_dict['ddt_type']417        # End if418        for key in prop_dict:419            if Var.get_prop(key) is None:420                raise ParseSyntaxError("Invalid metadata variable property, '{}'".format(key), context=self.context)421            # End if422        # End for423        # Make sure required properties are present424        for propname in required_props:425            if propname not in prop_dict:426                if invalid_ok and (logger is not None):427                    ctx = context_string(self.context)428                    logger.warning("Required property, '{}', missing{}".format(propname, ctx))429                else:430                    raise ParseSyntaxError("Required property, '{}', missing".format(propname), context=self.context)431                # End if432            # End if433        # End for434        # Check for any mismatch435        if ('constant' in prop_dict) and ('intent' in prop_dict):436            if prop_dict['intent'].lower() != 'in':437                if invalid_ok and (logger is not None):438                    ctx = context_string(self.context)439                    logger.warning("{} is marked constant but is intent {}{}".format(prop_dict['local_name'], prop_dict['intent'], ctx))440                else:441                    raise ParseSyntaxError("{} is marked constant but is intent {}".format(prop_dict['local_name'], prop_dict['intent']), context=self.context)442                # End if443            # End if444        # End if445        # Steal dict from caller446        self._prop_dict = prop_dict447        # Fill in default values for missing properties448        for propname in master_propdict:449            if (propname not in prop_dict) and master_propdict[propname].optional:450                self._prop_dict[propname] = master_propdict[propname].get_default_val(self._prop_dict, context=self.context)451            # End if452        # End for453        # Make sure all the variable values are valid454        try:455            for prop in self._prop_dict.keys():456                check = Var.get_prop(prop).valid_value(self._prop_dict[prop],457                                                       error=True)458            # End for459        except CCPPError as cp:460            if invalid_ok and (logger is not None):461                ctx = context_string(self.context)462                logger.warning("{}: {}{}".format(self._prop_dict['local_name'], cp, ctx))463            else:464                raise ParseSyntaxError("{}: {}".format(self._prop_dict['local_name'], cp),465                                       context=self.context)466            # End if467        # End try468    def compatible(self, other, logger=None):469        # We accept character(len=*) as compatible with character(len=INTEGER_VALUE)470        stype =     self.get_prop_value('type')471        skind =     self.get_prop_value('kind')472        sunits =    self.get_prop_value('units')473        srank=      self.get_prop_value('tank')474        sstd_name = self.get_prop_value('standard_name')475        otype =     other.get_prop_value('type')476        okind =     other.get_prop_value('kind')477        ounits =    other.get_prop_value('units')478        orank=      other.get_prop_value('tank')479        ostd_name = other.get_prop_value('standard_name')480        if stype == 'character':481            kind_eq = ((skind == okind) or482                       (skind == 'len=*' and okind.startswith('len=')) or483                       (skind.startswith('len=') and okind == 'len=*'))484        else:485            kind_eq = skind == okind486        # End if487        if ((sstd_name == ostd_name) and kind_eq and488            (sunits == ounits) and (stype == otype) and (srank == orank)):489            return True490        elif logger is not None:491            if sstd_name != ostd_name:492                logger.info("standard_name: '{}' != '{}'".format(sstd_name, ostd_name))493            elif not kind_eq:494                logger.info("kind: '{}' != '{}'".format(skind, okind))495            elif sunits != ounits:496                logger.info("units: '{}' != '{}'".format(sunits, ounits))497            elif stype != otype:498                logger.info("type: '{}' != '{}'".format(stype, otype))499            elif srank != orank:500                logger.info("rank: '{}' != '{}'".format(srank, orank))501            else:502                logger.error('Why are these variables not compatible?')503            # End if504            return False505        else:506            return False507        # End if508    @classmethod509    def get_prop(cls, name, spec_type=None):510        if (spec_type is None) and (name in Var.__var_propdict):511            return Var.__var_propdict[name]512        elif (spec_type is not None) and (name in Var.__spec_propdict):513            return Var.__spec_propdict[name]514        else:515            return None516    def get_prop_value(self, name):517        if name in self._prop_dict:518            return self._prop_dict[name]519        else:520            return None521    @property522    def context(self):523        return self._context524    @property525    def source(self):526        return self._source527    @classmethod528    def loop_subst_dims(cls, dims):529        newdims = list()530        for dim in dims:531            # loop_subst_match swallows an entire dim string, even ranges532            ldim = VarDictionary.loop_subst_match(dim)533            if ldim is None:534                newdims.append(dim)535            else:536                newdims.append(ldim)537            # End if538        # End for539        return newdims540    def get_dimensions(self, loop_subst=False):541        "Return the variable's dimension string"542        dimval = self.get_prop_value('dimensions')543        dims = Var.get_prop('dimensions').valid_value(dimval)544        if loop_subst:545            newdims = loop_subst_dims(dims)546        else:547            newdims = dims548        # End if549        return newdims550    def write_def(self, outfile, indent, dict, allocatable=False, loop_subst=False):551        '''Write the definition line for the variable.'''552        vtype = self.get_prop_value('type')553        kind = self.get_prop_value('kind')554        name = self.get_prop_value('local_name')555        dims = self.get_dimensions(loop_subst=loop_subst)556        if (dims is not None) and (len(dims) > 0):557            if allocatable:558                dimstr = '(:' + ',:'*(len(dims) - 1) + ')'559            else:560                dimstr = '('561                comma = ''562                for dim in dims:563                    # Only ranges or sizes go into declaration564                    if VarDictionary.loop_var_match(dim):565                        continue566                    else:567                        dstdnames = dim.split(':')568                        dvars = [dict.find_variable(x) for x in dstdnames]569                        if None in dvars:570                            for dim in dstdnames:571                                if dict.find_variable(dim) is None:572                                    raise CCPPError("No variable found for '{}'".format(dim))573                                # End if574                            # End for575                        # End if576                        dnames = [x.get_prop_value('local_name') for x in dvars]577                        dimstr = dimstr + comma + ':'.join(dnames)578                        comma = ', '579                    # End if580                # End for581                dimstr = dimstr + ')'582                if dimstr == '()':583                    dimstr = '' # It ends up being a scalar reference584                # End if585            # End if586        else:587            dimstr = ''588        # End if589        constant = self.get_prop_value('constant')590        intent = self.get_prop_value('intent')591        if constant and allocatable:592            raise CCPPError('Cannot create allocatable variable from constant, {}'.format(name))593        # End if594        if constant:595            intent_str = 'intent(in)   '596        elif allocatable:597            if len(dimstr) > 0:598                intent_str = 'allocatable  '599            else:600                intent_str = ' '*13601            # End if602        elif intent is not None:603            intent_str = 'intent({}){}'.format(intent, ' '*(5 - len(intent)))604        else:605            intent_str = ' '*13606        # End if607        if self.is_ddt():608            str = "type({kind}){cspc}{intent} :: {name}{dims}"609            cspc = ',' + ' '*(13 - len(kind))610        else:611            if (kind is not None) and (len(kind) > 0):612                str = "{type}({kind}){cspc}{intent} :: {name}{dims}"613                cspc = ',' + ' '*(17 - len(vtype) - len(kind))614            else:615                str = "{type}{cspc}{intent} :: {name}{dims}"616                cspc = ',' + ' '*(19 - len(vtype))617            # End if618        # End if619        outfile.write(str.format(type=vtype, kind=kind, intent=intent_str,620                                 name=name, dims=dimstr, cspc=cspc), indent)621    def is_ddt(self):622        '''Return True iff <self> is a DDT type.'''623        vtype = self.get_prop_value('type')624        return registered_fortran_ddt_name(vtype) is not None625    def host_arg_str(self, hvar, host_model, ddt):626        '''Create the proper statement of a piece of a host-model variable.627        If ddt is True, we can only have a single element selected628        '''629        hstr = hvar.get_prop_value('local_name')630        # Turn the dimensions string into a proper list and take the correct one631        hdims = hvar.get_dimensions()632        dimsep = ''633        # Does the local name have any extra indices?634        match = array_ref_re.match(hstr.strip())635        if match is not None:636            hstr = match.group(1)637            # Find real names for all the indices638            tokens = [x.strip() for x in match.group(2).strip().split(',')]639            for token in tokens:640                hsdim = self.find_host_model_var(token, host_model)641                dimstr = dimstr + dimsep + hsdim642            # End for643        # End if644        if len(hdims) > 0:645            dimstr = '('646        else:647            dimstr = ''648        # End if649        for hdim in hdims:650            if ddt and (':' in hdim):651                raise CCPPError("Invalid DDT dimension spec {}({})".format(hstr, hdimval))652            else:653                # Find the host model variable for each dim654                hsdims = self.find_host_model_var(hdim, host_model)655                dimstr = dimstr + dimsep + hsdims656                dimsep = ', '657            # End if658        # End for659        if len(hdims) > 0:660            dimstr = dimstr + ')'661        # End if662        return hstr + dimstr663    def print_debug(self):664        '''Print the data retrieval line for the variable.'''665        str='''Contents of {local_name} (* = mandatory for compatibility):666        standard_name = {standard_name} *667        long_name     = {long_name}668        units         = {units} *669        local_name    = {local_name}670        type          = {type} *671        dimensions    = {dimensions} *672        kind          = {kind} *673'''674        if 'intent' in self.__spec_propdict.keys():675            str += '        intent        = {intent}\n'676        if 'optional' in self.__spec_propdict.keys():677            str += '        optional      = {optional}\n'678        if self._context is not None:679            str += '        context       = {}'.format(self._context)680        # End if681        return str.format(**self._prop_dict)682    def __str__(self):683        '''Print representation or string for Var objects'''684        return "<Var {standard_name}: {local_name}>".format(**self._prop_dict)685    def __repr__(self):686        '''Object representation for Var objects'''687        base = super(Var, self).__repr__()688        pind = base.find(' object ')689        if pind >= 0:690            pre = base[0:pind]691        else:692            pre = '<Var'693        # End if694        bind = base.find('at 0x')695        if bind >= 0:696            post = base[bind:]697        else:698            post = '>'699        # End if700        return '{} {}: {} {}'.format(pre, self._prop_dict['standard_name'], self._prop_dict['local_name'], post)701###############################################################################702class VarSpec(object):703    """A class to hold a standard_name description of a variable.704    A scalar variable is just a standard name while an array also705    contains a comma-separated list of dimension standard names in parentheses.706    """707    def __init__(self, var, loop_subst=False):708        self._name = var.get_prop_value('standard_name')709        self._dims = var.get_dimensions(loop_subst=loop_subst)710        if len(self._dims) == 0:711            self._dims = None712        # End if713    @property714    def name(self):715        return self._name716    def get_dimensions(self, loop_subst=False):717        if loop_subst:718            rdims = Var.loop_subst_dims(dims)719        else:720            rdims = dims721        # End if722        return rdims723    def __repr__(self):724        if self._dims is not None:725            return "{}({})".format(self._name, ', '.join(self._dims))726        else:727            return self._name728        # End if729###############################################################################730class VarDDT(Var):731    """A class to store a variable that is a component of a DDT (at any732    DDT nesting level).733    """734    def __init__(self, standard_name, var_ref_list, logger=None):735        self._standard_name = standard_name736        self._var_ref_list = list()737        for var in var_ref_list:738            self._var_ref_list.append(var)739        # End for740        self._vlen = len(self._var_ref_list)741        if logger is not None:742            lnames = [x.get_prop_value('local_name') for x in self._var_ref_list]743            logger.debug('Adding DDT field, {}, {}'.format(standard_name, lnames))744        # End if745    def compatible(self, other, logger=None):746        "Compare <other> to the intrinsic variable the end of the DDT chain"747        self._var_ref_list[-1].compare(other)748    def get_prop_value(self, name, index=0):749        "Return the indicated property value, defauling to the top-level DDT"750        if abs(index) >= self._vlen:751            raise ParseInternalError("VarDDT.get_prop_value index ({}) out of range".format(index))752        # End if753        return self._var_ref_list[index].get_prop_value(name)754    @property755    def context(self):756        "Return the context of the variable source (DDT root)"757        return self._var_ref_list[0].context758    @property759    def source(self):760        "Return the source of the variable source (DDT root)"761        return self._var_ref_list[0].source762    def get_dimensions(self, loop_subst=False, index=0):763        "Return the dimensions of the indicated var, defauling to the top-level DDT"764        if abs(index) >= self._vlen:765            raise ParseInternalError("VarDDT.get_prop_value index ({}) out of range".format(index))766        # End if767        return self._var_ref_list[index].get_dimensions(loop_subst)768    def write_def(self, outfile, indent, dict, allocatable=False, loop_subst=False):769        '''Write the definition line for the variable.'''770        pass771    def is_ddt(self):772        '''Return True iff <self> is a DDT type.'''773        return True774    def host_arg_str(self, hvar, host_model, ddt):775        '''Create the proper statement of a piece of a host-model variable.776        If ddt is True, we can only have a single element selected777        '''778        pass779    def print_debug(self):780        for var in self._var_ref_list:781            var.print(debug)782        # End for783    def __repr__(self):784        '''Print representation or string for VarDDT objects'''785        return "<{}>".format('%'.join([x.__repr__() for x in self._var_ref_list]))786###############################################################################787class VarDictionary(OrderedDict):788    """789    A class to store and cross-check variables from one or more metadata790    headers. The class also serves as a scoping construct so that a variable791    can be found in an innermost available scope.792    The dictionary is organized by standard_name. It is an error to try793    to add a variable if its standard name is already in the dictionary.794    Scoping is a tree of VarDictionary objects.795    >>> VarDictionary('foo')796    VarDictionary(foo)797    >>> VarDictionary('bar', variables={})798    VarDictionary(bar)799    >>> VarDictionary('baz', Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext()))) #doctest: +ELLIPSIS800    VarDictionary(baz, [('hi_mom', <__main__.Var hi_mom: foo at 0x...>)])801    >>> print("{}".format(VarDictionary('baz', Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext())))))802    VarDictionary(baz, ['hi_mom'])803    >>> VarDictionary('qux', [Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext()))]) #doctest: +ELLIPSIS804    VarDictionary(qux, [('hi_mom', <__main__.Var hi_mom: foo at 0x...>)])805    >>> VarDictionary('boo').add_variable(Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext())))806    >>> VarDictionary('who', variables=[Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext()))]).prop_list('local_name')807    ['foo']808    >>> VarDictionary('glitch', Var({'local_name' : 'foo', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname', 'SCHEME', ParseContext()))).add_variable(Var({'local_name' : 'bar', 'standard_name' : 'hi_mom', 'units' : 'm/s', 'dimensions' : '()', 'type' : 'real', 'intent' : 'in'}, ParseSource('vname2', 'DDT', ParseContext()))) #doctest: +IGNORE_EXCEPTION_DETAIL809    Traceback (most recent call last):810    ParseSyntaxError: Invalid Duplicate standard name, 'hi_mom', at <standard input>:811    """812    # Loop variables813    __ccpp_loop_vars__ = ['horizontal_loop_begin', 'horizontal_loop_end',814                          'thread_block_number', 'horizontal_loop_extent']815    # Loop substitutions816    __ccpp_loop_subst__ = {'horizontal_loop_extent' :817                           ('horizontal_loop_begin', 'horizontal_loop_end'),818                           'thread_block_begin:thread_block_end' :819                           'thread_block_number'}820    # Dimension substitutions821    __ccpp_dim_subst__ = {'horizontal_loop_extent' : 'horizontal_dimension'}822    # Variable representing the constant integer, 1823    __var_one = Var({'local_name' : 'ccpp_one', 'constant' : 'True',824                     'standard_name' : 'ccpp_constant_one',825                     'units' : '1', 'dimensions' : '()', 'type' : 'integer'},826                    ParseSource('VarDictionary', 'REGISTRY', ParseContext()))827    def __init__(self, name, variables=None, parent_dict=None, logger=None):828        "Unlike dict, VarDictionary only takes a Var or Var list"829        super(VarDictionary, self).__init__()830        self._name = name831        self._logger = logger832        self._parent_dict = parent_dict833        if parent_dict is not None:834            parent_dict.add_sub_scope(self)835        # End if836        self._sub_dicts = list()837        if isinstance(variables, Var):838            self.add_variable(variables)839        elif isinstance(variables, list):840            for var in variables:841                self.add_variable(var)842            # End for843        elif isinstance(variables, VarDictionary):844            for stdname in variables.keys():845                self[stdname] = variables[stdname]846            # End for847        elif isinstance(variables, dict):848            # variables will not be in 'order', but we accept them anyway849            for stdname in variables.keys():850                self[stdname] = variables[stdname]851            # End for852        elif variables is not None:853            raise ParseInternalError('Illegal type for variables, {} in {}'.format(type(variables), self.name))854        # End if855    @property856    def name(self):857        return self._name858    @property859    def parent(self):860        return self._parent_dict861    def include_var_in_list(self, var, std_vars, loop_vars, consts):862        '''Return True iff <var> is of a type allowed by the logicals,863        <std_vars> (not constants or loop_vars),864        <loop_vars> a variable ending in "_extent", "_begin", "_end", or865        <consts> a variable with the "constant" property.866        '''867        const_val = var.get_prop_value('constant')868        const_var = Var.get_prop('constant').valid_value(const_val)869        include_var = consts and const_var870        if not include_var:871            standard_name = var.get_prop_value('standard_name')872            loop_var = VarDictionary.loop_var_match(standard_name)873            include_var = loop_var and loop_vars874            if not include_var:875                std_var = not (loop_var or const_var)876                include_var = std_vars and std_var877            # End if878        # End if879        return include_var880    def variable_list(self, recursive=False,881                      std_vars=True, loop_vars=True, consts=True):882        "Return a list of all variables"883        if recursive and (self._parent_dict is not None):884            vlist = self._parent_dict.variable_list(recursive=recursive,885                                                    std_vars=std_vars,886                                                    loop_vars=loop_vars,887                                                    consts=consts)888        else:889            vlist = list()890        # End if891        for sn in self.keys():892            var = self[sn]893            if self.include_var_in_list(var, std_vars=std_vars,894                                        loop_vars=loop_vars, consts=consts):895                vlist.append(var)896            # End if897        # End for898        return vlist899    def add_variable(self, newvar, exists_ok=False):900        """Add a variable if it does not conflict with existing entries"""901        standard_name = newvar.get_prop_value('standard_name')902        if (standard_name in self) and (not exists_ok):903            # We already have a matching variable, error!904            if self._logger is not None:905                self._logger.error("Attempt to add duplicate variable, {} from {}".format(standard_name, newvar.source.name))906            # End if907            raise ParseSyntaxError("Duplicate standard name in {}".format(self.name),908                                   token=standard_name, context=newvar._context)909        # End if910        cvar = self.find_variable(standard_name)911        if (cvar is not None) and (not cvar.compatible(newvar, self._logger)):912            if self._logger is not None:913                self._logger.error("Attempt to add incompatible variable, {} from {}".format(standard_name, newvar.source.name))914            # End if915            errstr = "standard name, incompatible with {}"916            raise ParseSyntaxError(errstr.format(cvar.context),917                                   token=standard_name,918                                   context=newvar.source.context)919        # End if920        # If we make it to here without an exception, add the variable921        self[standard_name] = newvar922    def remove_variable(self, standard_name):923        """Remove <standard_name> from the dictionary.924        Ignore if <standard_name> is not in dict925        """926        if standard_name in self:927            del self[standard_name]928        # End if929    def find_variable(self, standard_name, any_scope=True, loop_subst=False):930        """Return the variable matching <standard_name> or None931        If any_scope is True, search parent scopes if not in current scope.932        """933        if standard_name in self:934            var = self[standard_name]935        elif any_scope and (self._parent_dict is not None):936            var = self._parent_dict.find_variable(standard_name, any_scope)937        else:938            var = None939        # End if940        if (var is None) and loop_subst:941            var = self.find_loop_subst(standard_name, any_scope=any_scope)942        # End if943        return var944    def add_sub_scope(self, sub_dict):945        'Add a child dictionary to enable traversal'946        self._sub_dicts.append(sub_dict)947    def prop_list(self, prop_name, std_vars=True, loop_vars=True, consts=True):948        '''Return a list of the <prop_name> property for each variable.949        std_vars are variables which are neither constants nor loop variables.950        '''951        plist = list()952        for standard_name in self.keys():953            var = self.find_variable(standard_name, any_scope=False, loop_subst=False)954            if self.include_var_in_list(var, std_vars=std_vars, loop_vars=loop_vars, consts=consts):955                plist.append(self[standard_name].get_prop_value(prop_name))956            # End if957        # End for958        return plist959    def declare_variables(self, outfile, indent,960                          std_vars=True, loop_vars=True, consts=True):961        "Write out the declarations for this dictionary's variables"962        for standard_name in self.keys():963            var = self.find_variable(standard_name, any_scope=False, loop_subst=False)964            if self.include_var_in_list(var, std_vars=std_vars, loop_vars=loop_vars, consts=consts):965                self[standard_name].write_def(outfile, indent, self)966            # End if967        # End for968    def merge(self, other_dict):969        "Add new entries from <other_dict>"970        for ovar in other_dict.variable_list():971            self.add_variable(ovar)972        # End for973    def __str__(self):974        return "VarDictionary({}, {})".format(self.name, self.keys())975    def __repr__(self):976        srepr = super(VarDictionary, self).__repr__()977        vstart = len("VarDictionary") + 1978        if len(srepr) > vstart + 1:979            comma = ", "980        else:981            comma = ""982        # End if983        return "VarDictionary({}{}{}".format(self.name, comma, srepr[vstart:])984    def __del__(self):985        try:986            for key in self.keys():987                del self[key]988            # End for989        except Exception as e:990            pass # python does not guarantee object state during finalization991        # End try992    @classmethod993    def loop_var_match(cls, standard_name):994        'Return True iff <standard_name> is a loop variable'995        return standard_name in cls.__ccpp_loop_vars__996    @classmethod997    def loop_subst_match(cls, standard_name):998        'Return a loop substitution match, if any, for <standard_name>'999        if standard_name in cls.__ccpp_loop_subst__:1000            return cls.__ccpp_loop_subst__[standard_name]1001        else:1002            return None1003        # End if1004    def find_loop_subst(self, standard_name, any_scope=True, context=None):1005        """If <standard_name> is of the form <standard_name>_extent and that1006        variable is not in the dictionary, substitute a tuple of variables,1007        (<standard_name>_begin, <standard_name>_end), if those variables are1008        in the dictionary.1009        If <standard_name>_extent *is* present, return that variable as a1010        range, (__var_one, <standard_name>_extent)1011        In other cases, return None1012        """1013        loop_var = VarDictionary.loop_subst_match(standard_name)1014        logger_str = None1015        if loop_var is not None:1016            # Let us see if we can fix a loop variable1017            dict_var = self.find_variable(standard_name,1018                                          any_scope=any_scope, loop_subst=False)1019            if dict_var is not None:1020                my_var = (VarDictionary.__var_one, dict_var)1021                if self._logger is not None:1022                    logger_str = "loop_subst: found {}{}".format(standard_name, context_string(context))1023                # End if1024            else:1025                my_vars = [self.find_variable(x) for x in loop_var]1026                if None not in my_vars:1027                    my_var = tuple(my_vars)1028                    if self._logger is not None:1029                        names = [x.get_prop_value('local_name') for x in my_vars]1030                        logger_str = "loop_subst: {} ==> (){}".format(standard_name, ', '.join(names), context_string(context))1031                    # End if1032                else:1033                    if self._logger is not None:1034                        logger_str = "loop_subst: {} ==> ({}, {}) FAILED{}".format(standard_name, beg_name, end_name, context_string(context))1035                    # End if1036                    my_var = None1037                # End if1038            # End if1039        else:1040            if self._logger is not None:1041                logger_str = "loop_subst: {} is not a loop variable{}".format(standard_name, context_string(context))1042            # End if1043            my_var = None1044        # End if1045        if logger_str is not None:1046            self._logger.debug(logger_str)1047        # End if1048        return my_var1049    def find_dimension_subst(self, standard_name, any_scope=True, context=None):1050        """If <standard_name> is of the form <standard_name>_loop_extent1051        attempt to find a variable of the form <standard_name>_dimension1052        and return that. If such a variable is not found, raise an exception.1053        If <standard_name> is not of the form <standard_name>_extent, return1054        None.1055        """1056        loop_var = standard_name in VarDictionary.__ccpp_dim_subst__1057        logger_str = None1058        if loop_var:1059            # Let us see if we can replace the variable1060            dim_name = VarDictionary.__ccpp_dim_subst__[standard_name]1061            my_var = self.find_variable(dim_name, any_scope=any_scope)1062            if my_var is None:1063                raise CCPPError("Dimension variable, {} not found{}".format(dim_name, context_string(context)))1064            # End if1065        else:1066            my_var = None1067        # End if1068        return my_var1069###############################################################################1070if __name__ == "__main__":1071    import doctest...
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