lib.warnings

1 from __future__ import absolute_import 2 ############################################################################### 3 # # 4 # Copyright (C) 2003-2014 Edward d'Auvergne # 5 # Copyright (C) 2014 Troels E. Linnet # 6 # # 7 # This file is part of the program relax (http://www.nmr-relax.com). # 8 # # 9 # This program is free software: you can redistribute it and/or modify # 10 # it under the terms of the GNU General Public License as published by # 11 # the Free Software Foundation, either version 3 of the License, or # 12 # (at your option) any later version. # 13 # # 14 # This program is distributed in the hope that it will be useful, # 15 # but WITHOUT ANY WARRANTY; without even the implied warranty of # 16 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the # 17 # GNU General Public License for more details. # 18 # # 19 # You should have received a copy of the GNU General Public License # 20 # along with this program. If not, see <http://www.gnu.org/licenses/>. # 21 # # 22 ############################################################################### 23 24 # Module docstring. 25 """Module containing all of the RelaxWarning objects.""" 26 27 # Python module imports. 28 import inspect 29 import sys 30 import warnings 31 32 # relax module imports. 33 from lib import ansi 34 35 36 # Module variables for changing the behaviour of the warning system. 37 ESCALATE = False # If True, warnings will be converted into errors. 38 TRACEBACK = False # If True, a traceback will be printed out with the warnings. 39 40 41 # The warning formatting function.

42 -def format(message, category, filename, lineno, line=None):

43 """Replacement for warnings.formatwarning to customise output format.""" 44 45 # Add the text 'RelaxWarning: ' to the start of the warning message. 46 message = "RelaxWarning: %s\n" % message 47 48 # Text colouring 49 if ansi.enable_control_chars(stream=2): 50 # Strip the last newline, if it exists. 51 if message[-1] == '\n': 52 message = message[:-1] 53 54 # Reformat. 55 message = "%s%s%s\n" % (ansi.relax_warning, message, ansi.end) 56 57 # Return the warning message. 58 return message

59 60

61 -def showwarning_tb(message, category, filename, lineno, file=None, line=None):

62 """Replacement for warnings.showwarning to show tracebacks.""" 63 64 # Set up the output file if needed. 65 if file is None: 66 file = sys.stderr 67 68 # Print the stack traceback. 69 tb = "" 70 for frame in inspect.stack()[1:]: 71 file_name = frame[1] 72 lineNo = frame[2] 73 func = frame[3] 74 tb_frame = ' File "%s", line %i, in %s\n' % (file_name, lineNo, func) 75 try: 76 context = frame[4][frame[5]] 77 except TypeError: 78 pass 79 else: 80 tb_frame = '%s %s\n' % (tb_frame, context.strip()) 81 tb = tb_frame + tb 82 tb = "Traceback (most recent call last):\n%s" % tb 83 file.write(tb) 84 85 # Replicating the failsafe mode of the base Python warnings function here. 86 try: 87 file.write(format(message, category, filename, lineno, line)) 88 except IOError: 89 pass

90 91

92 -def setup():

93 """Set up the warning system.""" 94 95 # Format warning messages. 96 warnings.formatwarning = format 97 98 # Tracebacks. 99 if TRACEBACK: 100 warnings.showwarning = showwarning_tb 101 102 # Set warning filters. 103 if ESCALATE: 104 warnings.filterwarnings('error', category=BaseWarning) 105 else: 106 warnings.filterwarnings('always', category=BaseWarning)

107 108 109 110 # Base class for all warnings. 111 ############################## 112

113 -class BaseWarning(Warning):

114 - def __str__(self):

115 return str(self.text)

116 117 118 # Standard warnings. 119 #################### 120

121 -class RelaxWarning(BaseWarning):

122 - def __init__(self, text):

123 self.text = text

124 125 126 # Sequence errors. 127 ################## 128 129 # Cannot find the spin in the sequence.

130 -class RelaxNoSpinWarning(BaseWarning):

131 - def __init__(self, spin_id):

132 self.text = "Cannot find the spin %s within the sequence." % spin_id

133 134 135 # PDB warnings. 136 ############### 137 138 # Zero length interactomic vector.

139 -class RelaxZeroVectorWarning(BaseWarning):

140 - def __init__(self, spin_id1, spin_id2):

141 self.text = "The interatomic vector between the spins '%s' and '%s' is of zero length." % (spin_id1, spin_id2)

142 143 144 # The atom is missing from the PDB file.

145 -class RelaxNoAtomWarning(BaseWarning):

146 - def __init__(self, atom, res):

147 self.text = "The atom %s could not be found for residue %i" % (atom, res)

148 149 150 # The PDB file is missing.

151 -class RelaxNoPDBFileWarning(BaseWarning):

152 - def __init__(self, file):

153 self.text = "The PDB file %s cannot be found, no structures will be loaded." % file

154 155 156 # Nuclear warnings. 157 ################### 158 159 # Nucleus not set.

160 -class RelaxNucleusWarning(BaseWarning):

161 - def __init__(self, spin_id=None):

162 if spin_id != None: 163 self.text = "The type of nucleus for the spin '%s' has not yet been set." % spin_id 164 else: 165 self.text = "The type of nucleus has not yet been set."

166 167 # Spin type not set.

168 -class RelaxSpinTypeWarning(BaseWarning):

169 - def __init__(self, spin_id=None):

170 if spin_id != None: 171 self.text = "The nuclear isotope type for the spin '%s' has not yet been set. Please use the spin.isotope user function to set the type." % spin_id 172 else: 173 self.text = "The nuclear isotope type has not yet been set. Please use the spin.isotope user function to set the type."

174 175 # File warnings. 176 ################ 177 178 # No data in file.

179 -class RelaxFileEmptyWarning(BaseWarning):

180 - def __init__(self, file):

181 self.text = "The file '%s' contains no data." % file

182 183 184 # Misc. 185 ####### 186 187 # Deselection warnings

188 -class RelaxDeselectWarning(BaseWarning):

189 - def __init__(self, spin_id, reason):

190 self.text = "The spin '%s' has been deselected because of %s." % (spin_id, reason)

191 192 193 # Spectrometer information warnings. 194 #################################### 195 196 # No frequency information.

197 -class RelaxNoFrqWarning(BaseWarning):

198 - def __init__(self, pipe_name=None, id=None):

199 self.text = "No spectrometer frequency information" 200 if id != None: 201 self.text += " for the '%s' experiment ID" % id 202 self.text += " is present" 203 if pipe_name != None: 204 self.text += " in the '%s' data pipe" % pipe_name 205 self.text += "."

206

Source Code for Module lib.warnings