def get_dictionary(dictionary_string, state_name, value_name, required_states):
"""
This high level function returns a mapping from states to floating point values.
Each required state is expected to have exactly one floating point value.
@param dictionary_string: a string of lines of text that each look something like 'A : 0.245'
@param state_name: something like 'amino acid'
@param value_name: something like 'energy'
@param required_states: a set of required states
@return: a dictionary mapping each state to a value
"""
# convert the multi-line string to a list of non-empty lines
lines = smallutil.get_stripped_lines(StringIO(dictionary_string))
# make sure that at least one line is non-empty
if not lines:
raise HandlingError('no %s to %s mapping was specified' %
(key_name, value_name))
d = {}
for line in lines:
state, value_string = get_state_value_pair(line)
if state not in required_states:
raise HandlingError('invalid %s: %s' % (state_name, state))
try:
value = float(value_string)
except ValueError:
raise HandlingError(
'this %s could not be interpreted as a number: %s' %
(value_name, value_string))
d[state] = value
# assert that each state was assigned a value
if len(d) < len(required_states):
raise HandlingError('one or more %s was not assigned a %s' %
(state_name, value_name))
return d
def docstring_to_title(docstring):
"""
@param docstring: something like __doc__
@return: the first line of the docstring as a title, or None
"""
# get lines of text without whitespace between lines
lines = smallutil.get_stripped_lines(StringIO(docstring))
if lines:
return lines[0]
else:
return None
def docstring_to_html(docstring):
"""
Convert the docstring to an html header.
@param docstring: something like __doc__
"""
# get lines of text without whitespace between lines
lines = smallutil.get_stripped_lines(StringIO(docstring))
# no docstring
if not lines:
return ''
# a single line docstring
if len(lines) == 1:
return lines[0]
# multiple lines
# the first line will be separated by an empty line
arr = []
arr.append(lines[0])
arr.append('<br/><br/>')
arr.extend(lines[1:])
return '\n'.join(arr)
def index(self):
out = StringIO()
self._init_form()
form_html = Form.get_html_string(self.form_objects)
print >> out, '<html>'
print >> out, '<head>'
title = SnippetUtil.docstring_to_title(self.module.__doc__)
if title:
print >> out, '<title>'
print >> out, title
print >> out, '</title>'
print >> out, FormHeaderJs.get_header_script_text(
self.form_objects,
self.form_presets)
print >> out, '</head>'
print >> out, '<body>'
lines = smallutil.get_stripped_lines(StringIO(self.module.__doc__))
if lines:
print >> out, lines[0]
else:
print >> out, gray_span('untitled')
print >> out, '<br/>'
print >> out, '<code>',
if self.source_link:
relative_link = '../' + self.source_link
print >> out, '<a href="%s">source code</a>' % relative_link
else:
print >> out, gray_span('source code')
print >> out, '</code>'
print >> out, '<br/><br/>'
print >> out
if len(lines) > 1:
print >> out, '<!-- long description -->'
for line in lines[1:]:
print >> out, line
print >> out, '<br/><br/>'
else:
print >> out, '<!-- no long description available -->'
print >> out
print >> out, '<!-- main form -->'
print >> out, '<div style="float: left;">'
print >> out, '<form id="mainform" action="process" method="post">'
if form_html:
print >> out, form_html
print >> out, '<br/><br/>'
print >> out, '<input type="submit" name="submit" value="view"/>'
print >> out, '<input type="submit" name="submit" value="download"/>'
print >> out, '<br/>'
print >> out, '</form>'
print >> out, '</div>'
print >> out
if self.form_presets:
print >> out, '<!-- preset configurations -->'
print >> out, '<div style="float: left;">'
print >> out, '<fieldset>'
print >> out, '<legend>preset configurations</legend>'
button_tags = []
default_preset = Form.get_default_preset(self.form_objects)
for i, preset in enumerate([default_preset] + self.form_presets):
tag = get_preset_button_tag(i, preset.description)
button_tags.append(tag)
print >> out, '<br/>\n'.join(button_tags)
print >> out, '</fieldset>'
print >> out, '</div>'
print >> out
print >> out, '</body>'
print >> out, '</html>'
return out.getvalue().rstrip()
def index(self):
out = StringIO()
self._init_form()
form_html = Form.get_html_string(self.form_objects)
print >> out, '<html>'
print >> out, '<head>'
title = SnippetUtil.docstring_to_title(self.module.__doc__)
if title:
print >> out, '<title>'
print >> out, title
print >> out, '</title>'
print >> out, FormHeaderJs.get_header_script_text(
self.form_objects, self.form_presets)
print >> out, '</head>'
print >> out, '<body>'
lines = smallutil.get_stripped_lines(StringIO(self.module.__doc__))
if lines:
print >> out, lines[0]
else:
print >> out, gray_span('untitled')
print >> out, '<br/>'
print >> out, '<code>',
if self.source_link:
relative_link = '../' + self.source_link
print >> out, '<a href="%s">source code</a>' % relative_link
else:
print >> out, gray_span('source code')
print >> out, '</code>'
print >> out, '<br/><br/>'
print >> out
if len(lines) > 1:
print >> out, '<!-- long description -->'
for line in lines[1:]:
print >> out, line
print >> out, '<br/><br/>'
else:
print >> out, '<!-- no long description available -->'
print >> out
print >> out, '<!-- main form -->'
print >> out, '<div style="float: left;">'
print >> out, '<form id="mainform" action="process" method="post">'
if form_html:
print >> out, form_html
print >> out, '<br/><br/>'
print >> out, '<input type="submit" name="submit" value="view"/>'
print >> out, '<input type="submit" name="submit" value="download"/>'
print >> out, '<br/>'
print >> out, '</form>'
print >> out, '</div>'
print >> out
if self.form_presets:
print >> out, '<!-- preset configurations -->'
print >> out, '<div style="float: left;">'
print >> out, '<fieldset>'
print >> out, '<legend>preset configurations</legend>'
button_tags = []
default_preset = Form.get_default_preset(self.form_objects)
for i, preset in enumerate([default_preset] + self.form_presets):
tag = get_preset_button_tag(i, preset.description)
button_tags.append(tag)
print >> out, '<br/>\n'.join(button_tags)
print >> out, '</fieldset>'
print >> out, '</div>'
print >> out
print >> out, '</body>'
print >> out, '</html>'
return out.getvalue().rstrip()