def get_response_content(fs):
"""
@param fs: a FieldStorage object containing the cgi arguments
@return: the response
"""
# get the texts
tikz_fiedler = get_tikz_text('\n'.join(get_fiedler_tikz_lines()))
tikz_t1 = get_tikz_text('\n'.join(get_t1_tikz_lines()))
tikz_t2 = get_tikz_text('\n'.join(get_t2_tikz_lines()))
tikz_t3 = get_tikz_text('\n'.join(get_t3_tikz_lines()))
tikz_t4 = get_tikz_text('\n'.join(get_t4_tikz_lines()))
tikz_fail = get_tikz_text('\n'.join(get_fail_tikz_lines()))
tikz_success = get_tikz_text('\n'.join(get_success_tikz_lines()))
subfloat_pictures = [
tikz_fiedler, tikz_t1, tikz_t2, tikz_t3, tikz_t4, tikz_fail,
tikz_success
]
# return the response
figure_body = '\n'.join(get_float_figure_lines(subfloat_pictures))
packages = ('tikz', 'subfig')
preamble = ''
return latexutil.get_centered_figure_response(figure_body, fs.latexformat,
g_figure_caption,
g_figure_label, packages,
preamble)
def get_figure_response(tikzpicture,
tikzformat,
figure_caption,
figure_label,
packages=(),
preamble=''):
"""
@param tikzpicture: a complete tikzpicture environment
@param tikzformat: one of four tikz output formats
@param figure_caption: figure caption
@param figure_label: figure label
@param packages: a collection of requested packages
@param preamble: color definitions, for example
@return: a response suitable to return from the get_response interface
"""
# check the requested format
assert_tikzformat(tikzformat)
# immediately return the tikzpicture if requested
if tikzformat == TIKZFORMAT_TIKZ:
return tikzpicture
# delegate to latexutil
requested_packages = set(packages) | set(['tikz'])
return latexutil.get_centered_figure_response(tikzpicture, tikzformat,
figure_caption, figure_label,
requested_packages, preamble)
def get_latex_response(scaling_factor, latexformat):
figure_body_lines = [
'\\subfloat[]{\\label{fig:without-deep-vertex}',
get_tikz_text(g_tree_a, scaling_factor), '}',
'\\subfloat[]{\\label{fig:with-deep-vertex}',
get_tikz_text(g_tree_b, scaling_factor), '}'
]
figure_body = '\n'.join(figure_body_lines)
packages = ['tikz', 'subfig']
preamble = ''
return latexutil.get_centered_figure_response(figure_body, latexformat,
g_figure_caption,
g_figure_label, packages,
preamble)
def get_latex_response(scaling_factor, latexformat):
figure_body_lines = [
"\\subfloat[]{\\label{fig:without-deep-vertex}",
get_tikz_text(g_tree_a, scaling_factor),
"}",
"\\subfloat[]{\\label{fig:with-deep-vertex}",
get_tikz_text(g_tree_b, scaling_factor),
"}",
]
figure_body = "\n".join(figure_body_lines)
packages = ["tikz", "subfig"]
preamble = ""
return latexutil.get_centered_figure_response(
figure_body, latexformat, g_figure_caption, g_figure_label, packages, preamble
)
def get_response_content(fs):
"""
@param fs: a FieldStorage object containing the cgi arguments
@return: the response
"""
T, B, N = FtreeIO.newick_to_TBN(fs.tree_string)
# sanitize taxon labels if requested
if fs.sanitization:
for v in N:
N[v] = latexutil.sanitize(N[v])
# scale branch lengths so the diameter is 1
diameter = np.max(Ftree.TB_to_D(T, B, Ftree.T_to_leaves(T)))
# scale the branch lengths
for u_edge in T:
B[u_edge] /= diameter
info = FigureInfo(T, B, N, fs.label_mode)
# get the texts
tikz_bodies = [
info.get_tikz_tree(fs.tree_layout),
info.get_tikz_MDS_full(),
info.get_tikz_MDS_partial(),
info.get_tikz_MDS_harmonic(),
]
tikz_pictures = []
for b in tikz_bodies:
tikzpicture = tikz.get_picture(b, 'auto', scale=fs.scaling_factor)
tikz_pictures.append(tikzpicture)
figure_body = '\n'.join([
'\\subfloat[]{',
tikz_pictures[0],
'}',
'\\subfloat[]{',
tikz_pictures[1],
'} \\\\',
'\\subfloat[]{',
tikz_pictures[2],
'}',
'\\subfloat[]{',
tikz_pictures[3],
'}',
])
packages = ['tikz', 'subfig']
preamble = ''
figure_caption = None
figure_label = None
return latexutil.get_centered_figure_response(
figure_body, fs.latexformat, figure_caption, figure_label,
packages, preamble)
def get_figure_response(
tikzpicture, tikzformat, figure_caption, figure_label,
packages=(), preamble=''):
"""
@param tikzpicture: a complete tikzpicture environment
@param tikzformat: one of four tikz output formats
@param figure_caption: figure caption
@param figure_label: figure label
@param packages: a collection of requested packages
@param preamble: color definitions, for example
@return: a response suitable to return from the get_response interface
"""
# check the requested format
assert_tikzformat(tikzformat)
# immediately return the tikzpicture if requested
if tikzformat == TIKZFORMAT_TIKZ:
return tikzpicture
# delegate to latexutil
requested_packages = set(packages) | set(['tikz'])
return latexutil.get_centered_figure_response(
tikzpicture, tikzformat, figure_caption, figure_label,
requested_packages, preamble)
def get_response_content(fs):
"""
@param fs: a FieldStorage object containing the cgi arguments
@return: the response
"""
# get the texts
tikz_fiedler = get_tikz_text('\n'.join(get_fiedler_tikz_lines()))
tikz_t1 = get_tikz_text('\n'.join(get_t1_tikz_lines()))
tikz_t2 = get_tikz_text('\n'.join(get_t2_tikz_lines()))
tikz_t3 = get_tikz_text('\n'.join(get_t3_tikz_lines()))
tikz_t4 = get_tikz_text('\n'.join(get_t4_tikz_lines()))
tikz_fail = get_tikz_text('\n'.join(get_fail_tikz_lines()))
tikz_success = get_tikz_text('\n'.join(get_success_tikz_lines()))
subfloat_pictures = [
tikz_fiedler,
tikz_t1, tikz_t2, tikz_t3, tikz_t4,
tikz_fail, tikz_success]
# return the response
figure_body = '\n'.join(get_float_figure_lines(subfloat_pictures))
packages = ('tikz', 'subfig')
preamble = ''
return latexutil.get_centered_figure_response(
figure_body, fs.latexformat, g_figure_caption, g_figure_label,
packages, preamble)