def quadro_planejamento(self, planejamento_acoes):
with self.create(
LongTabu("|X[1,l]|X[3,l]|X[6,l]|")) as tabela_planejamento:
tabela_planejamento.add_hline()
tabela_planejamento.add_row(
(MultiColumn(3, align='|c|',
data=bold('Cronograma de Ações')), ))
tabela_planejamento.add_hline()
tabela_planejamento.add_row(
(bold('Prazo'), bold('Ação'), bold('Prioridade')))
tabela_planejamento.add_hline()
tabela_planejamento.end_table_header()
tabela_planejamento.add_hline()
tabela_planejamento.add_row(
(MultiColumn(3, align='|r|',
data='Continua na próxima página'), ))
tabela_planejamento.add_hline()
tabela_planejamento.end_table_footer()
tabela_planejamento.end_table_last_footer()
for acao in planejamento_acoes:
metas = acao['metas']
if not len(metas):
continue
col_meta = MultiRow(len(metas),
data=acao['prazo'].capitalize())
row = [col_meta, acao['acao'], '1. ' + metas[0]]
tabela_planejamento.add_row(row)
for meta in metas[1:]:
tabela_planejamento.add_row(
('', '', (str(metas.index(meta) + 1) + '. ' + meta)))
tabela_planejamento.add_hline()
def InsDatosEscolares(hasImage):
with self.doc.create(
Tabular(
NoEscape("m{0.8in}m{0.6in}m{0.9in}m{1.5in}m{2.3in}"))
) as table:
if hasImage:
image = MultiRow(
3,
data=Command(
"includegraphics",
NoEscape(self.data["Foto"]
[self.data["Foto"].rfind("/") +
1:][:self.data["Foto"].rfind(".")]),
["width=1.5in", "height=1in"]))
else:
image = ""
table.add_row(("", "", "", "", ""))
table.add_row(("", "", "", "", image))
table.add_row(
(bold("Matrícula: "), self.data["Matrícula"],
bold("Licenciatura: "), self.data["Licenciatura"], ""))
table.add_row(
(bold("Semestre: "), self.data["Semestre"],
bold("Generación: "), self.data["Generación"], ""))
def LED_report(self):
self.doc.append(NoEscape(r'\clearpage'))
with self.doc.create(Section('LEDs')):
with self.doc.create(Subsection('Description')):
self.doc.append(
'This test asserts the correct assembly of the 4 LEDs on RFFEuC\'s edge.\n'
)
self.doc.append(
'A large LDR (20mm) is positioned in front of all LEDs and is connected to one of the Analogic-to-Digital converter ports - routed through the TestBoard Jn connector.\n'
)
self.doc.append(
'Each LED is activated separately and the LDR voltage is read and compared to a predefined mask.\n'
)
with self.doc.create(Subsection('Results')):
with self.doc.create(Center()) as centered:
with centered.create(Tabular('|c|c|c|',
row_height=1.2)) as tbl:
tbl.add_hline()
tbl.add_row(bold('LED'), bold('LDR read [V]'),
bold('Result'))
tbl.add_hline()
for key, val in self.test_results['led'].items():
if isinstance(val, dict):
tbl.add_row(
bold(key), (val['value']),
('Pass' if val['result'] else 'Fail'),
color=('green'
if val['result'] else 'red'))
tbl.add_hline()
def PowerSupply_report(self):
self.doc.append(NoEscape(r'\clearpage'))
with self.doc.create(Section('Power Supply')):
with self.doc.create(Subsection('Description')):
self.doc.append(
'This test asserts the correct assembly of the Voltage regulation circuit.\n'
)
self.doc.append(
'Both power supply lines (5V and 3.3V) are tested using a simple voltage divider circuit present on the TestBoard. Given that the voltage divider provides a half of the real value to the RFFEuC ADC circuit, the following convertion is applied: \n'
)
with self.doc.create(Alignat(numbering=False,
escape=False)) as agn:
agn.append(r'V_{PS} = ADC_{read} * 3.3 * 2 \\')
with self.doc.create(Subsection('Results')):
with self.doc.create(Center()) as centered:
with centered.create(Tabular('|c|c|c|',
row_height=1.2)) as tbl:
tbl.add_hline()
tbl.add_row(bold('Power Supply'), bold('Measured [V]'),
bold('Result'))
tbl.add_hline()
for key, val in self.test_results['powerSupply'].items(
):
if isinstance(val, dict):
tbl.add_row(
bold(key + 'V'),
val['value'],
('Pass' if val['result'] else 'Fail'),
color=('green'
if val['result'] else 'red'))
tbl.add_hline()
def quadro_epis(self, fichas_exposicao):
with self.create(LongTabu("|X[l]|X[l]|")) as tabela_epi:
tabela_epi.add_hline()
tabela_epi.add_row(
(MultiColumn(2,
align='|c|',
data=bold('Quadro Demonstrativo de EPIs')), ))
tabela_epi.add_hline()
tabela_epi.add_row((bold('Função'), bold('EPIs Indicados')))
tabela_epi.add_hline()
tabela_epi.end_table_header()
tabela_epi.add_row(
(MultiColumn(2, align='|c|',
data='Continua na próxima página'), ))
tabela_epi.add_hline()
tabela_epi.end_table_footer()
tabela_epi.end_table_last_footer()
for ficha in fichas_exposicao:
epis = ficha['epis']
if not len(epis):
continue
col_cargo = MultiRow(len(epis), data=ficha['cargo'])
row = [col_cargo, epis[0]]
tabela_epi.add_row(row)
for epi in epis[1:]:
tabela_epi.add_row(('', epi))
tabela_epi.add_hline()
def create_platform_unit_legend():
rows = '|c|'
title_row = [bold('Metric')]
unit_row = [bold('Unit')]
rows2 = '|c|'
title_row2 = [bold('Metric')]
unit_row2 = [bold('Unit')]
i = 0
for metric in metrics.MetricLegends:
if i < 10:
rows += 'c|'
title_row.append(metrics.MetricLegends[metric]['name'])
unit_row.append(metrics.MetricLegends[metric]['unit'])
else:
rows2 += 'c|'
title_row2.append(metrics.MetricLegends[metric]['name'])
unit_row2.append(metrics.MetricLegends[metric]['unit'])
i += 1
table = Tabular(rows)
table.add_hline()
table.add_row(tuple(title_row))
table.add_hline()
table.add_row(tuple(unit_row))
table.add_hline()
table2 = Tabular(rows2)
table2.add_hline()
table2.add_row(tuple(title_row2))
table2.add_hline()
table2.add_row(tuple(unit_row2))
table2.add_hline()
return table, table2
def _document_init_params(self) -> None:
"""Add initialization parameters to the traceability document.
"""
with self.doc.create(Section("Parameters")):
model_ids = {
FEID(id(model))
for model in self.system.network.models
if isinstance(model, (tf.keras.Model, torch.nn.Module))
}
datasets = {
FEID(id(self.system.pipeline.data.get(title, None))):
(title, self.system.pipeline.data.get(title, None))
for title in ['train', 'eval', 'test']
}
for tbl in self.config_tables:
name_override = None
toc_ref = None
extra_rows = None
if issubclass(tbl.type, Estimator):
toc_ref = "Estimator"
if issubclass(tbl.type, BaseNetwork):
toc_ref = "Network"
if issubclass(tbl.type, Pipeline):
toc_ref = "Pipeline"
if tbl.fe_id in model_ids:
# Link to a later detailed model description
name_override = Hyperref(
Marker(name=str(tbl.name), prefix="subsec"),
text=NoEscape(r'\textcolor{blue}{') + bold(tbl.name) +
NoEscape('}'))
toc_ref = tbl.name
if tbl.fe_id in datasets:
title, dataset = datasets[tbl.fe_id]
name_override = bold(f'{tbl.name} ({title.capitalize()})')
toc_ref = f"{title.capitalize()} Dataset"
# Enhance the dataset summary
if isinstance(dataset, FEDataset):
extra_rows = list(
dataset.summary().__getstate__().items())
for idx, (key, val) in enumerate(extra_rows):
key = f"{prettify_metric_name(key)}:"
if isinstance(val, dict) and val:
if isinstance(
list(val.values())[0],
(int, float, str, bool, type(None))):
val = jsonpickle.dumps(val,
unpicklable=False)
else:
subtable = Tabular('l|l')
for k, v in val.items():
if hasattr(v, '__getstate__'):
v = jsonpickle.dumps(
v, unpicklable=False)
subtable.add_row((k, v))
val = subtable
extra_rows[idx] = (key, val)
tbl.render_table(self.doc,
name_override=name_override,
toc_ref=toc_ref,
extra_rows=extra_rows)
def prepareDoc(course):
geometry = settings.geometry
title = "{} DERSİ DERS DEĞERLENDİRME ANKETİ SONUÇLARI".format(course.course_name)
doc = Document(indent=False, geometry_options=geometry)
doc.preamble.append(Command("usepackage","babel","turkish"))
doc.preamble.append(Command("usepackage","float"))
doc.preamble.append(Command("usepackage","framed"))
doc.preamble.append(Command("title", title))
doc.preamble.append(NoEscape(r"\date{\vspace{-1.5cm}\today}"))
doc.append(NoEscape(r"\maketitle"))
doc.append(Command("shorthandoff","="))
doc.append(Command("begin", "framed"))
doc.append(bold("Dersin Kodu : "))
doc.append("{}".format(course.course_code))
doc.append(NoEscape(r"\quad"))
doc.append("({}. sınıf)".format(course.course_grade))
doc.append(NewLine())
doc.append(bold("Dersin Türü : "))
doc.append("{}".format(course.course_type))
doc.append(NewLine())
doc.append(bold("Dersin Grubu : "))
doc.append("{}".format(course.course_group))
doc.append(NewLine())
doc.append(bold("Dersin Dönemi : "))
doc.append("{}".format(course.course_term))
doc.append(NewLine())
doc.append(bold("Öğretim Üyesi : "))
lname = course.lecturer_name + ' ' + course.lecturer_middle + ' ' + course.lecturer_surname
doc.append(lname)
doc.append(Command("end", "framed"))
return doc
def create_pdf(self) -> Document:
questions = functools.reduce(
lambda a, b: a + b, map(lambda x: x.get_questions(),
self.questions), [])
doc = Document()
doc.preamble.append(Package('titling'))
for i in range(1, self.count + 1):
random.shuffle(questions)
with doc.create(Center()):
doc.append(HugeText(self.header))
doc.append(bold('Nombre:'))
doc.append(LineBreak())
doc.append(bold('ID:'))
doc.append(LineBreak())
with doc.create(FlushRight()):
doc.append(LargeText(f'Examen tipo {i}'))
enum = Enumerate()
for question in questions:
question.append_to_document(doc, enum)
doc.append(NewPage())
doc.append('Guía de respuestas')
doc.append(enum)
doc.append(NewPage())
doc.append(Command('setcounter', ['section', '0']))
return doc
def create_long_table(
doc,
parameters,
skip_parameters=[],
table_specs=r"|p{0.45\linewidth}|p{0.45\linewidth}|",
header=[bold("Parameter"), bold("Value")],
):
"""
Helper function to create long table for parameters
Arguments:
doc: document to add table
parameters: parameters dict
skip_parameters: list of parameters to skip
table_specs: latex specific table settings
header: list with column names
"""
columns = len(header)
with doc.create(LongTable(table_spec=table_specs)) as data_table:
# Table header
data_table.add_hline()
data_table.add_row(header)
data_table.add_hline()
data_table.end_table_header()
data_table.add_row((MultiColumn(columns,
align="r",
data="Continued on Next Page"), ))
data_table.end_table_footer()
data_table.add_row((MultiColumn(columns,
align="r",
data="End of Table"), ))
data_table.end_table_last_footer()
for item in parameters:
if item not in skip_parameters:
data_table.add_row([item, str(parameters[item])])
data_table.add_hline()
def gen_smpl(self, idx, n_digits, n_nums, var_digits=0):
""" generate an example of a simple addition
"""
assert (n_digits >= 1)
assert (var_digits < n_digits)
q_tab = Tabular(' c r ', row_height=1.2)
# contents...
nums = [gen_rnd(n_digits, var_digits) for n in range(0, n_nums)]
sgns = [sign(randint(-1000000, 1000000)) for n in range(0, n_nums)]
sign_syms = list(map(lambda x: '+' if x == 1 else '-', sgns))
sum_str = ''.join(
[sign_syms[n] + str(nums[n]) for n in range(0, n_nums)])
if sum_str[0] == '+':
sum_str = sum_str[1:] # tail if leading with a '+'
mth = Math(escape=False, inline=True)
mth.append(NoEscape(sum_str + '='))
q_tab.add_row((bold(str(idx) + ':'), mth))
a_tab = Tabular(' l l ', row_height=1.1)
a_idx = bold(str(idx) + ":")
res = sum(multiply(nums, sgns))
a_tab.add_row((a_idx, res))
#print(sum_str, '=', res)
return (q_tab, a_tab)
def produce_header_footer():
"""
Adds a generic header/footer to the report. Includes the date and CFIA logo in the header + legend in the footer.
"""
header = pl.PageStyle("header", header_thickness=0.1)
image_filename = get_image()
with header.create(pl.Head("L")) as logo:
logo.append(
pl.StandAloneGraphic(image_options="width=110px",
filename=image_filename))
# Date
with header.create(pl.Head("R")):
header.append("Date Report Issued: " +
datetime.today().strftime('%Y-%m-%d'))
# Footer
with header.create(pl.Foot("C")):
with header.create(pl.Tabular('lcr')) as table:
table.add_row(
'',
bold(
'Data interpretation guidelines can be found in RDIMS document ID: 10401305'
), '')
table.add_row(
'', bold('This report was generated with OLC AutoROGA v1.2'),
'')
return header
def add_to_book(self, book: Book):
with book.create(MdFramed()) as box:
box.append(bold(self.name))
box.append(NoEscape("\\hspace*{\\fill}"))
box.append(bold(self.__get_cost()))
box.append(" ¥€$\n")
box.append(NoEscape(r"\noindent\rule{\columnwidth}{1pt}"))
box.append(LineBreak())
box.append(NoEscape(self.desc))
box.append(LineBreak())
box.append(LineBreak())
with box.create(Tabularx("X|l|r")) as tab:
for effect, perma_effect, effector in itertools.zip_longest(self.effects, self.permanent_effects, self.effectors):
row = []
if effect is not None:
row.append(effect + ":" + get_effect_str(self.effects[effect]))
else:
row.append("")
if perma_effect is not None:
row.append(perma_effect + ":" + get_effect_str(self.permanent_effects[perma_effect]))
else:
row.append("")
if effector is not None:
row.append(italic(effector.name))
else:
row.append("")
tab.add_row(row)
def genenerate_longtabu():
geometry_options = {
"landscape": True,
"margin": "0.5in",
"headheight": "20pt",
"headsep": "10pt",
"includeheadfoot": True
}
doc = Document(page_numbers=True, geometry_options=geometry_options)
# Generate data table
with doc.create(LongTabu("X[r] X[r] X[r] X[r] X[r] X[r]")) as data_table:
header_row1 = ["Prov", "Num", "CurBal", "IntPay", "Total", "IntR"]
data_table.add_row(header_row1, mapper=[bold])
data_table.add_hline()
data_table.add_empty_row()
data_table.end_table_header()
data_table.add_row(
["Prov", "Num", "CurBal", "IntPay", "Total", "IntR"])
row = [
"PDADASDASDSADSADSADASDASDSADASDASA", "9", "$100", "%10", "$1000",
"Test"
]
for i in range(50):
data_table.add_row(row)
doc.append(bold("Grand Total:"))
doc.append(HFill())
doc.append(bold("Total"))
doc.generate_pdf("longtabu", clean_tex=False)
def InsDatosFamiliares():
with self.doc.create(SectionUnnumbered("Datos Familiares")):
Command("vspace", NoEscape("-1ex"))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\{}: {} {}: {}\\"\
.format(bold("Nombre del Padre"), makeUnderline(self.data["Nombre del Padre"], 2.75),bold("Teléfono"), makeUnderline(self.data["Teléfono Padre"], 1.65),\
bold("Domicilio"), makeUnderline(self.data["Dirección Padre"], 3.35),bold("Empresa"), makeUnderline(self.data["Negocio Padre"], 1.63))
))
with self.doc.create(Tabular(
NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Padre"],
self.data["Celular Padre"],
self.data["Correo Padre"]))
table.add_hline()
table.add_row(
(bold("Teléfono Particular"), bold("Teléfono Celular"),
bold("Correo Electrónico")))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\{}: {} {}: {}\\"\
.format(bold("Nombre de la Madre"), makeUnderline(self.data["Nombre de la Madre"], 2.75),bold("Teléfono"), makeUnderline(self.data["Teléfono Madre"], 1.55),\
bold("Domicilio"), makeUnderline(self.data["Dirección Madre"], 3.35),bold("Empresa"), makeUnderline(self.data["Negocio Madre"], 1.63))
))
with self.doc.create(Tabular(
NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Madre"],
self.data["Celular Madre"],
self.data["Correo Madre"]))
table.add_hline()
table.add_row(
(bold("Teléfono Particular"), bold("Teléfono Celular"),
bold("Correo Electrónico")))
def add_center_column(doc):
with column_with_margin(doc) as page:
make_heading_divider(page, "ownership details")
table = Tabular("l l", row_height=1.5, col_space="1em")
table.add_row(MultiRow(2, data="Owner"), bold("GRADIA Laboratory"))
table.add_row("", "(as of 8-Sep-20)")
table.add_row("Goldway Ref", bold("SIOT202007002-R"))
table.add_row("GIA Ref", bold("1231233345"))
table.add_row("Blockchain Ref", bold("123154647sdiuyfh"))
page.append(table)
add_space_plus_new_line(page, 2)
make_heading_divider(page, "macro image")
macro_file = os.path.join(BASE_DIR, "macro.png")
page.append(
StandAloneGraphic(image_options="width=200px",
filename=macro_file))
add_space_plus_new_line(page, 2)
make_heading_divider(page, "nano etching")
table = Tabular("l l l", row_height=1.3, col_space="0.3em")
nano_picture = StandAloneGraphic(image_options="width=70px",
filename=os.path.join(
BASE_DIR, "nano.png"))
table.add_row("", "", MultiRow(3, data=nano_picture))
table.add_row("Etched ID no.", bold("G00000013"), "")
table.add_empty_row()
page.append(table)
def InsDatosDomicilio():
with self.doc.create(SectionUnnumbered("Domicilio Particular")):
Command("vspace", NoEscape("-1ex"))
with self.doc.create(
Tabular(NoEscape(
"m{1.33in}m{0.6in}m{2in}m{1.9in}"))) as table:
table.add_row(
(self.data["Calle"], self.data["Número"],
self.data["Colonia"], self.data["Población"]))
table.add_hline()
table.add_row((bold("Calle"), bold("Número"),
bold("Colonia"), bold("Poblacion")))
with self.doc.create(Tabular(
NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Municipio"], self.data["Estado"],
self.data["C.P."]))
table.add_hline()
table.add_row(
(bold("Municipio"), bold("Estado"), bold("C.P.")))
with self.doc.create(Tabular(
NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row(
(self.data["Teléfono Particular"],
self.data["Teléfono Celular"], self.data["Correo"]))
table.add_hline()
table.add_row(
(bold("Teléfono Particular"), bold("Teléfono Celular"),
bold("Correo Electrónico")))
def print_workout(doc, lift, one_rm, no, accessorys):
"""Print one workout routine.
Arguments:
lift
one_rm
no
accessorys
Returns:
One workout
"""
doc.append(VerticalSpace("20pt"))
doc.append(LineBreak())
main_lift = gen_main_lift(lift, one_rm, no)
access = gen_accessory_table(accessorys)
with doc.create(MiniPage(width=r"0.5\textwidth")):
doc.append(bold('Main Lift\n\n'))
doc.append(main_lift)
doc.append(VerticalSpace("20pt"))
doc.append(LineBreak())
doc.append(bold('Accessory Exercises\n\n'))
doc.append(access)
# doc.append(main_lift)
doc.append(VerticalSpace("20pt"))
doc.append(LineBreak())
return doc
def generate_eva_report():
geometry_options = {
"head": "40pt",
"margin": "0.5in",
"bottom": "0.6in",
"includeheadfoot": True
}
doc = Document(geometry_options=geometry_options)
reportStyle = PageStyle("reportStyle")
with reportStyle.create(Head("R")) as left_header:
with left_header.create(
MiniPage(width=NoEscape(r"0.49\textwidth"), pos='c',
align='l')) as title_wrapper:
title_wrapper.append(LargeText(bold("RiMEA-Projekt")))
title_wrapper.append(LineBreak())
title_wrapper.append(MediumText(bold("Anlyse")))
doc.preamble.append(reportStyle)
doc.change_document_style("reportStyle")
with doc.create(LongTabu("X[c] X[c]", row_height=1.5)) as report_table:
report_table.add_row(["Test", "evacuation time(s)"], mapper=bold)
report_table.add_hline()
for i in range(1, 4):
report_table.add_row(i, get_evac_time(i)[0])
doc.append(NewPage())
doc.generate_pdf("RiMEA-Projekt-Evacution-Analyse", clean_tex=False)
def GPIOLoopback_report(self):
self.doc.append(NoEscape(r'\clearpage'))
with self.doc.create(Section('GPIO Loopback')):
with self.doc.create(Subsection('Description')):
self.doc.append(
'This test asserts the correct assembly of the GPIO pins on both RFFEuC\'s headers.'
)
self.doc.append(
'In the TestBoard all GPIO pins are connected in pairs via a 1K1 resistor, so they\'re logically binded.\n'
)
self.doc.append(
'Each pin in the loopback pair is tested as an Input and Output, changing the logic level of its pair to assert the electrical connection.\n'
)
with self.doc.create(Subsection('Results')):
with self.doc.create(Center()) as centered:
with centered.create(Tabular('|c|c|c|',
row_height=1.2)) as tbl:
tbl.add_hline()
tbl.add_row((MultiColumn(2,
align='|c|',
data=bold('Loopback Pair')),
bold('Result')))
tbl.add_hline()
for key, val in self.test_results['gpio'].items():
if isinstance(val, dict):
tbl.add_row(
val['pin1'],
val['pin2'],
('Pass' if val['result'] else 'Fail'),
color=('green'
if val['result'] else 'red'))
tbl.add_hline()
def printSalary(request, id):
teacher = Teacher.objects.get(pk=id)
all_add = tAddEntry.objects.filter(teacher__id=id)
all_del = tDelEntry.objects.filter(teacher__id=id)
salary = Salary.objects.get(teacher=teacher)
length = len(all_add) + 1
length2 = len(all_del) + 1
user = User.objects.get(pk=1)
add = 0
sub = 0
total = 0
geometry_options = {
"margin": "1in",
"textwidth": "2in",
"textheight": "2in",
"headheight": "0pt",
"headsep": "0pt",
"footskip": "0pt"
}
doc = Document(geometry_options=geometry_options)
doc.preamble.append(Command("usepackage", "times"))
doc.preamble.append(Command("usepackage", "graphicx"))
doc.documentclass = Command('documentclass',
options=['11pt'],
arguments=['article'])
with doc.create(Tabu(" X[c] X[2r] ")) as table:
table.add_row(
(LargeText(bold(teacher.lastname + "," + teacher.firstname))), "")
table.add_empty_row()
with doc.create(Tabu(" | X[c] | X[2r] | ")) as table:
table.add_hline()
table.add_row(bold("Allowance"), "PHP " + str(user.amount))
table.add_hline()
table.add_row(bold("Additional"), "")
for i in all_add:
table.add_empty_row()
table.add_row(i.name, "PHP " + str(i.value))
table.add_hline()
add = add + i.value
table.add_row(bold("Deduction"), "")
for i in all_del:
table.add_empty_row()
table.add_row(i.name, "PHP " + str(i.value))
table.add_hline()
sub = sub + i.value
total = user.amount + add - sub
table.add_row(bold("TOTAL"), "PHP " + str(total))
table.add_hline()
doc.generate_pdf(teacher.lastname + "_salary", clean_tex=False)
image_data = open(teacher.lastname + "_salary.pdf", "rb")
return HttpResponse(image_data, content_type='application/pdf')
def constroiCorpo(self):
with self.documento.create(Tabu("X[l] X[r]")) as first_page_table:
customer = MiniPage(width=NoEscape(r"0.49\textwidth"), pos='h')
customer.append(bold("Nome fantasia: "))
customer.append(self.usuarioModel.nomeFantasia)
customer.append("\n")
customer.append(bold("CNPJ: "))
customer.append(mascaraCNPJ(self.usuarioModel.cnpj))
customer.append("\n")
customer.append(bold("Endereço: "))
if self.usuarioModel.endereco == 'None':
customer.append('---')
else:
customer.append(self.usuarioModel.endereco)
# Add branch information
branch = MiniPage(width=NoEscape(r"0.49\textwidth"),
pos='t!',
align='r')
branch.append(f"Total de clientes: {self.totalClientes}")
branch.append(LineBreak())
branch.append(f"Total de clientes Ativos: {self.clientesAtivos}")
branch.append(LineBreak())
branch.append(
f"Média de clientes ativos: {round((self.clientesAtivos / self.totalClientes)*100)} % "
)
branch.append(LineBreak())
first_page_table.add_row([customer, branch])
first_page_table.add_empty_row()
self.documento.change_document_style("firstpage")
with self.documento.create(
LongTabu("X[1.5l] X[2l] X[r] X[r] X[r]",
row_height=1.5)) as data_table:
data_table.add_row([
"Última atualização", "Nome do cliente", "Turma", "credits($)",
"balance($)"
],
mapper=bold,
color="lightgray")
data_table.add_empty_row()
data_table.add_hline()
for i, cliente in enumerate(self.clientesList):
clienteRow = list()
clienteRow.append(mascaraMeses(cliente[13]))
clienteRow.append(cliente[1] + ' ' + cliente[2])
clienteRow.append('Teste 1')
clienteRow.append('Teste 2')
clienteRow.append('Teste 3')
if (i % 2) == 0:
data_table.add_row(clienteRow, color="lightgray")
else:
data_table.add_row(clienteRow)
def add_to_book(self, book: Book):
book.append(NoEscape("\\noindent\\makebox[\\linewidth]{\\rule{\\columnwidth}{0.4pt}}"))
book.append(LineBreak())
book.append(bold(self.name))
book.append(NoEscape("\\hspace*{\\fill}"))
book.append(bold("x " + str(self.cost_effect)))
book.append(LineBreak())
book.append(self.desc)
book.append(NewLine())
book.append(NewLine())
def get_packaging_table_as_tabularx(self):
table = Tabularx("|X|X|X|", row_height=1.25)
table.add_hline()
table.add_row(bold("Type"), bold("Størrelse"), bold("Antall"))
for child_id in self.packaging_table.get_children():
child = self.packaging_table.item(child_id)
if (text := child["text"]):
table.add_hline()
table.add_row(text, child["values"][0], child["values"][1])
def get_general_info_as_tabularx(self):
table = Tabularx("|X|X|X|X|", row_height=1.25)
table.add_hline()
table.add_row(bold("Kundenavn"), self.customer_name.get(),
bold("Ordrenummer"), self.order_number.get())
table.add_hline()
total_lengde = str(self.get_total_length_l())
if (total_length_r := self.get_total_length_r()):
total_lengde += f" x {total_length_r}"
def InsDatosEscolares(hasImage):
with self.doc.create(Tabular(NoEscape("m{0.8in}m{0.6in}m{0.9in}m{1.5in}m{2.3in}"))) as table:
if hasImage:
image = MultiRow(3, data=Command("includegraphics", NoEscape(self.data["Foto"][self.data["Foto"].rfind("/") + 1:][:self.data["Foto"].rfind(".")]),["width=1.5in", "height=1in"]))
else:
image = ""
table.add_row(("","","","",""))
table.add_row(("","","","", image))
table.add_row((bold("Matrícula: "), self.data["Matrícula"], bold("Licenciatura: "), self.data["Licenciatura"], ""))
table.add_row((bold("Semestre: "),self.data["Semestre"], bold("Generación: "), self.data["Generación"], ""))
def _write_tables(self, tables: List[FeSummaryTable], model_ids: Set[FEID],
datasets: Dict[FEID, Tuple[Set[str], Any]]) -> None:
"""Insert a LaTeX representation of a list of tables into the current doc.
Args:
tables: The tables to write into the doc.
model_ids: The ids of any known models.
datasets: A mapping like {ID: ({modes}, dataset)}. Useful for augmenting the displayed information.
"""
for tbl in tables:
name_override = None
toc_ref = None
extra_rows = None
if tbl.fe_id in model_ids:
# Link to a later detailed model description
name_override = Hyperref(Marker(name=str(tbl.name),
prefix="subsec"),
text=NoEscape(r'\textcolor{blue}{') +
bold(tbl.name) + NoEscape('}'))
if tbl.fe_id in datasets:
modes, dataset = datasets[tbl.fe_id]
title = ", ".join([s.capitalize() for s in modes])
name_override = bold(f'{tbl.name} ({title})')
# Enhance the dataset summary
if isinstance(dataset, FEDataset):
extra_rows = list(dataset.summary().__getstate__().items())
for idx, (key, val) in enumerate(extra_rows):
key = f"{prettify_metric_name(key)}:"
if isinstance(val, dict) and val:
if isinstance(
list(val.values())[0],
(int, float, str, bool, type(None))):
val = jsonpickle.dumps(val, unpicklable=False)
else:
subtable = Tabularx(
'l|X',
width_argument=NoEscape(r'\linewidth'))
for k, v in val.items():
if hasattr(v, '__getstate__'):
v = jsonpickle.dumps(v,
unpicklable=False)
subtable.add_row((k, v))
# To nest TabularX, have to wrap it in brackets
subtable = ContainerList(data=[
NoEscape("{"), subtable,
NoEscape("}")
])
val = subtable
extra_rows[idx] = (key, val)
tbl.render_table(self.doc,
name_override=name_override,
toc_ref=toc_ref,
extra_rows=extra_rows)
def generate_header():
"""
"""
global doc, doc_correction
# Add document header
header = PageStyle("header")
# Create left header
with header.create(Head("L")):
header.append("Universite Cergy Pontoise")
header.append(LineBreak())
header.append("*****@*****.**")
# Create center header
with header.create(Head("C")):
header.append("Annee 2021")
# Create right header
with header.create(Head("R")):
header.append("Automates et langages reguliers")
header.append(LineBreak())
header.append("L2")
# # Create left footer
# with header.create(Foot("L")):
# header.append("Left Footer")
# # Create center footer
# with header.create(Foot("C")):
# header.append("Center Footer")
# # Create right footer
# with header.create(Foot("R")):
# header.append("Right Footer")
doc.preamble.append(header)
doc.change_document_style("header")
doc_correction.preamble.append(header)
doc_correction.change_document_style("header")
# Add Heading
with doc.create(MiniPage(align='c')):
doc.append(
LargeText(
bold("Examen de deuxieme session - Langages et automates")))
doc.append(LineBreak())
doc.append(MediumText(bold("Mardi 16 avril 2021")))
# Add Heading
with doc_correction.create(MiniPage(align='c')):
doc_correction.append(
LargeText(
bold(
"Correctoin de l'examen de deuxieme session - Langages et automates"
)))
doc_correction.append(LineBreak())
doc_correction.append(MediumText(bold("Mardi 16 avril 2021")))
def test_utils():
# Utils
escape_latex(s="")
fix_filename(path="")
dumps_list(l=[], escape=False, token="\n")
bold(s="")
italic(s="")
verbatim(s="", delimiter="|")
def test_utils():
# Utils
escape_latex(s='')
fix_filename(path='')
dumps_list(l=[], escape=False, token='\n')
bold(s='')
italic(s='')
verbatim(s='', delimiter='|')
def gen_party_flat(party, designation):
cnt = []
cnt.append(f'{bold(party["name"])}, with registered offices at ' +
bold(', '.join(party["address"])) + ', ' +
bold(party['country']))
if 'regno' in party:
cnt.append(
f'registered with {bold(party["authority"])}; {bold(party["regno"])}'
)
if 'email' in party:
cnt.append(f'with the email address {bold(party["email"])}')
cnt.append(f'hereinafter "{bold(designation)}"')
return ', '.join(cnt)
def test_utils():
# Utils
escape_latex(s='')
fix_filename(path='')
dumps_list(l=[], escape=False, token='\n')
bold(s='')
italic(s='')
verbatim(s='', delimiter='|')
def add_question(doc, desire, attributes):
with doc.create(Center()) as centered:
with centered.create(MiniPage(width=r"0.85\textwidth")) as page:
page.append(SmallText(attributes['title']))
wealth = "- " + attributes['choices'][WEALTH]
control = "- " + attributes['choices'][CONTROL]
if desire == CONTROL:
wealth = bold(wealth + " (your choice)")
if desire == WEALTH:
control = bold(control + " (your choice)")
for a in random.sample([wealth, control], 2):
page.append(NewLine())
page.append(SmallText(a))
def InsDatosDomicilio():
with self.doc.create(SectionUnnumbered("Domicilio Particular")):
Command("vspace", NoEscape("-1ex"))
with self.doc.create(Tabular(NoEscape("m{1.33in}m{0.6in}m{2in}m{1.9in}"))) as table:
table.add_row((self.data["Calle"], self.data["Número"], self.data["Colonia"], self.data["Población"]))
table.add_hline()
table.add_row((bold("Calle"), bold("Número"), bold("Colonia"), bold("Poblacion")))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Municipio"], self.data["Estado"], self.data["C.P."]))
table.add_hline()
table.add_row((bold("Municipio"), bold("Estado"), bold("C.P.")))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Particular"], self.data["Teléfono Celular"], self.data["Correo"]))
table.add_hline()
table.add_row((bold("Teléfono Particular"), bold("Teléfono Celular"), bold("Correo Electrónico")))
def generate_eva_report():
"""
Generate a report which contains the evacution time for every test
"""
geometry_options = {
"head": "40pt",
"margin": "0.5in",
"bottom": "0.6in",
"includeheadfoot": True
}
doc = Document(geometry_options=geometry_options)
## Define style of report
reportStyle = PageStyle("reportStyle")
with reportStyle.create(Head("R")) as left_header:
with left_header.create(MiniPage(width=NoEscape(r"0.49\textwidth"),
pos='c', align='l')) as title_wrapper:
title_wrapper.append(LargeText(bold("RiMEA-Projekt")))
title_wrapper.append(LineBreak())
title_wrapper.append(MediumText(bold("Anlyse")))
doc.preamble.append(reportStyle)
## Apply Pagestyle
doc.change_document_style("reportStyle")
## Create table
with doc.create(LongTabu("X[c] X[c]",
row_height=1.5)) as report_table:
report_table.add_row(["Test",
"evacuation time(s)"],
mapper=bold)
report_table.add_hline()
## Write the results of 3 tests in table
for i in range(1,4):
report_table.add_row(i, get_evac_time(i)[0])
doc.append(NewPage())
doc.generate_pdf("RiMEA-Projekt Evacution Analyse", clean_tex=False)
def write_header(table, config):
"""
Function that write the first lines of the document.
"""
# Static datas
data_row1 = ne('Column ') + bold('type') + \
ne(' shows how the initial det. aut. was obtained: T = translation'
' produces DTGBA; W = WDBA minimization works; P = powerset '
'construction transforms TBA to DTBA; R = DRA to DBA.')
data_row2 = ne('Column ') + bold('C.') + \
ne(' tells whether the output automaton is complete: rejecting '
'sink states are always omitted (add 1 state when C=0 if you '
'want the size of the complete automaton).')
row3 = [MultiColumn(14)]
row4 = ['', '', '', '', 'DRA',
MultiColumn(4, align='|c', data='DTGBA'),
MultiColumn(3, align='|c', data='DBA'),
MultiColumn(2, align='|c',
data=ne('DBA\\footnotesize minimizer'))]
row5 = ['formula', 'm', 'type', 'C.', 'st.', 'st.', 'tr.',
'acc.', 'time', 'st.', 'tr.', 'time', 'st.', 'time']
# Datas that depends on the configuration file
len_l = len(config.l)
for i in range(0, len_l):
row3.append(MultiColumn(7, align='|c', data=config.l[i].name))
row4.append(MultiColumn(3, align='|c', data='minDBA'))
row4.append(MultiColumn(4, align='|c', data='minDTGBA'))
row5.extend(['st.', 'tr.', 'time', 'st.', 'tr.', 'acc.', 'time'])
# Add the first 5 lines of the document.
n = 14 + len_l * 7
table.add_row((MultiColumn(n, align='c', data=data_row1),))
table.add_row((MultiColumn(n, align='c', data=data_row2),))
table.add_row((MultiColumn(n, align='l', data=''),)) # add empty line
table.add_row(tuple(row3))
table.add_row(tuple(row4))
table.add_row(tuple(row5))
table.add_hline()
def generate_header():
geometry_options = {"margin": "0.7in"}
doc = Document(geometry_options=geometry_options)
# Add document header
header = PageStyle("header")
# Create left header
with header.create(Head("L")):
header.append("Page date: ")
header.append(LineBreak())
header.append("R3")
# Create center header
with header.create(Head("C")):
header.append("Company")
# Create right header
with header.create(Head("R")):
header.append(simple_page_number())
# Create left footer
with header.create(Foot("L")):
header.append("Left Footer")
# Create center footer
with header.create(Foot("C")):
header.append("Center Footer")
# Create right footer
with header.create(Foot("R")):
header.append("Right Footer")
doc.preamble.append(header)
doc.change_document_style("header")
# Add Heading
with doc.create(MiniPage(align='c')):
doc.append(LargeText(bold("Title")))
doc.append(LineBreak())
doc.append(MediumText(bold("As at:")))
doc.generate_pdf("header", clean_tex=False)
def InsDatosPersonales():
with self.doc.create(SectionUnnumbered("Datos Personales")):
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Apellido Paterno"], self.data["Apellido Materno"], self.data["Nombre"]))
table.add_hline()
table.add_row((bold("Apellido Paterno"), bold("Apellido Materno"), bold("Nombre")))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Lugar de Nacimiento"], self.data["Fecha de Nacimiento"], self.data["Nacionalidad"]))
table.add_hline()
table.add_row((bold("Lugar de Nacimiento"), bold("Fecha de Nacimiento"), bold("Nacionalidad")))
def InsDatosTrabajo():
with self.doc.create(SectionUnnumbered("Datos del Trabajo")):
Command("vspace", NoEscape("-1ex"))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\"\
.format(bold("Empresa o Institución"), makeUnderline(self.data["Empresa"], 2.5),bold("Teléfono"), makeUnderline(self.data["Teléfono Empresa"], 1.65))
))
with self.doc.create(Tabular(NoEscape("m{1.3in}m{0.6in}m{2in}m{1.9in}"))) as table:
table.add_row((self.data["Calle Empresa"], self.data["Número Empresa"], self.data["Colonia Empresa"], self.data["Municipio Empresa"]))
table.add_hline()
table.add_row((bold("Calle"), bold("Número"), bold("Colonia"), bold("Municipio")))
def InsDatosEmergencia():
with self.doc.create(SectionUnnumbered("En caso de emergencia")):
Command("vspace", NoEscape("-1ex"))
self.doc.append(NoEscape(\
r"{}{} {}: {} \\{}: {}\\"\
.format(bold("¿Padece alguna enfermedad?"), makeUnderline(self.data["¿Enfermedad?"], 0.2),bold("Especifique"), makeUnderline(self.data["Enfermedad"], 3.4), bold("Tipo de Sangre"), makeUnderline(self.data["Tipo de Sangre"], .5))
))
self.doc.append(NoEscape(\
r"{}:\\{}: {} {}: {}\\ "\
.format(bold("Contactar a"), bold("Nombre"), makeUnderline(self.data["Nombre Contacto"], 3.52),bold("Parentesco"), makeUnderline(self.data["Parentesco"], 1.5))
))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Contacto"], self.data["Celular Contacto"], self.data["Correo Contacto"]))
table.add_hline()
table.add_row((bold("Teléfono Particular"), bold("Teléfono Celular"), bold("Correo Electrónico")))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\"\
.format(bold("Domicilio"), makeUnderline(self.data["Dirección Contacto"], 3.35),bold("Empresa"), makeUnderline(self.data["Negocio Contacto"], 1.63))
))
def tabulateVariables(self):
"""
Create a table that summarises all input variables.
"""
ks = self.best1d[:]
ks.append(self.constker)
ks.sort(key=lambda k: round(k.getNLML(), 2))
ks.sort(key=lambda k: round(k.error(), 4))
data = ks[0].data
ds = data.getDataShape()
nlml_min = round(min([k.getNLML() for k in ks]), 2)
error_min = round(min([k.error() for k in ks]), 4)
doc = self.doc
with doc.create(pl.Table(position='htbp!')) as tab:
tab.add_caption(ut.NoEscape("Input variables"))
t = pl.Tabular('rlrrrcrr')
# Header
t.add_hline()
t.add_row((
'',
'',
pl.MultiColumn(3, align='c', data='Statistics'),
pl.MultiColumn(3, align='c', data='Classifier Performance')
))
t.add_hline(start=3, end=8)
t.add_row((
pl.MultiColumn(1, align='c', data='Dimension'),
pl.MultiColumn(1, align='c', data='Variable'),
pl.MultiColumn(1, align='c', data='Min'),
pl.MultiColumn(1, align='c', data='Max'),
pl.MultiColumn(1, align='c', data='Mean'),
pl.MultiColumn(1, align='c', data='Kernel'),
pl.MultiColumn(1, align='c', data='NLML'),
pl.MultiColumn(1, align='c', data='Error') ))
t.add_hline()
# Entries
for k in ks:
if k is self.constker:
row = [
ut.italic('--', escape=False),
ut.italic('Baseline', escape=False),
ut.italic('--', escape=False),
ut.italic('--', escape=False),
ut.italic('--', escape=False),
ut.italic(k.shortInterp(), escape=False),
ut.italic('{0:.2f}'.format(k.getNLML()), escape=False),
ut.italic(r'{0:.2f}\%'.format(k.error()*100), escape=False) ]
else:
dim = k.getActiveDims()[0]
row = [
dim+1,
data.XLabel[dim],
'{0:.2f}'.format(ds['x_min'][dim]),
'{0:.2f}'.format(ds['x_max'][dim]),
'{0:.2f}'.format(ds['x_mu'][dim]),
k.shortInterp(),
ut.NoEscape('{0:.2f}'.format(k.getNLML())),
ut.NoEscape(r'{0:.2f}\%'.format(k.error()*100)) ]
if round(k.getNLML(), 2) == nlml_min:
row[6] = ut.bold(row[6])
if round(k.error(), 4) == error_min:
row[7] = ut.bold(row[7])
t.add_row(tuple(row))
t.add_hline()
tab.append(ut.NoEscape(r'\centering'))
tab.append(t)
def create_pdf(self):
"""Creates the PDF using the PyLatex module.
"""
r1_summary_trim_dict, r1_stats_trim_dict, r2_summary_trim_dict = self.get_trimmed_data()
r1_stats_dict = self.get_original_data()
doc = Document()
doc.packages.append(Package('geometry', options=['margin=0.75in']))
doc.packages.append(Package('subcaption'))
doc.packages.append(Package('xcolor'))
doc.packages.append(Package('placeins'))
doc.append(Command('makeatletter'))
doc.append(Command('setlength', NoEscape(r'\@fptop}{0pt')))
doc.append(Command('makeatother'))
doc.append(Command(NoEscape(r'renewcommand{\baselinestretch}'), '1.0'))
doc.append(Command('begin', 'center'))
doc.append(Command('Large', bold('Sample Quality Results')))
doc.append(Command('end', 'center'))
with doc.create(Section('Basic Statistics')):
with doc.create(Description()) as desc:
desc.add_item("Sample:", "%s" % r1_stats_dict.get('Filename')[:-16])
desc.add_item("File type:", "%s" % r1_stats_dict.get('File type'))
desc.add_item("Encoding:", "%s" % r1_stats_dict.get('Encoding'))
with doc.create(Tabular(NoEscape(r'p{5.5cm}|c|c'))) as table:
table.add_row(('', 'Before trimming', 'After trimming'))
table.add_hline()
table.add_row(('Total Sequences',
'%s' % r1_stats_dict.get('Total Sequences'),
'%s' % r1_stats_trim_dict.get('Total Sequences')))
table.add_row(('Sequences flagged as poor quality',
'%s' % r1_stats_dict.get('Sequences flagged as poor quality'),
'%s' % r1_stats_trim_dict.get('Sequences flagged as poor quality')))
table.add_row(('Sequence length',
'%s' % r1_stats_dict.get('Sequence length'),
'%s' % r1_stats_trim_dict.get('Sequence length')))
table.add_row(('%GC',
'%s' % r1_stats_dict.get('%GC'),
'%s' % r1_stats_trim_dict.get('%GC')))
with doc.create(Section('FastQC')):
with doc.create(Figure(position='!htb', placement=NoEscape(r'\centering'))) as fig:
fig.add_caption('Per base sequence quality')
doc.append(Command('centering'))
with doc.create(SubFigure()) as plot:
plot.add_image('%sR1_001_fastqc/Images/per_base_quality.png' % self.sample)
plot.add_caption('R1 BEFORE trimming')
with doc.create(SubFigure()) as plot:
if r1_summary_trim_dict.get('Per base sequence quality') == 'PASS':
colour = 'green'
elif r1_summary_trim_dict.get('Per base sequence quality') == 'WARN':
colour = 'orange'
elif r1_summary_trim_dict.get('Per base sequence quality') == 'FAIL':
colour = 'red'
else:
colour = 'black'
plot.add_image('%sR1_001.qfilter_fastqc/Images/per_base_quality.png' % self.sample)
plot.add_caption(NoEscape(r'R1 AFTER trimming \textcolor{%s}{%s}'
% (colour, r1_summary_trim_dict.get('Per base sequence quality'))))
with doc.create(SubFigure()) as plot:
plot.add_image('%sR2_001_fastqc/Images/per_base_quality.png' % self.sample)
plot.add_caption('R2 BEFORE trimming')
with doc.create(SubFigure()) as plot:
if r2_summary_trim_dict.get('Per base sequence quality') == 'PASS':
colour = 'green'
elif r2_summary_trim_dict.get('Per base sequence quality') == 'WARN':
colour = 'orange'
elif r2_summary_trim_dict.get('Per base sequence quality') == 'FAIL':
colour = 'red'
else:
colour = 'black'
plot.add_image('%sR2_001.qfilter_fastqc/Images/per_base_quality.png' % self.sample)
plot.add_caption(NoEscape(r'R2 AFTER trimming \textcolor{%s}{%s}'
% (colour, r2_summary_trim_dict.get('Per base sequence quality'))))
with doc.create(Figure(position='!htb', placement=NoEscape(r'\centering'))) as fig:
fig.add_caption('Per sequence GC content')
doc.append(Command('centering'))
with doc.create(SubFigure()) as plot:
doc.append(Command('vspace', '5 mm'))
plot.add_image('%sR1_001_fastqc/Images/per_sequence_gc_content.png' % self.sample)
plot.add_caption('R1 BEFORE trimming')
with doc.create(SubFigure()) as plot:
doc.append(Command('vspace', '5 mm'))
if r1_summary_trim_dict.get('Per sequence GC content') == 'PASS':
colour = 'green'
elif r1_summary_trim_dict.get('Per sequence GC content') == 'WARN':
colour = 'orange'
elif r1_summary_trim_dict.get('Per sequence GC content') == 'FAIL':
colour = 'red'
else:
colour = 'black'
plot.add_image('%sR1_001.qfilter_fastqc/Images/per_sequence_gc_content.png' % self.sample)
plot.add_caption(NoEscape(r'R1 AFTER trimming \textcolor{%s}{%s}'
% (colour, r1_summary_trim_dict.get('Per sequence GC content'))))
with doc.create(SubFigure()) as plot:
doc.append(Command('vspace', '5 mm'))
plot.add_image('%sR2_001_fastqc/Images/per_sequence_gc_content.png' % self.sample)
plot.add_caption('R2 BEFORE trimming')
with doc.create(SubFigure()) as plot:
doc.append(Command('vspace', '5 mm'))
if r2_summary_trim_dict.get('Per sequence GC content') == 'PASS':
colour = 'green'
elif r2_summary_trim_dict.get('Per sequence GC content') == 'WARN':
colour = 'orange'
elif r2_summary_trim_dict.get('Per sequence GC content') == 'FAIL':
colour = 'red'
else:
colour = 'black'
plot.add_image('%sR2_001.qfilter_fastqc/Images/per_sequence_gc_content.png' % self.sample)
plot.add_caption(NoEscape(r'R2 AFTER trimming \textcolor{%s}{%s}'
% (colour, r2_summary_trim_dict.get('Per sequence GC content'))))
with doc.create(Figure(position='!htb', placement=NoEscape(r'\centering'))) as fig:
fig.add_caption('Sequence Length Distribution')
doc.append(Command('centering'))
with doc.create(SubFigure()) as plot:
plot.add_image('%sR1_001_fastqc/Images/sequence_length_distribution.png' % self.sample)
plot.add_caption('R1 BEFORE trimming')
with doc.create(SubFigure()) as plot:
if r1_summary_trim_dict.get('Sequence Length Distribution') == 'PASS':
colour = 'green'
elif r1_summary_trim_dict.get('Sequence Length Distribution') == 'WARN':
colour = 'orange'
elif r1_summary_trim_dict.get('Sequence Length Distribution') == 'FAIL':
colour = 'red'
else:
colour = 'black'
plot.add_image('%sR1_001.qfilter_fastqc/Images/sequence_length_distribution.png' % self.sample)
plot.add_caption(NoEscape(r'R1 AFTER trimming \textcolor{%s}{%s}'
% (colour, r1_summary_trim_dict.get('Sequence Length Distribution'))))
with doc.create(SubFigure()) as plot:
plot.add_image('%sR2_001_fastqc/Images/sequence_length_distribution.png' % self.sample)
plot.add_caption('R2 BEFORE trimming')
with doc.create(SubFigure()) as plot:
if r2_summary_trim_dict.get('Sequence Length Distribution') == 'PASS':
colour = 'green'
elif r2_summary_trim_dict.get('Sequence Length Distribution') == 'WARN':
colour = 'orange'
elif r2_summary_trim_dict.get('Sequence Length Distribution') == 'FAIL':
colour = 'red'
else:
colour = 'black'
plot.add_image('%sR2_001.qfilter_fastqc/Images/sequence_length_distribution.png' % self.sample)
plot.add_caption(NoEscape(r'R2 AFTER trimming \textcolor{%s}{%s}'
% (colour, r2_summary_trim_dict.get('Sequence Length Distribution'))))
with doc.create(Figure(position='!htb', placement=NoEscape(r'\centering'))) as fig:
fig.add_caption('Adapter Content')
doc.append(Command('centering'))
with doc.create(SubFigure()) as plot:
plot.add_image('%sR1_001_fastqc/Images/adapter_content.png' % self.sample)
plot.add_caption('R1 BEFORE trimming')
with doc.create(SubFigure()) as plot:
if r1_summary_trim_dict.get('Adapter Content') == 'PASS':
colour = 'green'
elif r1_summary_trim_dict.get('Adapter Content') == 'WARN':
colour = 'orange'
elif r1_summary_trim_dict.get('Adapter Content') == 'FAIL':
colour = 'red'
else:
colour = 'black'
plot.add_image('%sR1_001.qfilter_fastqc/Images/adapter_content.png' % self.sample)
plot.add_caption(NoEscape(r'R1 AFTER trimming \textcolor{%s}{%s}'
% (colour, r1_summary_trim_dict.get('Adapter Content'))))
with doc.create(SubFigure()) as plot:
plot.add_image('%sR2_001_fastqc/Images/adapter_content.png' % self.sample)
plot.add_caption('R2 BEFORE trimming')
with doc.create(SubFigure()) as plot:
if r2_summary_trim_dict.get('Adapter Content') == 'PASS':
colour = 'green'
elif r2_summary_trim_dict.get('Adapter Content') == 'WARN':
colour = 'orange'
elif r2_summary_trim_dict.get('Adapter Content') == 'FAIL':
colour = 'red'
else:
colour = 'black'
plot.add_image('%sR2_001.qfilter_fastqc/Images/adapter_content.png' % self.sample)
plot.add_caption(NoEscape(r'R2 AFTER trimming \textcolor{%s}{%s}'
% (colour, r2_summary_trim_dict.get('Adapter Content'))))
doc.append(Command('FloatBarrier'))
with doc.create(Section('BamStats')):
with doc.create(Figure(position='htbp', placement=NoEscape(r'\centering'))):
doc.append(Command('centering'))
with doc.create(SubFigure()) as plot:
plot.add_image('%s.bwa.drm.sorted.bam.stats-quals-hm.png' % self.sample)
plot.add_caption('Base quality per cycle')
with doc.create(SubFigure()) as plot:
doc.append(Command('hspace', '10 mm'))
plot.add_image('%s.bwa.drm.sorted.bam.stats-insert-size.png' % self.sample)
plot.add_caption('Fragment size')
with doc.create(SubFigure()) as plot:
doc.append(Command('vspace', '10 mm'))
plot.add_image('%s.bwa.drm.sorted.bam.stats-quals2.png' % self.sample)
plot.add_caption('Quality per cycle')
doc.generate_pdf('%ssample_quality' % self.sample, clean_tex=False, compiler=self.pdflatex)
geometry_options = {"margin": "0.5in"}
doc = Document(indent=False, geometry_options=geometry_options)
doc.change_length("\TPHorizModule", "1mm")
doc.change_length("\TPVertModule", "1mm")
with doc.create(MiniPage(width=r"\textwidth")) as page:
with page.create(TextBlock(100, 0, 0)):
page.append("**** Ten Thousand Dollars")
with page.create(TextBlock(100, 0, 30)):
page.append("COMPANY NAME")
page.append("\nSTREET, ADDRESS")
page.append("\nCITY, POSTAL CODE")
with page.create(TextBlock(100, 150, 40)):
page.append(HugeText(bold("VOID")))
with page.create(TextBlock(80, 150, 0)):
page.append("DATE")
page.append(MediumText(bold("2016 06 07\n")))
page.append(HorizontalSpace("10mm"))
page.append(SmallText("Y/A M/M D/J"))
with page.create(TextBlock(70, 150, 30)):
page.append(MediumText(bold("$***** 10,000.00")))
page.append(VerticalSpace("100mm"))
doc.generate_pdf("textblock", clean_tex=False)
def create_pdf(self):
"""Creates a LaTeX PDF using the Python module PyLatex (https://jeltef.github.io/PyLaTeX/latest/).
Note: LaTeX must be installed in /usr/local/. Development employed TexLive 2015.
"""
doc = Document()
doc.packages.append(Package('geometry', options=['tmargin=0.75in', 'lmargin=0.75in', 'rmargin=0.75in']))
doc.packages.append(Package('datetime', options=['ddmmyyyy']))
doc.packages.append(Package('needspace'))
doc.preamble.append(Command('newdateformat',
NoEscape(r'mydate}{\twodigit{\THEDAY}/\twodigit{\THEMONTH}/\THEYEAR')))
doc.append(Command('begin', 'center'))
doc.append(Command('Large', bold('MiSeq Quality Check')))
doc.append(Command('end', 'center'))
doc.append(Command('begin', 'flushright'))
doc.append(Command('Large', '%s' % self.worksheet))
doc.append(Command('end', 'flushright'))
doc.append(Command('begin', 'flushright'))
doc.append(Command('Large', NoEscape(r'\mydate\today')))
doc.append(Command('end', 'flushright'))
avg_qual = self.get_avg_qual()
self.get_qual_graph(avg_qual)
first_read, second_read = self.get_avg_qual_per_read()
doc.append(Command('needspace', '20em'))
with doc.create(Section('Quality data')):
with doc.create(Tabular(NoEscape(r'p{5cm}|c|c'))) as table:
table.add_row(('Data', 'Value', 'Pass/Fail'))
table.add_hline()
table.add_row(
('Mean Cluster Density (k/mm2)', format(self.tile.mean_cluster_density / 1000, '.2f'), ''))
table.add_row(('Clusters passed filter (%)', '%s' % (format(self.tile.percent_pf_clusters, '.2f')),
''))
table.add_row(('Average >= Q30', '%s' % (format(avg_qual, '.2f')), ''))
table.add_row(('1st full read >= Q30', '%s' % (format(first_read, '.2f')), ''))
table.add_row(('2nd full read >= Q30', '%s' % (format(second_read, '.2f')), ''))
with doc.create(Figure(position='htbp', placement=NoEscape(r'\centering'))):
doc.append(Command('centering'))
with doc.create(SubFigure()) as plot:
plot.add_plot()
plot.add_caption('Q-score distribution plot (all reads all cycles)')
self.get_qual_heatmap()
with doc.create(SubFigure()) as plot:
plot.add_plot()
plot.add_caption('Q-score heat map')
self.get_clusters_heatmap()
with doc.create(SubFigure()) as plot:
plot.add_plot()
plot.add_caption('Cluster density per tile')
read_1_phas, read_1_prephas, read_2_phas, read_2_prephas = self.get_phas_prephas()
with doc.create(Section('Phas/Prephas data')):
with doc.create(Tabular(NoEscape(r'p{5cm}|c|c'))) as table:
table.add_row(('Data', 'Value', 'Pass/Fail'))
table.add_hline()
table.add_row(
('1st full read', '%s / %s' % (format(read_1_phas, '.3f'), format(read_1_prephas, '.3f')), ''))
table.add_row(
('2nd full read', '%s / %s' % (format(read_2_phas, '.3f'), format(read_2_prephas, '.3f')), ''))
sample_id, index1, index2, percent_clusters, percent_pf, total_aligned_clusters, pf_aligned_clusters = \
self.get_indexing()
total_samples = len(sample_id)
doc.append(Command('needspace', '10em'))
with doc.create(Section('Indexing')):
doc.append(Command('begin', 'center'))
with doc.create(Tabular(NoEscape(r'c|c|c|c|c'))) as table:
table.add_row(('Total Reads', 'PF Reads', '% Reads Identified (PF)', 'Min', 'Max'))
table.add_hline()
table.add_row(
('%s' % int(total_aligned_clusters), '%s' % int(pf_aligned_clusters), '%s' % percent_pf,
'%s' % min(percent_clusters), '%s' % max(percent_clusters)))
doc.append(Command('end', 'center'))
with doc.create(Figure(position='htbp', placement=NoEscape(r'\centering'))):
with doc.create(Tabular(NoEscape(r'c|c|c|c'))) as table:
table.add_row(('Sample_ID', 'Index', 'Index2', '% Reads Identified (PF)'))
table.add_hline()
item = 0
while item < total_samples:
table.add_row(('%s' % sample_id[item], '%s' % index1[item], '%s' % index2[item], '%s'
% percent_clusters[item]))
item += 1
with doc.create(SubFigure()) as plot:
plot.add_plot()
doc.generate_pdf('%s_InterOp_Results' % self.worksheet, clean_tex=False, compiler=self.pdflatex)
def generate_unique():
geometry_options = {
"head": "40pt",
"margin": "0.5in",
"bottom": "0.6in",
"includeheadfoot": True
}
doc = Document(geometry_options=geometry_options)
# Generating first page style
first_page = PageStyle("firstpage")
# Header image
with first_page.create(Head("L")) as header_left:
with header_left.create(MiniPage(width=NoEscape(r"0.49\textwidth"),
pos='c')) as logo_wrapper:
logo_file = os.path.join(os.path.dirname(__file__),
'sample-logo.png')
logo_wrapper.append(StandAloneGraphic(image_options="width=120px",
filename=logo_file))
# Add document title
with first_page.create(Head("R")) as right_header:
with right_header.create(MiniPage(width=NoEscape(r"0.49\textwidth"),
pos='c', align='r')) as title_wrapper:
title_wrapper.append(LargeText(bold("Bank Account Statement")))
title_wrapper.append(LineBreak())
title_wrapper.append(MediumText(bold("Date")))
# Add footer
with first_page.create(Foot("C")) as footer:
message = "Important message please read"
with footer.create(Tabularx(
"X X X X",
arguments=NoEscape(r"\textwidth"))) as footer_table:
footer_table.add_row(
[MultiColumn(4, align='l', data=TextColor("blue", message))])
footer_table.add_hline(color="blue")
footer_table.add_empty_row()
branch_address = MiniPage(
width=NoEscape(r"0.25\textwidth"),
pos='t')
branch_address.append("960 - 22nd street east")
branch_address.append("\n")
branch_address.append("Saskatoon, SK")
document_details = MiniPage(width=NoEscape(r"0.25\textwidth"),
pos='t', align='r')
document_details.append("1000")
document_details.append(LineBreak())
document_details.append(simple_page_number())
footer_table.add_row([branch_address, branch_address,
branch_address, document_details])
doc.preamble.append(first_page)
# End first page style
# Add customer information
with doc.create(Tabu("X[l] X[r]")) as first_page_table:
customer = MiniPage(width=NoEscape(r"0.49\textwidth"), pos='h')
customer.append("Verna Volcano")
customer.append("\n")
customer.append("For some Person")
customer.append("\n")
customer.append("Address1")
customer.append("\n")
customer.append("Address2")
customer.append("\n")
customer.append("Address3")
# Add branch information
branch = MiniPage(width=NoEscape(r"0.49\textwidth"), pos='t!',
align='r')
branch.append("Branch no.")
branch.append(LineBreak())
branch.append(bold("1181..."))
branch.append(LineBreak())
branch.append(bold("TIB Cheque"))
first_page_table.add_row([customer, branch])
first_page_table.add_empty_row()
doc.change_document_style("firstpage")
doc.add_color(name="lightgray", model="gray", description="0.80")
# Add statement table
with doc.create(LongTabu("X[l] X[2l] X[r] X[r] X[r]",
row_height=1.5)) as data_table:
data_table.add_row(["date",
"description",
"debits($)",
"credits($)",
"balance($)"],
mapper=bold,
color="lightgray")
data_table.add_empty_row()
data_table.add_hline()
row = ["2016-JUN-01", "Test", "$100", "$1000", "-$900"]
for i in range(30):
if (i % 2) == 0:
data_table.add_row(row, color="lightgray")
else:
data_table.add_row(row)
doc.append(NewPage())
# Add cheque images
with doc.create(LongTabu("X[c] X[c]")) as cheque_table:
cheque_file = os.path.join(os.path.dirname(__file__),
'chequeexample.png')
cheque = StandAloneGraphic(cheque_file, image_options="width=200px")
for i in range(0, 20):
cheque_table.add_row([cheque, cheque])
doc.generate_pdf("complex_report", clean_tex=False)
def CreateDoc(self, outputNameRef=[""], outputDir=""):
def InsDatosEscolares(hasImage):
with self.doc.create(Tabular(NoEscape("m{0.8in}m{0.6in}m{0.9in}m{1.5in}m{2.3in}"))) as table:
if hasImage:
image = MultiRow(3, data=Command("includegraphics", NoEscape(self.data["Foto"][self.data["Foto"].rfind("/") + 1:][:self.data["Foto"].rfind(".")]),["width=1.5in", "height=1in"]))
else:
image = ""
table.add_row(("","","","",""))
table.add_row(("","","","", image))
table.add_row((bold("Matrícula: "), self.data["Matrícula"], bold("Licenciatura: "), self.data["Licenciatura"], ""))
table.add_row((bold("Semestre: "),self.data["Semestre"], bold("Generación: "), self.data["Generación"], ""))
def InsDatosPersonales():
with self.doc.create(SectionUnnumbered("Datos Personales")):
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Apellido Paterno"], self.data["Apellido Materno"], self.data["Nombre"]))
table.add_hline()
table.add_row((bold("Apellido Paterno"), bold("Apellido Materno"), bold("Nombre")))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Lugar de Nacimiento"], self.data["Fecha de Nacimiento"], self.data["Nacionalidad"]))
table.add_hline()
table.add_row((bold("Lugar de Nacimiento"), bold("Fecha de Nacimiento"), bold("Nacionalidad")))
def InsDatosDomicilio():
with self.doc.create(SectionUnnumbered("Domicilio Particular")):
Command("vspace", NoEscape("-1ex"))
with self.doc.create(Tabular(NoEscape("m{1.33in}m{0.6in}m{2in}m{1.9in}"))) as table:
table.add_row((self.data["Calle"], self.data["Número"], self.data["Colonia"], self.data["Población"]))
table.add_hline()
table.add_row((bold("Calle"), bold("Número"), bold("Colonia"), bold("Poblacion")))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Municipio"], self.data["Estado"], self.data["C.P."]))
table.add_hline()
table.add_row((bold("Municipio"), bold("Estado"), bold("C.P.")))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Particular"], self.data["Teléfono Celular"], self.data["Correo"]))
table.add_hline()
table.add_row((bold("Teléfono Particular"), bold("Teléfono Celular"), bold("Correo Electrónico")))
def InsDatosTrabajo():
with self.doc.create(SectionUnnumbered("Datos del Trabajo")):
Command("vspace", NoEscape("-1ex"))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\"\
.format(bold("Empresa o Institución"), makeUnderline(self.data["Empresa"], 2.5),bold("Teléfono"), makeUnderline(self.data["Teléfono Empresa"], 1.65))
))
with self.doc.create(Tabular(NoEscape("m{1.3in}m{0.6in}m{2in}m{1.9in}"))) as table:
table.add_row((self.data["Calle Empresa"], self.data["Número Empresa"], self.data["Colonia Empresa"], self.data["Municipio Empresa"]))
table.add_hline()
table.add_row((bold("Calle"), bold("Número"), bold("Colonia"), bold("Municipio")))
def InsDatosFamiliares():
with self.doc.create(SectionUnnumbered("Datos Familiares")):
Command("vspace", NoEscape("-1ex"))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\{}: {} {}: {}\\"\
.format(bold("Nombre del Padre"), makeUnderline(self.data["Nombre del Padre"], 2.75),bold("Teléfono"), makeUnderline(self.data["Teléfono Padre"], 1.65),\
bold("Domicilio"), makeUnderline(self.data["Dirección Padre"], 3.35),bold("Empresa"), makeUnderline(self.data["Negocio Padre"], 1.63))
))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Padre"], self.data["Celular Padre"], self.data["Correo Padre"]))
table.add_hline()
table.add_row((bold("Teléfono Particular"), bold("Teléfono Celular"), bold("Correo Electrónico")))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\{}: {} {}: {}\\"\
.format(bold("Nombre de la Madre"), makeUnderline(self.data["Nombre de la Madre"], 2.75),bold("Teléfono"), makeUnderline(self.data["Teléfono Madre"], 1.55),\
bold("Domicilio"), makeUnderline(self.data["Dirección Madre"], 3.35),bold("Empresa"), makeUnderline(self.data["Negocio Madre"], 1.63))
))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Madre"], self.data["Celular Madre"], self.data["Correo Madre"]))
table.add_hline()
table.add_row((bold("Teléfono Particular"), bold("Teléfono Celular"), bold("Correo Electrónico")))
def InsDatosEmergencia():
with self.doc.create(SectionUnnumbered("En caso de emergencia")):
Command("vspace", NoEscape("-1ex"))
self.doc.append(NoEscape(\
r"{}{} {}: {} \\{}: {}\\"\
.format(bold("¿Padece alguna enfermedad?"), makeUnderline(self.data["¿Enfermedad?"], 0.2),bold("Especifique"), makeUnderline(self.data["Enfermedad"], 3.4), bold("Tipo de Sangre"), makeUnderline(self.data["Tipo de Sangre"], .5))
))
self.doc.append(NoEscape(\
r"{}:\\{}: {} {}: {}\\ "\
.format(bold("Contactar a"), bold("Nombre"), makeUnderline(self.data["Nombre Contacto"], 3.52),bold("Parentesco"), makeUnderline(self.data["Parentesco"], 1.5))
))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Contacto"], self.data["Celular Contacto"], self.data["Correo Contacto"]))
table.add_hline()
table.add_row((bold("Teléfono Particular"), bold("Teléfono Celular"), bold("Correo Electrónico")))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\"\
.format(bold("Domicilio"), makeUnderline(self.data["Dirección Contacto"], 3.35),bold("Empresa"), makeUnderline(self.data["Negocio Contacto"], 1.63))
))
if outputDir is "":
outputDir = os.sys.path[0]
#self.doc = Document()
hasImage = self.data["Foto"] != ""
self.doc.packages.append(Package("geometry", options=["a4paper"]))
self.doc.packages.append(Package("array"))
self.doc.packages.append(Package("fullpage"))
self.doc.preamble.append(Command("title", bold(NoEscape(r"Solicitud de Inscripción"))))
self.doc.preamble.append(Command('date', Command("vspace", NoEscape("-15ex"))))
self.doc.preamble.append(Command("pagenumbering", "gobble"))
self.doc.preamble.append(Command("hfuzz=2cm"))
if hasImage:
self.doc.packages.append(Package("graphicx"))
self.doc.preamble.append(Command("graphicspath", NoEscape("{}".format("{" + self.data["Foto"][:self.data["Foto"].rfind("/")] +"/}"))))
self.doc.append(NoEscape(r'\maketitle'))
self.doc.append(NoEscape(r"\noindent"))
InsDatosEscolares(hasImage)
InsDatosPersonales()
InsDatosDomicilio()
InsDatosTrabajo()
InsDatosFamiliares()
InsDatosEmergencia()
self.doc.append(NoEscape("{} {}: {}".format(Command("hfill").dumps(), bold("Fecha"), self.data["Fecha"])))
outputName = "Inscripción_" + str("{}_" * len(outputNameRef)).format(*[self.data[x] for x in outputNameRef])[:-1]
outputName = outputName.replace(" ", "_")
self.doc.generate_tex("{}/{}".format("Outputs", outputName))
os.system("{} {}/{}.tex -output-directory={}".format("pdflatex", "Outputs", outputName, outputDir))
os.startfile("{}/{}.pdf".format(outputDir, outputName))
os.remove("{}/{}.AUX".format(outputDir, outputName))
os.remove("{}/{}.log".format(outputDir, outputName))
def InsDatosFamiliares():
with self.doc.create(SectionUnnumbered("Datos Familiares")):
Command("vspace", NoEscape("-1ex"))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\{}: {} {}: {}\\"\
.format(bold("Nombre del Padre"), makeUnderline(self.data["Nombre del Padre"], 2.75),bold("Teléfono"), makeUnderline(self.data["Teléfono Padre"], 1.65),\
bold("Domicilio"), makeUnderline(self.data["Dirección Padre"], 3.35),bold("Empresa"), makeUnderline(self.data["Negocio Padre"], 1.63))
))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Padre"], self.data["Celular Padre"], self.data["Correo Padre"]))
table.add_hline()
table.add_row((bold("Teléfono Particular"), bold("Teléfono Celular"), bold("Correo Electrónico")))
self.doc.append(NoEscape(\
r"{}: {} {}: {}\\{}: {} {}: {}\\"\
.format(bold("Nombre de la Madre"), makeUnderline(self.data["Nombre de la Madre"], 2.75),bold("Teléfono"), makeUnderline(self.data["Teléfono Madre"], 1.55),\
bold("Domicilio"), makeUnderline(self.data["Dirección Madre"], 3.35),bold("Empresa"), makeUnderline(self.data["Negocio Madre"], 1.63))
))
with self.doc.create(Tabular(NoEscape("m{2in}m{2in}m{2in}"))) as table:
table.add_row((self.data["Teléfono Madre"], self.data["Celular Madre"], self.data["Correo Madre"]))
table.add_hline()
table.add_row((bold("Teléfono Particular"), bold("Teléfono Celular"), bold("Correo Electrónico")))
v = VectorName(name='')
M = np.matrix([[2, 3, 4],
[0, 0, 1],
[0, 0, 2]])
m = Matrix(matrix=M, name='', mtype='p', alignment=None)
# Package
p = Package(name='', base='usepackage', options=None)
# PGFPlots
tikz = TikZ(data=None)
a = Axis(data=None, options=None)
p = Plot(name=None, func=None, coordinates=None, options=None)
# Utils
escape_latex(s='')
fix_filename(filename='')
dumps_list(l=[], escape=False, token='\n')
bold(s='')
italic(s='')
verbatim(s='', delimiter='|')
def tabulateAll(self):
"""
Create a table that summarises all input variables and additive
components, including the constant kernel as baseline and the final
full additive model.
"""
# 1-D variables
ks = self.best1d[:]
# Baseline: constant kernel
ks.append(self.constker)
# Additive components, if not 1-D
for k in self.summands:
if len(k.getActiveDims()) > 1:
ks.append(k)
# Full additive model, if involves more than one additive term
best = self.history[-1]
if len(self.summands) > 1:
ks.append(best)
ks.sort(key=lambda k: round(k.getNLML(), 2))
ks.sort(key=lambda k: round(k.error(), 4))
data = ks[0].data
ds = data.getDataShape()
nlml_min = round(min([k.getNLML() for k in ks]), 2)
error_min = round(min([k.error() for k in ks]), 4)
doc = self.doc
with doc.create(pl.Table(position='htbp!')) as tab:
caption_str = "Classification performance of the full model, its additive components (if any), all input variables, and the baseline."
tab.add_caption(ut.NoEscape(caption_str))
t = pl.Tabular('rlrr')
# Header
t.add_hline()
t.add_row((
pl.MultiColumn(1, align='c', data='Dimensions'),
pl.MultiColumn(1, align='c', data='Kernel expression'),
pl.MultiColumn(1, align='c', data='NLML'),
pl.MultiColumn(1, align='c', data='Error') ))
t.add_hline()
# Entries
for k in ks:
if k is self.constker:
row = [
ut.italic('--', escape=False),
ut.italic('$' + k.latex() + '$ (Baseline)', escape=False),
ut.italic('{0:.2f}'.format(k.getNLML()), escape=False),
ut.italic(r'{0:.2f}\%'.format(k.error()*100), escape=False) ]
else:
dims = sorted(k.getActiveDims())
row = [
ut.NoEscape(', '.join([str(d + 1) for d in dims])),
ut.NoEscape('$' + k.latex() + '$'),
ut.NoEscape('{0:.2f}'.format(k.getNLML())),
ut.NoEscape(r'{0:.2f}\%'.format(k.error()*100)) ]
if round(k.getNLML(), 2) == nlml_min:
row[2] = ut.bold(row[2])
if round(k.error(), 4) == error_min:
row[3] = ut.bold(row[3])
t.add_row(tuple(row))
t.add_hline()
tab.append(ut.NoEscape(r'\centering'))
tab.append(t)
