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physics:master physics:renovate/mypy-1.x physics:renovate/pytest-cov-7.x physics:renovate/numpy-2.x physics:renovate/python-semantic-release-10.x physics:renovate/black-25.x physics:renovate/numpy-1.x physics:renovate/flake8-7.x physics:renovate/mypy-0.x physics:renovate/scipy-1.x
physics:1.7.0 physics:1.6.0 physics:1.5.0 physics:1.4.0 physics:1.3.0 physics:1.2.1 physics:1.2.0 physics:1.1.0 physics:1.0.1 physics:1.0.0 physics:0.8.1 physics:0.8.0 physics:0.7.10 physics:0.7.9 physics:0.7.8 physics:0.7.7 physics:0.7.6 physics:0.7.5 physics:0.7.4 physics:0.7.3 physics:0.7.2 physics:0.7.1 physics:0.7.0 physics:0.6.7 physics:0.6.6 physics:0.6.5 physics:0.6.4 physics:0.6.3 physics:0.6.2 physics:0.6.1 physics:0.6.0 physics:0.5.0 physics:0.4.0 physics:0.3.5 physics:0.3.4 physics:0.3.3 physics:0.3.2 physics:0.3.1 physics:v0.3.0 physics:0.2.4 physics:0.2.3 physics:0.2.2 physics:0.2.1 physics:0.2.0 physics:0.1.5 physics:0.1.4 physics:0.1.3 physics:0.1.2 physics:0.1.1
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physics:1.7.0 physics:1.6.0 physics:1.5.0 physics:1.4.0 physics:1.3.0 physics:1.2.1 physics:1.2.0 physics:1.1.0 physics:1.0.1 physics:1.0.0 physics:0.8.1 physics:0.8.0 physics:0.7.10 physics:0.7.9 physics:0.7.8 physics:0.7.7 physics:0.7.6 physics:0.7.5 physics:0.7.4 physics:0.7.3 physics:0.7.2 physics:0.7.1 physics:0.7.0 physics:0.6.7 physics:0.6.6 physics:0.6.5 physics:0.6.4 physics:0.6.3 physics:0.6.2 physics:0.6.1 physics:0.6.0 physics:0.5.0 physics:0.4.0 physics:0.3.5 physics:0.3.4 physics:0.3.3 physics:0.3.2 physics:0.3.1 physics:v0.3.0 physics:0.2.4 physics:0.2.3 physics:0.2.2 physics:0.2.1 physics:0.2.0 physics:0.1.5 physics:0.1.4 physics:0.1.3 physics:0.1.2 physics:0.1.1

8 Commits
0.1.4 ... 0.2.2

Author SHA1 Message Date
Deepak Mallubhotla
521b49f14c Created version 0.2.2
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2022-02-06 19:37:15 -06:00
Deepak Mallubhotla
6d65e8dec5 fix: ignores extra fields in dictwriter 2022-02-06 19:36:59 -06:00
Deepak Mallubhotla
36354c2f2c Adds patch
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2022-02-06 19:29:17 -06:00
Deepak Mallubhotla
3534593557 fix: Take first element of solution list 2022-02-06 19:28:54 -06:00
Deepak Mallubhotla
6ada52f82c Minor version bump
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2022-02-06 19:03:24 -06:00
Deepak Mallubhotla
34e124b18f feat: Adds better diagnostic of full dipole info 2022-02-06 19:03:04 -06:00
Deepak Mallubhotla
c1591c9ce9 Created version 0.1.5
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2022-01-30 20:53:48 -06:00
Deepak Mallubhotla
10358287d9 Makes frequency cappable
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2022-01-30 20:52:32 -06:00
4 changed files with 86 additions and 70 deletions
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9
deepdog/bayes_run.py
View File

@@ -41,7 +41,7 @@ class BayesRun():
run_count: int run_count: int
The number of runs to do. The number of runs to do.
''' '''
def __init__(self, dot_inputs: Sequence[DotInput], discretisations_with_names: Sequence[Tuple[str, pdme.model.Discretisation]], actual_model: pdme.model.Model, filename_slug: str, run_count: int) -> None: def __init__(self, dot_inputs: Sequence[DotInput], discretisations_with_names: Sequence[Tuple[str, pdme.model.Discretisation]], actual_model: pdme.model.Model, filename_slug: str, run_count: int, max_frequency: float = None) -> None:
self.dot_inputs = dot_inputs self.dot_inputs = dot_inputs
self.discretisations = [disc for (_, disc) in discretisations_with_names] self.discretisations = [disc for (_, disc) in discretisations_with_names]
self.model_names = [name for (name, _) in discretisations_with_names] self.model_names = [name for (name, _) in discretisations_with_names]
@@ -58,6 +58,7 @@ class BayesRun():
timestamp = datetime.datetime.now().strftime("%Y%m%d-%H%M%S") timestamp = datetime.datetime.now().strftime("%Y%m%d-%H%M%S")
self.filename = f"{timestamp}-{filename_slug}.csv" self.filename = f"{timestamp}-{filename_slug}.csv"
self.max_frequency = max_frequency
def go(self) -> None: def go(self) -> None:
with open(self.filename, "a", newline="") as outfile: with open(self.filename, "a", newline="") as outfile:
@@ -65,7 +66,11 @@ class BayesRun():
writer.writeheader() writer.writeheader()
for run in range(1, self.run_count + 1): for run in range(1, self.run_count + 1):
dipoles = self.actual_model.get_dipoles(run) frequency: float = run
if self.max_frequency is not None and self.max_frequency > 1:
rng = numpy.random.default_rng()
frequency = rng.uniform(1, self.max_frequency)
dipoles = self.actual_model.get_dipoles(frequency)
dots = dipoles.get_dot_measurements(self.dot_inputs) dots = dipoles.get_dot_measurements(self.dot_inputs)
_logger.info(f"Going to work on dipole at {dipoles.dipoles}") _logger.info(f"Going to work on dipole at {dipoles.dipoles}")

43
deepdog/diagnostic.py
View File

@@ -3,6 +3,7 @@ import pdme
from deepdog.bayes_run import DotInput from deepdog.bayes_run import DotInput
import datetime import datetime
import numpy import numpy
from dataclasses import dataclass
import logging import logging
from typing import Sequence, Tuple from typing import Sequence, Tuple
import csv import csv
@@ -16,6 +17,30 @@ def get_a_result(discretisation, dots, index):
return (index, discretisation.solve_for_index(dots, index)) return (index, discretisation.solve_for_index(dots, index))
@dataclass
class SingleDipoleDiagnostic():
model: str
index: Tuple
bounds: Tuple
actual_dipole: OscillatingDipole
result_dipole: OscillatingDipole
success: bool
def __post_init__(self) -> None:
self.p_actual_x = self.actual_dipole.p[0]
self.p_actual_y = self.actual_dipole.p[1]
self.p_actual_z = self.actual_dipole.p[2]
self.s_actual_x = self.actual_dipole.s[0]
self.s_actual_y = self.actual_dipole.s[1]
self.s_actual_z = self.actual_dipole.s[2]
self.p_result_x = self.result_dipole.p[0]
self.p_result_y = self.result_dipole.p[1]
self.p_result_z = self.result_dipole.p[2]
self.s_result_x = self.result_dipole.s[0]
self.s_result_y = self.result_dipole.s[1]
self.s_result_z = self.result_dipole.s[2]
class Diagnostic(): class Diagnostic():
''' '''
Represents a diagnostic for a single dipole moment given a set of discretisations. Represents a diagnostic for a single dipole moment given a set of discretisations.
@@ -40,10 +65,10 @@ class Diagnostic():
self.discretisations_with_names = discretisations_with_names self.discretisations_with_names = discretisations_with_names
self.model_count = len(self.discretisations_with_names) self.model_count = len(self.discretisations_with_names)
self.csv_fields = ["model", "index", "bounds", "actual_dipole_moment", "actual_dipole_position", "actual_dipole_freq", "success", "result"] self.csv_fields = ["model", "index", "bounds", "p_actual_x", "p_actual_y", "p_actual_z", "s_actual_x", "s_actual_y", "s_actual_z", "actual_dipole_freq", "success", "p_result_x", "p_result_y", "p_result_z", "s_result_x", "s_result_y", "s_result_z"]
timestamp = datetime.datetime.now().strftime("%Y%m%d-%H%M%S") timestamp = datetime.datetime.now().strftime("%Y%m%d-%H%M%S")
self.filename = f"{timestamp}-{filename_slug}.csv" self.filename = f"{timestamp}-{filename_slug}.diag.csv"
def go(self): def go(self):
with open(self.filename, "a", newline="") as outfile: with open(self.filename, "a", newline="") as outfile:
@@ -59,22 +84,14 @@ class Diagnostic():
results = pool.starmap(get_a_result, zip(itertools.repeat(discretisation), itertools.repeat(self.dots), discretisation.all_indices())) results = pool.starmap(get_a_result, zip(itertools.repeat(discretisation), itertools.repeat(self.dots), discretisation.all_indices()))
with open(self.filename, "a", newline='') as outfile: with open(self.filename, "a", newline='') as outfile:
writer = csv.DictWriter(outfile, fieldnames=self.csv_fields, dialect='unix') writer = csv.DictWriter(outfile, fieldnames=self.csv_fields, dialect='unix', extrasaction="ignore")
for idx, result in results: for idx, result in results:
bounds = discretisation.bounds(idx) bounds = discretisation.bounds(idx)
actual_success = result.success and result.cost <= 1e-10 actual_success = result.success and result.cost <= 1e-10
row = { diag_row = SingleDipoleDiagnostic(name, idx, bounds, self.dipoles.dipoles[0], discretisation.model.solution_as_dipoles(result.normalised_x)[0], actual_success)
"model": name, row = vars(diag_row)
"index": idx,
"bounds": bounds,
"actual_dipole_moment": self.dipoles.dipoles[0].p,
"actual_dipole_position": self.dipoles.dipoles[0].s,
"actual_dipole_freq": self.dipoles.dipoles[0].w,
"success": actual_success,
"result": result.normalised_x if actual_success else None,
}
_logger.debug(f"Writing result {row}") _logger.debug(f"Writing result {row}")
writer.writerow(row) writer.writerow(row)

100
poetry.lock generated
View File

@@ -30,11 +30,11 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
[[package]] [[package]]
name = "coverage" name = "coverage"
version = "6.2" version = "6.3.1"
description = "Code coverage measurement for Python" description = "Code coverage measurement for Python"
category = "dev" category = "dev"
optional = false optional = false
python-versions = ">=3.6" python-versions = ">=3.7"
[package.dependencies] [package.dependencies]
tomli = {version = "*", optional = true, markers = "extra == \"toml\""} tomli = {version = "*", optional = true, markers = "extra == \"toml\""}
@@ -117,7 +117,7 @@ pyparsing = ">=2.0.2,<3.0.5 || >3.0.5"
[[package]] [[package]]
name = "pdme" name = "pdme"
version = "0.4.1" version = "0.5.0"
description = "Python dipole model evaluator" description = "Python dipole model evaluator"
category = "main" category = "main"
optional = false optional = false
@@ -248,7 +248,7 @@ python-versions = ">=3.6"
[metadata] [metadata]
lock-version = "1.1" lock-version = "1.1"
python-versions = "^3.8,<3.10" python-versions = "^3.8,<3.10"
content-hash = "d0cc6fcaa5f489054917fd097c7f86bb314b4f7b76c14cddecb9cd9ef1a24d72" content-hash = "783e64d96cac128430eb53d6ccee9c5e5693a6be7670c9b403b3322530c9b0cb"
[metadata.files] [metadata.files]
atomicwrites = [ atomicwrites = [
@@ -264,53 +264,47 @@ colorama = [
{file = "colorama-0.4.4.tar.gz", hash = "sha256:5941b2b48a20143d2267e95b1c2a7603ce057ee39fd88e7329b0c292aa16869b"}, {file = "colorama-0.4.4.tar.gz", hash = "sha256:5941b2b48a20143d2267e95b1c2a7603ce057ee39fd88e7329b0c292aa16869b"},
] ]
coverage = [ coverage = [
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4
pyproject.toml
View File

@@ -1,12 +1,12 @@
[tool.poetry] [tool.poetry]
name = "deepdog" name = "deepdog"
version = "0.1.4" version = "0.2.2"
description = "" description = ""
authors = ["Deepak Mallubhotla <dmallubhotla+github@gmail.com>"] authors = ["Deepak Mallubhotla <dmallubhotla+github@gmail.com>"]
[tool.poetry.dependencies] [tool.poetry.dependencies]
python = "^3.8,<3.10" python = "^3.8,<3.10"
pdme = "^0.4.1" pdme = "^0.5.0"
[tool.poetry.dev-dependencies] [tool.poetry.dev-dependencies]
pytest = ">=6" pytest = ">=6"