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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.sourcekey | def sourcekey(self, **kwargs):
""" Return a key that specifies the name and version of a source or component
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
try:
return NameFactory.sourcekey_format.f... | python | def sourcekey(self, **kwargs):
""" Return a key that specifies the name and version of a source or component
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.galprop_gasmap | def galprop_gasmap(self, **kwargs):
""" return the file name for Galprop input gasmaps
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.galprop_gasmap_format.format(**kwargs_copy)
... | python | def galprop_gasmap(self, **kwargs):
""" return the file name for Galprop input gasmaps
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.galprop_gasmap_format.format(**kwargs_copy)
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.merged_gasmap | def merged_gasmap(self, **kwargs):
""" return the file name for Galprop merged gasmaps
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.merged_gasmap_format.format(**kwargs_copy)
i... | python | def merged_gasmap(self, **kwargs):
""" return the file name for Galprop merged gasmaps
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.merged_gasmap_format.format(**kwargs_copy)
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.diffuse_template | def diffuse_template(self, **kwargs):
""" return the file name for other diffuse map templates
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.diffuse_template_format.format(**kwargs_copy... | python | def diffuse_template(self, **kwargs):
""" return the file name for other diffuse map templates
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.diffuse_template_format.format(**kwargs_copy... | [
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.spectral_template | def spectral_template(self, **kwargs):
""" return the file name for spectral templates
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
localpath = NameFactory.spectral_template_format.format(**kwargs_copy)
if kwargs.get('fullpath', False):
... | python | def spectral_template(self, **kwargs):
""" return the file name for spectral templates
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
localpath = NameFactory.spectral_template_format.format(**kwargs_copy)
if kwargs.get('fullpath', False):
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.srcmdl_xml | def srcmdl_xml(self, **kwargs):
""" return the file name for source model xml files
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
localpath = NameFactory.srcmdl_xml_format.format(**kwargs_copy)
if kwargs.get('fullpath', False):
return se... | python | def srcmdl_xml(self, **kwargs):
""" return the file name for source model xml files
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
localpath = NameFactory.srcmdl_xml_format.format(**kwargs_copy)
if kwargs.get('fullpath', False):
return se... | [
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.nested_srcmdl_xml | def nested_srcmdl_xml(self, **kwargs):
""" return the file name for source model xml files of nested sources
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.nested_srcmdl_xml_format.forma... | python | def nested_srcmdl_xml(self, **kwargs):
""" return the file name for source model xml files of nested sources
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.ft1file | def ft1file(self, **kwargs):
""" return the name of the input ft1 file list
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
self._replace_none(kwargs_copy)
localpat... | python | def ft1file(self, **kwargs):
""" return the name of the input ft1 file list
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
self._replace_none(kwargs_copy)
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.ft2file | def ft2file(self, **kwargs):
""" return the name of the input ft2 file list
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['data_time'] = kwargs.get(
'data_time', self.dataset(**kwargs))
self._replace_none(kwargs_copy) ... | python | def ft2file(self, **kwargs):
""" return the name of the input ft2 file list
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['data_time'] = kwargs.get(
'data_time', self.dataset(**kwargs))
self._replace_none(kwargs_copy) ... | [
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.ccube | def ccube(self, **kwargs):
""" return the name of a counts cube file
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
kwargs_copy['component'] = kwargs.get(
'component',... | python | def ccube(self, **kwargs):
""" return the name of a counts cube file
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
kwargs_copy['component'] = kwargs.get(
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.mcube | def mcube(self, **kwargs):
""" return the name of a model cube file
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
kwargs_copy['component'] = kwargs.get(
'component', ... | python | def mcube(self, **kwargs):
""" return the name of a model cube file
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
kwargs_copy['component'] = kwargs.get(
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.angprofile | def angprofile(self, **kwargs):
""" return the file name for sun or moon angular profiles
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.angprofile_format.format(**kwargs_copy)
i... | python | def angprofile(self, **kwargs):
""" return the file name for sun or moon angular profiles
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.angprofile_format.format(**kwargs_copy)
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.template_sunmoon | def template_sunmoon(self, **kwargs):
""" return the file name for sun or moon template files
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
kwargs_copy['component'] = kwargs.get(... | python | def template_sunmoon(self, **kwargs):
""" return the file name for sun or moon template files
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
kwargs_copy['component'] = kwargs.get(... | [
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.residual_cr | def residual_cr(self, **kwargs):
"""Return the name of the residual CR analysis output files"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
kwargs_copy['component'] = kwargs.get(
... | python | def residual_cr(self, **kwargs):
"""Return the name of the residual CR analysis output files"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
kwargs_copy['dataset'] = kwargs.get('dataset', self.dataset(**kwargs))
kwargs_copy['component'] = kwargs.get(
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.galprop_rings_yaml | def galprop_rings_yaml(self, **kwargs):
""" return the name of a galprop rings merging yaml file
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.galprop_rings_yaml_format.format(**kwargs_... | python | def galprop_rings_yaml(self, **kwargs):
""" return the name of a galprop rings merging yaml file
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
localpath = NameFactory.galprop_rings_yaml_format.format(**kwargs_... | [
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.catalog_split_yaml | def catalog_split_yaml(self, **kwargs):
""" return the name of a catalog split yaml file
"""
kwargs_copy = self.base_dict.copy()
kwargs_copy.update(**kwargs)
self._replace_none(kwargs_copy)
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.fullpath | def fullpath(self, **kwargs):
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.generic | def generic(self, input_string, **kwargs):
""" return a generic filename for a given dataset and component
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""" return a generic filename for a given dataset and component
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fermiPy/fermipy | fermipy/diffuse/name_policy.py | NameFactory.make_filenames | def make_filenames(self, **kwargs):
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""" Make a dictionary of filenames for various types
"""
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fermiPy/fermipy | fermipy/gtutils.py | create_spectrum_from_dict | def create_spectrum_from_dict(spectrum_type, spectral_pars, fn=None):
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Parameters
----------
spectrum_type : str
String identifying the spectrum type (e.g. PowerLaw).
spectral_pars : dict
Dictionary of spectral parameters.
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spectrum_type : str
String identifying the spectrum type (e.g. PowerLaw).
spectral_pars : dict
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fermiPy/fermipy | fermipy/gtutils.py | get_priors | def get_priors(like):
"""Extract priors from a likelihood object."""
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errs = np.ones(npar)
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"""Extract priors from a likelihood object."""
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fermiPy/fermipy | fermipy/gtutils.py | get_source_pars | def get_source_pars(src):
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"""Extract the parameters associated with a pyLikelihood Source object.
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fermiPy/fermipy | fermipy/gtutils.py | SummedLikelihood.nFreeParams | def nFreeParams(self):
"""Count the number of free parameters in the active model."""
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pars = self.params()
for par in pars:
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nF += 1
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"""Count the number of free parameters in the active model."""
nF = 0
pars = self.params()
for par in pars:
if par.isFree():
nF += 1
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fermiPy/fermipy | fermipy/gtutils.py | BinnedAnalysis.Ts2 | def Ts2(self, srcName, reoptimize=False, approx=True,
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If "reoptimize=True" is selected this function will reoptimize
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather._make_scatter_logfile_name | def _make_scatter_logfile_name(cls, key, linkname, job_config):
"""Hook to inster the name of a logfile into the input config """
logfile = job_config.get('logfile', "%s_%s_%s.log" %
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job_config['logfile'] = logfile | python | def _make_scatter_logfile_name(cls, key, linkname, job_config):
"""Hook to inster the name of a logfile into the input config """
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.create | def create(cls, **kwargs):
"""Build and return a `ScatterGather` object """
linkname = kwargs.setdefault('linkname', cls.clientclass.linkname_default)
# Don't use setdefault b/c we don't want to build a JobArchive
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job_archive = kwargs.get('job_archive', None... | python | def create(cls, **kwargs):
"""Build and return a `ScatterGather` object """
linkname = kwargs.setdefault('linkname', cls.clientclass.linkname_default)
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather._check_link_completion | def _check_link_completion(self, link, fail_pending=False, fail_running=False):
"""Internal function to check the completion of all the dispatched jobs
Returns
-------
status_vect : `JobStatusVector`
Vector that summarize the number of jobs in various states.
"""
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status_vect : `JobStatusVector`
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather._build_job_dict | def _build_job_dict(self):
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"""Build a dictionary of `JobDetails` objects for the internal `Link`"""
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather._invoke | def _invoke(self, argv, stream=sys.stdout, resubmit_failed=False):
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Parameters
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argv : list
List of command line arguments, passed to helper classes
stream : `file`
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.update_args | def update_args(self, override_args):
"""Update the arguments used to invoke the application
Note that this will also update the dictionary of input and output files
Parameters
----------
override_args : dict
dictionary of arguments to override the current values
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"""Update the arguments used to invoke the application
Note that this will also update the dictionary of input and output files
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.clear_jobs | def clear_jobs(self, recursive=True):
"""Clear the self.jobs dictionary that contains information
about jobs associated with this `ScatterGather`
If recursive is True this will include jobs from all internal `Link`
"""
if recursive:
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"""Clear the self.jobs dictionary that contains information
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.check_status | def check_status(self, stream=sys.stdout,
check_once=False,
fail_pending=False, fail_running=False,
no_wait=False, do_print=True,
write_status=False):
"""Loop to check on the status of all the jobs in job dict.
Paramete... | python | def check_status(self, stream=sys.stdout,
check_once=False,
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no_wait=False, do_print=True,
write_status=False):
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.run_jobs | def run_jobs(self, stream=sys.stdout, resubmit_failed=False):
"""Function to dipatch jobs and collect results
Parameters
-----------
stream : `file`
Stream that this function will print to,
Must have 'write' function.
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R... | python | def run_jobs(self, stream=sys.stdout, resubmit_failed=False):
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stream : `file`
Stream that this function will print to,
Must have 'write' function.
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.resubmit | def resubmit(self, stream=sys.stdout, fail_running=False, resubmit_failed=False):
"""Function to resubmit failed jobs and collect results
Parameters
-----------
stream : `file`
Stream that this function will print to,
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"""Function to resubmit failed jobs and collect results
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stream : `file`
Stream that this function will print to,
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.clean_jobs | def clean_jobs(self, recursive=False):
"""Clean up all the jobs associated with this object.
If recursive is True this also clean jobs dispatch by this
object."""
self._interface.clean_jobs(self.scatter_link,
clean_all=recursive) | python | def clean_jobs(self, recursive=False):
"""Clean up all the jobs associated with this object.
If recursive is True this also clean jobs dispatch by this
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.print_update | def print_update(self, stream=sys.stdout, job_stats=None):
"""Print an update about the current number of jobs running """
if job_stats is None:
job_stats = JobStatusVector()
job_det_list = []
job_det_list += self._scatter_link.jobs.values()
for job_dets ... | python | def print_update(self, stream=sys.stdout, job_stats=None):
"""Print an update about the current number of jobs running """
if job_stats is None:
job_stats = JobStatusVector()
job_det_list = []
job_det_list += self._scatter_link.jobs.values()
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fermiPy/fermipy | fermipy/jobs/scatter_gather.py | ScatterGather.print_failed | def print_failed(self, stream=sys.stderr):
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if job_details.status == JobStatus.failed:
stream.write("Failed job %s\n log = %s\n" %
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"""Print list of the failed jobs """
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fermiPy/fermipy | fermipy/scripts/collect_sources.py | read_sources_from_numpy_file | def read_sources_from_numpy_file(npfile):
""" Open a numpy pickle file and read all the new sources into a dictionary
Parameters
----------
npfile : file name
The input numpy pickle file
Returns
-------
tab : `~astropy.table.Table`
"""
srcs = np.load(npfile).flat[0]['sources... | python | def read_sources_from_numpy_file(npfile):
""" Open a numpy pickle file and read all the new sources into a dictionary
Parameters
----------
npfile : file name
The input numpy pickle file
Returns
-------
tab : `~astropy.table.Table`
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fermiPy/fermipy | fermipy/scripts/collect_sources.py | read_sources_from_yaml_file | def read_sources_from_yaml_file(yamlfile):
""" Open a yaml file and read all the new sources into a dictionary
Parameters
----------
yaml : file name
The input yaml file
Returns
-------
tab : `~astropy.table.Table`
"""
f = open(yamlfile)
dd = yaml.load(f)
srcs = dd['... | python | def read_sources_from_yaml_file(yamlfile):
""" Open a yaml file and read all the new sources into a dictionary
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----------
yaml : file name
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tab : `~astropy.table.Table`
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fermiPy/fermipy | fermipy/scripts/collect_sources.py | merge_source_tables | def merge_source_tables(src_tab, tab, all_sources=False, prefix="", suffix="",
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"""Append the sources in a table into another table.
Parameters
----------
src_tab : `~astropy.table.Table`
Master source table that will be appended with the sources in
... | python | def merge_source_tables(src_tab, tab, all_sources=False, prefix="", suffix="",
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"""Append the sources in a table into another table.
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src_tab : `~astropy.table.Table`
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fermiPy/fermipy | fermipy/ltcube.py | fill_livetime_hist | def fill_livetime_hist(skydir, tab_sc, tab_gti, zmax, costh_edges):
"""Generate a sequence of livetime distributions at the sky
positions given by ``skydir``. The output of the method are two
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fermiPy/fermipy | fermipy/ltcube.py | LTCube.create | def create(cls, ltfile):
"""Create a livetime cube from a single file or list of
files."""
if not re.search('\.txt?', ltfile) is None:
files = np.loadtxt(ltfile, unpack=True, dtype='str')
elif not isinstance(ltfile, list):
files = glob.glob(ltfile)
ltc =... | python | def create(cls, ltfile):
"""Create a livetime cube from a single file or list of
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files = np.loadtxt(ltfile, unpack=True, dtype='str')
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fermiPy/fermipy | fermipy/ltcube.py | LTCube.create_empty | def create_empty(cls, tstart, tstop, fill=0.0, nside=64):
"""Create an empty livetime cube."""
cth_edges = np.linspace(0, 1.0, 41)
domega = utils.edge_to_width(cth_edges) * 2.0 * np.pi
hpx = HPX(nside, True, 'CEL', ebins=cth_edges)
data = np.ones((len(cth_edges) - 1, hpx.npix)) *... | python | def create_empty(cls, tstart, tstop, fill=0.0, nside=64):
"""Create an empty livetime cube."""
cth_edges = np.linspace(0, 1.0, 41)
domega = utils.edge_to_width(cth_edges) * 2.0 * np.pi
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fermiPy/fermipy | fermipy/ltcube.py | LTCube.create_skydir_ltcube | def create_skydir_ltcube(self, skydir, tab_sc, tab_gti, zmax):
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observing profile ratio in the direction ``skydir``. This
method can be used to generate an approximate livetime cube
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... | python | def create_skydir_ltcube(self, skydir, tab_sc, tab_gti, zmax):
"""Create a new livetime cube by scaling this one by the
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fermiPy/fermipy | fermipy/ltcube.py | LTCube.write | def write(self, outfile):
"""Write the livetime cube to a FITS file."""
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hdu_exp.name = 'EXPOSURE'
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"""Write the livetime cube to a FITS file."""
hdu_pri = fits.PrimaryHDU()
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hdu_exp.name = 'EXPOSURE'
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fermiPy/fermipy | fermipy/plotting.py | make_cube_slice | def make_cube_slice(map_in, loge_bounds):
"""Extract a slice from a map cube object.
"""
# FIXME: This functionality should be moved into a slice method of
# gammapy.maps
axis = map_in.geom.axes[0]
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"""Extract a slice from a map cube object.
"""
# FIXME: This functionality should be moved into a slice method of
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axis = map_in.geom.axes[0]
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fermiPy/fermipy | fermipy/plotting.py | SEDPlotter.plot_sed | def plot_sed(sed, showlnl=False, **kwargs):
"""Render a plot of a spectral energy distribution.
Parameters
----------
showlnl : bool
Overlay a map of the delta-loglikelihood values vs. flux
in each energy bin.
cmap : str
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"""Render a plot of a spectral energy distribution.
Parameters
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showlnl : bool
Overlay a map of the delta-loglikelihood values vs. flux
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cmap : str
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fermiPy/fermipy | fermipy/plotting.py | AnalysisPlotter.run | def run(self, gta, mcube_map, **kwargs):
"""Make all plots."""
prefix = kwargs.get('prefix', 'test')
format = kwargs.get('format', self.config['format'])
loge_bounds = [None] + self.config['loge_bounds']
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self.make_roi_plots(gta, mcube_map, loge... | python | def run(self, gta, mcube_map, **kwargs):
"""Make all plots."""
prefix = kwargs.get('prefix', 'test')
format = kwargs.get('format', self.config['format'])
loge_bounds = [None] + self.config['loge_bounds']
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fermiPy/fermipy | fermipy/plotting.py | AnalysisPlotter._plot_extension | def _plot_extension(self, gta, prefix, src, loge_bounds=None, **kwargs):
"""Utility function for generating diagnostic plots for the
extension analysis."""
# format = kwargs.get('format', self.config['plotting']['format'])
if loge_bounds is None:
loge_bounds = (self.energie... | python | def _plot_extension(self, gta, prefix, src, loge_bounds=None, **kwargs):
"""Utility function for generating diagnostic plots for the
extension analysis."""
# format = kwargs.get('format', self.config['plotting']['format'])
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fermiPy/fermipy | fermipy/jobs/gtlink.py | extract_parameters | def extract_parameters(pil, keys=None):
"""Extract and return parameter names and values from a pil object
Parameters
----------
pil : `Pil` object
keys : list
List of parameter names, if None, extact all parameters
Returns
-------
out_dict : dict
Dictionary with par... | python | def extract_parameters(pil, keys=None):
"""Extract and return parameter names and values from a pil object
Parameters
----------
pil : `Pil` object
keys : list
List of parameter names, if None, extact all parameters
Returns
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out_dict : dict
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fermiPy/fermipy | fermipy/jobs/gtlink.py | update_gtapp | def update_gtapp(gtapp, **kwargs):
"""Update the parameters of the object that can run ScienceTools applications
Parameters
----------
gtapp : `GtApp.GtApp`
Object that will run the application in question
kwargs : arguments used to invoke the application
"""
for key, val in kwar... | python | def update_gtapp(gtapp, **kwargs):
"""Update the parameters of the object that can run ScienceTools applications
Parameters
----------
gtapp : `GtApp.GtApp`
Object that will run the application in question
kwargs : arguments used to invoke the application
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fermiPy/fermipy | fermipy/jobs/gtlink.py | build_gtapp | def build_gtapp(appname, dry_run, **kwargs):
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Parameters
----------
appname : str
Name of the application (e.g., gtbin)
dry_run : bool
Print command but do not run it
kwargs : arguments used to invoke the application
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"""Build an object that can run ScienceTools application
Parameters
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appname : str
Name of the application (e.g., gtbin)
dry_run : bool
Print command but do not run it
kwargs : arguments used to invoke the application
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fermiPy/fermipy | fermipy/jobs/gtlink.py | run_gtapp | def run_gtapp(gtapp, stream, dry_run, **kwargs):
"""Runs one on the ScienceTools apps
Taken from fermipy.gtanalysis.run_gtapp by Matt Wood
Parameters
----------
gtapp : `GtApp.GtApp` object
The application (e.g., gtbin)
stream : stream object
Must have 'write' function
d... | python | def run_gtapp(gtapp, stream, dry_run, **kwargs):
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Taken from fermipy.gtanalysis.run_gtapp by Matt Wood
Parameters
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gtapp : `GtApp.GtApp` object
The application (e.g., gtbin)
stream : stream object
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fermiPy/fermipy | fermipy/diffuse/gt_assemble_model.py | InitModel.run_analysis | def run_analysis(self, argv):
""" Build the manifest for all the models
"""
args = self._parser.parse_args(argv)
components = Component.build_from_yamlfile(args.comp)
NAME_FACTORY.update_base_dict(args.data)
model_dict = make_library(**args.__dict__)
model_manager... | python | def run_analysis(self, argv):
""" Build the manifest for all the models
"""
args = self._parser.parse_args(argv)
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fermiPy/fermipy | fermipy/diffuse/gt_assemble_model.py | AssembleModel.copy_ccube | def copy_ccube(ccube, outsrcmap, hpx_order):
"""Copy a counts cube into outsrcmap file
reducing the HEALPix order to hpx_order if needed.
"""
sys.stdout.write(" Copying counts cube from %s to %s\n" % (ccube, outsrcmap))
try:
hdulist_in = fits.open(ccube)
exce... | python | def copy_ccube(ccube, outsrcmap, hpx_order):
"""Copy a counts cube into outsrcmap file
reducing the HEALPix order to hpx_order if needed.
"""
sys.stdout.write(" Copying counts cube from %s to %s\n" % (ccube, outsrcmap))
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fermiPy/fermipy | fermipy/diffuse/gt_assemble_model.py | AssembleModel.append_hdus | def append_hdus(hdulist, srcmap_file, source_names, hpx_order):
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Parameters
----------
hdulist : list
The list being appended to
srcmap_file : str
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source_names : list of str
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----------
hdulist : list
The list being appended to
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fermiPy/fermipy | fermipy/diffuse/gt_assemble_model.py | AssembleModel.assemble_component | def assemble_component(compname, compinfo, hpx_order):
"""Assemble the source map file for one binning component
Parameters
----------
compname : str
The key for this component (e.g., E0_PSF3)
compinfo : dict
Information about this component
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"""Assemble the source map file for one binning component
Parameters
----------
compname : str
The key for this component (e.g., E0_PSF3)
compinfo : dict
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fermiPy/fermipy | fermipy/diffuse/gt_assemble_model.py | AssembleModel.run_analysis | def run_analysis(self, argv):
"""Assemble the source map file for one binning component
FIXME
"""
args = self._parser.parse_args(argv)
manifest = yaml.safe_load(open(args.input))
compname = args.compname
value = manifest[compname]
self.assemble_component(... | python | def run_analysis(self, argv):
"""Assemble the source map file for one binning component
FIXME
"""
args = self._parser.parse_args(argv)
manifest = yaml.safe_load(open(args.input))
compname = args.compname
value = manifest[compname]
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jim-easterbrook/pywws | src/pywws/weatherstation.py | CUSBDrive.read_block | def read_block(self, address):
"""Read 32 bytes from the weather station.
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:param address: address to read from.
:type address: int
:return: the data from the weather station.
:rtype: list(int)
"""
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"""Read 32 bytes from the weather station.
If the read fails for any reason, :obj:`None` is returned.
:param address: address to read from.
:type address: int
:return: the data from the weather station.
:rtype: list(int)
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jim-easterbrook/pywws | src/pywws/weatherstation.py | CUSBDrive.write_byte | def write_byte(self, address, data):
"""Write a single byte to the weather station.
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:param data: the value to write.
:type data: int
:return: success status.
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"""Write a single byte to the weather station.
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jim-easterbrook/pywws | src/pywws/weatherstation.py | WeatherStation.inc_ptr | def inc_ptr(self, ptr):
"""Get next circular buffer data pointer."""
result = ptr + self.reading_len[self.ws_type]
if result >= 0x10000:
result = self.data_start
return result | python | def inc_ptr(self, ptr):
"""Get next circular buffer data pointer."""
result = ptr + self.reading_len[self.ws_type]
if result >= 0x10000:
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jim-easterbrook/pywws | src/pywws/weatherstation.py | WeatherStation.dec_ptr | def dec_ptr(self, ptr):
"""Get previous circular buffer data pointer."""
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jim-easterbrook/pywws | src/pywws/weatherstation.py | WeatherStation.get_raw_data | def get_raw_data(self, ptr, unbuffered=False):
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jim-easterbrook/pywws | src/pywws/weatherstation.py | WeatherStation.get_data | def get_data(self, ptr, unbuffered=False):
"""Get decoded data from circular buffer.
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jim-easterbrook/pywws | src/pywws/weatherstation.py | WeatherStation.current_pos | def current_pos(self):
"""Get circular buffer location where current data is being written."""
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if new_ptr == self._current_ptr:
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"""Get circular buffer location where current data is being written."""
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jim-easterbrook/pywws | src/pywws/device_pyusb.py | USBDevice._find_device | def _find_device(self, idVendor, idProduct):
"""Find a USB device by product and vendor id."""
for bus in usb.busses():
for device in bus.devices:
if (device.idVendor == idVendor and
device.idProduct == idProduct):
return device
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"""Find a USB device by product and vendor id."""
for bus in usb.busses():
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if (device.idVendor == idVendor and
device.idProduct == idProduct):
return device
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jim-easterbrook/pywws | src/pywws/sqlite3data.py | _adapt_WSDateTime | def _adapt_WSDateTime(dt):
"""Return unix timestamp of the datetime like input.
If conversion overflows high, return sint64_max ,
if underflows, return 0
"""
try:
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).total_seconds()... | python | def _adapt_WSDateTime(dt):
"""Return unix timestamp of the datetime like input.
If conversion overflows high, return sint64_max ,
if underflows, return 0
"""
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ts = int(
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jim-easterbrook/pywws | src/pywws/sqlite3data.py | CoreStore._predicate | def _predicate(self, i):
"""Given a valid datetime or slace, return the predicate portion
of the SQL query, a boolean indicating whether multiple items are
expected from the result, and a dictionary of parameters for the query
"""
if isinstance(i, slice):
if i.step is... | python | def _predicate(self, i):
"""Given a valid datetime or slace, return the predicate portion
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jim-easterbrook/pywws | src/pywws/localisation.py | set_locale | def set_locale(lang):
"""Set the 'locale' used by a program.
This affects the entire application, changing the way dates,
currencies and numbers are represented. It should not be called
from a library routine that may be used in another program.
The ``lang`` parameter can be any string that is rec... | python | def set_locale(lang):
"""Set the 'locale' used by a program.
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jim-easterbrook/pywws | src/pywws/localisation.py | set_application_language | def set_application_language(params):
"""Set the locale and translation for a pywws program.
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:param params: a :class:`pywws.storage.params` object.
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jim-easterbrook/pywws | src/pywws/storage.py | ParamStore.get | def get(self, section, option, default=None):
"""Get a parameter value and return a string.
If default is specified and section or option are not defined
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then the return value.
"""
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jim-easterbrook/pywws | src/pywws/storage.py | ParamStore.unset | def unset(self, section, option):
"""Remove option from section."""
with self._lock:
if not self._config.has_section(section):
return
if self._config.has_option(section, option):
self._config.remove_option(section, option)
self._dir... | python | def unset(self, section, option):
"""Remove option from section."""
with self._lock:
if not self._config.has_section(section):
return
if self._config.has_option(section, option):
self._config.remove_option(section, option)
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jim-easterbrook/pywws | src/pywws/service/__init__.py | ServiceBase.check_params | def check_params(self, *keys):
"""Ensure user has set required values in weather.ini.
Normally the :py:data:`~ServiceBase.config` names with
``required`` set are checked, but if your uploader has a
``register`` method you may need to check for other data.
:param str keys: the :... | python | def check_params(self, *keys):
"""Ensure user has set required values in weather.ini.
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jim-easterbrook/pywws | src/pywws/datastoretransfer.py | monitor | def monitor(i):
"""Given an iterator, yields data from it
but prints progress every 10,000 records"""
count = 0
for x in i:
count+=1
if count % 10000 == 0:
logger.info("%d records so far, current record is %s",
count, x["idx"])
yield x | python | def monitor(i):
"""Given an iterator, yields data from it
but prints progress every 10,000 records"""
count = 0
for x in i:
count+=1
if count % 10000 == 0:
logger.info("%d records so far, current record is %s",
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jim-easterbrook/pywws | src/pywws/process.py | calibrate_data | def calibrate_data(params, raw_data, calib_data):
"""'Calibrate' raw data, using a user-supplied function."""
start = calib_data.before(datetime.max)
if start is None:
start = datetime.min
start = raw_data.after(start + SECOND)
if start is None:
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"""'Calibrate' raw data, using a user-supplied function."""
start = calib_data.before(datetime.max)
if start is None:
start = datetime.min
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jim-easterbrook/pywws | src/pywws/process.py | generate_hourly | def generate_hourly(calib_data, hourly_data, process_from):
"""Generate hourly summaries from calibrated data."""
start = hourly_data.before(datetime.max)
if start is None:
start = datetime.min
start = calib_data.after(start + SECOND)
if process_from:
if start:
start = mi... | python | def generate_hourly(calib_data, hourly_data, process_from):
"""Generate hourly summaries from calibrated data."""
start = hourly_data.before(datetime.max)
if start is None:
start = datetime.min
start = calib_data.after(start + SECOND)
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jim-easterbrook/pywws | src/pywws/process.py | generate_daily | def generate_daily(day_end_hour, use_dst,
calib_data, hourly_data, daily_data, process_from):
"""Generate daily summaries from calibrated and hourly data."""
start = daily_data.before(datetime.max)
if start is None:
start = datetime.min
start = calib_data.after(start + SECOND)... | python | def generate_daily(day_end_hour, use_dst,
calib_data, hourly_data, daily_data, process_from):
"""Generate daily summaries from calibrated and hourly data."""
start = daily_data.before(datetime.max)
if start is None:
start = datetime.min
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jim-easterbrook/pywws | src/pywws/process.py | generate_monthly | def generate_monthly(rain_day_threshold, day_end_hour, use_dst,
daily_data, monthly_data, process_from):
"""Generate monthly summaries from daily data."""
start = monthly_data.before(datetime.max)
if start is None:
start = datetime.min
start = daily_data.after(start + SECOND... | python | def generate_monthly(rain_day_threshold, day_end_hour, use_dst,
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"""Generate monthly summaries from daily data."""
start = monthly_data.before(datetime.max)
if start is None:
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jim-easterbrook/pywws | src/pywws/process.py | process_data | def process_data(context):
"""Generate summaries from raw weather station data.
The meteorological day end (typically 2100 or 0900 local time) is
set in the preferences file ``weather.ini``. The default value is
2100 (2200 during DST), following the historical convention for
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jim-easterbrook/pywws | src/pywws/filedata.py | CoreStore.before | def before(self, idx):
"""Return datetime of newest existing data record whose
datetime is < idx.
Might not even be in the same year! If no such record exists,
return None."""
if not isinstance(idx, datetime):
raise TypeError("'%s' is not %s" % (idx, datetime))
... | python | def before(self, idx):
"""Return datetime of newest existing data record whose
datetime is < idx.
Might not even be in the same year! If no such record exists,
return None."""
if not isinstance(idx, datetime):
raise TypeError("'%s' is not %s" % (idx, datetime))
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jim-easterbrook/pywws | src/pywws/filedata.py | CoreStore.after | def after(self, idx):
"""Return datetime of oldest existing data record whose
datetime is >= idx.
Might not even be in the same year! If no such record exists,
return None."""
if not isinstance(idx, datetime):
raise TypeError("'%s' is not %s" % (idx, datetime))
... | python | def after(self, idx):
"""Return datetime of oldest existing data record whose
datetime is >= idx.
Might not even be in the same year! If no such record exists,
return None."""
if not isinstance(idx, datetime):
raise TypeError("'%s' is not %s" % (idx, datetime))
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jim-easterbrook/pywws | src/pywws/filedata.py | CoreStore.nearest | def nearest(self, idx):
"""Return datetime of record whose datetime is nearest idx."""
hi = self.after(idx)
lo = self.before(idx)
if hi is None:
return lo
if lo is None:
return hi
if abs(hi - idx) < abs(lo - idx):
return hi
retu... | python | def nearest(self, idx):
"""Return datetime of record whose datetime is nearest idx."""
hi = self.after(idx)
lo = self.before(idx)
if hi is None:
return lo
if lo is None:
return hi
if abs(hi - idx) < abs(lo - idx):
return hi
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jim-easterbrook/pywws | src/pywws/filedata.py | CoreStore.clear | def clear(self):
"""Clears all data from the data store permanently"""
for root, dirs, files in os.walk(self._root_dir, topdown=False):
for file in files:
os.unlink(os.path.join(root, file))
os.rmdir(root)
# Get the root dir back and re-initialise to start... | python | def clear(self):
"""Clears all data from the data store permanently"""
for root, dirs, files in os.walk(self._root_dir, topdown=False):
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os.unlink(os.path.join(root, file))
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jim-easterbrook/pywws | src/pywws/conversions.py | pressure_trend_text | def pressure_trend_text(trend):
"""Convert pressure trend to a string, as used by the UK met
office.
"""
_ = pywws.localisation.translation.ugettext
if trend > 6.0:
return _(u'rising very rapidly')
elif trend > 3.5:
return _(u'rising quickly')
elif trend > 1.5:
retur... | python | def pressure_trend_text(trend):
"""Convert pressure trend to a string, as used by the UK met
office.
"""
_ = pywws.localisation.translation.ugettext
if trend > 6.0:
return _(u'rising very rapidly')
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jim-easterbrook/pywws | src/pywws/conversions.py | winddir_text | def winddir_text(pts):
"Convert wind direction from 0..15 to compass point text"
global _winddir_text_array
if pts is None:
return None
if not isinstance(pts, int):
pts = int(pts + 0.5) % 16
if not _winddir_text_array:
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_wind... | python | def winddir_text(pts):
"Convert wind direction from 0..15 to compass point text"
global _winddir_text_array
if pts is None:
return None
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pts = int(pts + 0.5) % 16
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jim-easterbrook/pywws | src/pywws/conversions.py | wind_bft | def wind_bft(ms):
"Convert wind from metres per second to Beaufort scale"
if ms is None:
return None
for bft in range(len(_bft_threshold)):
if ms < _bft_threshold[bft]:
return bft
return len(_bft_threshold) | python | def wind_bft(ms):
"Convert wind from metres per second to Beaufort scale"
if ms is None:
return None
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if ms < _bft_threshold[bft]:
return bft
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jim-easterbrook/pywws | src/pywws/conversions.py | cadhumidex | def cadhumidex(temp, humidity):
"Calculate Humidity Index as per Canadian Weather Standards"
if temp is None or humidity is None:
return None
# Formulas are adapted to not use e^(...) with no appreciable
# change in accuracy (0.0227%)
saturation_pressure = (6.112 * (10.0**(7.5 * temp / (237.... | python | def cadhumidex(temp, humidity):
"Calculate Humidity Index as per Canadian Weather Standards"
if temp is None or humidity is None:
return None
# Formulas are adapted to not use e^(...) with no appreciable
# change in accuracy (0.0227%)
saturation_pressure = (6.112 * (10.0**(7.5 * temp / (237.... | [
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jim-easterbrook/pywws | src/pywws/conversions.py | usaheatindex | def usaheatindex(temp, humidity, dew=None):
"""Calculate Heat Index as per USA National Weather Service Standards
See http://en.wikipedia.org/wiki/Heat_index, formula 1. The
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"""
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"""Calculate Heat Index as per USA National Weather Service Standards
See http://en.wikipedia.org/wiki/Heat_index, formula 1. The
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ppaquette/gym-pull | gym_pull/package/manager.py | PackageManager.load_user_envs | def load_user_envs(self):
""" Loads downloaded user envs from filesystem cache on `import gym` """
installed_packages = self._list_packages()
# Tagging core envs
gym_package = 'gym ({})'.format(installed_packages['gym']) if 'gym' in installed_packages else 'gym'
core_specs = reg... | python | def load_user_envs(self):
""" Loads downloaded user envs from filesystem cache on `import gym` """
installed_packages = self._list_packages()
# Tagging core envs
gym_package = 'gym ({})'.format(installed_packages['gym']) if 'gym' in installed_packages else 'gym'
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ppaquette/gym-pull | gym_pull/envs/registration.py | EnvSpec.make | def make(self):
"""Instantiates an instance of the environment with appropriate kwargs"""
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cls = load(self._entry_point)
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"""Instantiates an instance of the environment with appropriate kwargs"""
if self._entry_point is None:
raise error.Error('Attempting to make deprecated env {}. (HINT: is there a newer registered version of this env?)'.format(self.id))
cls = load(self._entry_point)
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jingw/pyhdfs | pyhdfs.py | HdfsClient._record_last_active | def _record_last_active(self, host):
"""Put host first in our host list, so we try it first next time
The implementation of get_active_namenode relies on this reordering.
"""
if host in self.hosts: # this check is for when user passes a host at request time
# Keep this thre... | python | def _record_last_active(self, host):
"""Put host first in our host list, so we try it first next time
The implementation of get_active_namenode relies on this reordering.
"""
if host in self.hosts: # this check is for when user passes a host at request time
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jingw/pyhdfs | pyhdfs.py | HdfsClient._request | def _request(self, method, path, op, expected_status=httplib.OK, **kwargs):
"""Make a WebHDFS request against the NameNodes
This function handles NameNode failover and error checking.
All kwargs are passed as query params to the WebHDFS server.
"""
hosts, path = self._parse_path... | python | def _request(self, method, path, op, expected_status=httplib.OK, **kwargs):
"""Make a WebHDFS request against the NameNodes
This function handles NameNode failover and error checking.
All kwargs are passed as query params to the WebHDFS server.
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jingw/pyhdfs | pyhdfs.py | HdfsClient.create | def create(self, path, data, **kwargs):
"""Create a file at the given path.
:param data: ``bytes`` or a ``file``-like object to upload
:param overwrite: If a file already exists, should it be overwritten?
:type overwrite: bool
:param blocksize: The block size of a file.
... | python | def create(self, path, data, **kwargs):
"""Create a file at the given path.
:param data: ``bytes`` or a ``file``-like object to upload
:param overwrite: If a file already exists, should it be overwritten?
:type overwrite: bool
:param blocksize: The block size of a file.
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jingw/pyhdfs | pyhdfs.py | HdfsClient.append | def append(self, path, data, **kwargs):
"""Append to the given file.
:param data: ``bytes`` or a ``file``-like object
:param buffersize: The size of the buffer used in transferring data.
:type buffersize: int
"""
metadata_response = self._post(
path, 'APPEND'... | python | def append(self, path, data, **kwargs):
"""Append to the given file.
:param data: ``bytes`` or a ``file``-like object
:param buffersize: The size of the buffer used in transferring data.
:type buffersize: int
"""
metadata_response = self._post(
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jingw/pyhdfs | pyhdfs.py | HdfsClient.concat | def concat(self, target, sources, **kwargs):
"""Concat existing files together.
For preconditions, see
https://hadoop.apache.org/docs/current/hadoop-project-dist/hadoop-common/filesystem/filesystem.html#void_concatPath_p_Path_sources
:param target: the path to the target destination.
... | python | def concat(self, target, sources, **kwargs):
"""Concat existing files together.
For preconditions, see
https://hadoop.apache.org/docs/current/hadoop-project-dist/hadoop-common/filesystem/filesystem.html#void_concatPath_p_Path_sources
:param target: the path to the target destination.
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jingw/pyhdfs | pyhdfs.py | HdfsClient.open | def open(self, path, **kwargs):
"""Return a file-like object for reading the given HDFS path.
:param offset: The starting byte position.
:type offset: long
:param length: The number of bytes to be processed.
:type length: long
:param buffersize: The size of the buffer us... | python | def open(self, path, **kwargs):
"""Return a file-like object for reading the given HDFS path.
:param offset: The starting byte position.
:type offset: long
:param length: The number of bytes to be processed.
:type length: long
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jingw/pyhdfs | pyhdfs.py | HdfsClient.create_symlink | def create_symlink(self, link, destination, **kwargs):
"""Create a symbolic link at ``link`` pointing to ``destination``.
:param link: the path to be created that points to target
:param destination: the target of the symbolic link
:param createParent: If the parent directories do not e... | python | def create_symlink(self, link, destination, **kwargs):
"""Create a symbolic link at ``link`` pointing to ``destination``.
:param link: the path to be created that points to target
:param destination: the target of the symbolic link
:param createParent: If the parent directories do not e... | [
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jingw/pyhdfs | pyhdfs.py | HdfsClient.rename | def rename(self, path, destination, **kwargs):
"""Renames Path src to Path dst.
:returns: true if rename is successful
:rtype: bool
"""
return _json(self._put(path, 'RENAME', destination=destination, **kwargs))['boolean'] | python | def rename(self, path, destination, **kwargs):
"""Renames Path src to Path dst.
:returns: true if rename is successful
:rtype: bool
"""
return _json(self._put(path, 'RENAME', destination=destination, **kwargs))['boolean'] | [
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