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Merge pull request #91 from s-kuberski/feature/bdio
Fix: read_mesons and read_dSdm now return Obs with the correct idl based on the information in the bdio file.
This commit is contained in:
Fabian Joswig
GitHub
commit
6459f46a70
1 changed files with 68 additions and 20 deletions
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@ -302,11 +302,24 @@ def read_mesons(file_path, bdio_path='./libbdio.so', **kwargs):
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Parameters
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----------
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file_path -- path to the bdio file
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bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)
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stop -- stops reading at given configuration number (default None)
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alternative_ensemble_name -- Manually overwrite ensemble name
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file_path : str
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path to the bdio file
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bdio_path : str
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path to the shared bdio library libbdio.so (default ./libbdio.so)
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start : int
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The first configuration to be read (default 1)
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stop : int
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The last configuration to be read (default None)
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step : int
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Fixed step size between two measurements (default 1)
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alternative_ensemble_name : str
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Manually overwrite ensemble name
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"""
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start = kwargs.get('start', 1)
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stop = kwargs.get('stop', None)
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step = kwargs.get('step', 1)
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bdio = ctypes.cdll.LoadLibrary(bdio_path)
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bdio_open = bdio.bdio_open
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@ -353,9 +366,9 @@ def read_mesons(file_path, bdio_path='./libbdio.so', **kwargs):
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prop_kappa = [] # Contains propagator kappas (Component of corr_kappa)
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prop_source = [] # Contains propagator source positions
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# Check noise type for multiple replica?
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cnfg_no = -1
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corr_no = -1
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data = []
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idl = []
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fbdio = bdio_open(ctypes.c_char_p(b_path), ctypes.c_char_p(b_read), ctypes.c_char_p(b_form))
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@ -418,18 +431,20 @@ def read_mesons(file_path, bdio_path='./libbdio.so', **kwargs):
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prop_kappa.append(_get_kwd(tmp_string, 'KAPPA='))
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prop_source.append(_get_kwd(tmp_string, 'x0='))
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if ruinfo == 4:
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if 'stop' in kwargs:
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if cnfg_no >= kwargs.get('stop') - 1:
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cnfg_no = int(_get_kwd(tmp_string, 'CNFG_ID='))
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if stop:
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if cnfg_no > kwargs.get('stop'):
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break
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cnfg_no += 1
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idl.append(cnfg_no)
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print('\r%s %i' % ('Reading configuration', cnfg_no + 1), end='\r')
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if cnfg_no == 0:
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if len(idl) == 1:
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no_corrs = len(corr_name)
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data = []
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for c in range(no_corrs):
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data.append([])
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corr_no = 0
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bdio_close(fbdio)
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print('\nEnsemble: ', ensemble_name)
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@ -441,7 +456,7 @@ def read_mesons(file_path, bdio_path='./libbdio.so', **kwargs):
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print('Number of time values: ', d0)
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print('Number of random sources: ', d1)
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print('Number of corrs: ', len(corr_name))
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print('Number of configurations: ', cnfg_no + 1)
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print('Number of configurations: ', len(idl))
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corr_kappa = [] # Contains kappa values for both propagators of given correlation function
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corr_source = []
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@ -452,11 +467,20 @@ def read_mesons(file_path, bdio_path='./libbdio.so', **kwargs):
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else:
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corr_source.append(int(prop_source[int(item[0])]))
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if stop is None:
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stop = idl[-1]
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idl_target = range(start, stop + 1, step)
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try:
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indices = [idl.index(i) for i in idl_target]
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except ValueError as err:
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raise Exception('Configurations in file do no match target list!', err)
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result = {}
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for c in range(no_corrs):
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tmp_corr = []
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for t in range(d0 - 2):
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tmp_corr.append(Obs([np.asarray(data[c])[:, t]], [ensemble_name]))
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deltas = [np.asarray(data[c])[:, t][index] for index in indices]
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tmp_corr.append(Obs([deltas], [ensemble_name], idl=[idl_target]))
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result[(corr_name[c], corr_source[c]) + tuple(sorted(corr_kappa[c]))] = tmp_corr
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# Check that all data entries have the same number of configurations
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@ -480,10 +504,24 @@ def read_dSdm(file_path, bdio_path='./libbdio.so', **kwargs):
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Parameters
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----------
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file_path -- path to the bdio file
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bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)
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stop -- stops reading at given configuration number (default None)
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file_path : str
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path to the bdio file
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bdio_path : str
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path to the shared bdio library libbdio.so (default ./libbdio.so)
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start : int
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The first configuration to be read (default 1)
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stop : int
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The last configuration to be read (default None)
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step : int
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Fixed step size between two measurements (default 1)
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alternative_ensemble_name : str
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Manually overwrite ensemble name
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"""
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start = kwargs.get('start', 1)
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stop = kwargs.get('stop', None)
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step = kwargs.get('step', 1)
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bdio = ctypes.cdll.LoadLibrary(bdio_path)
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bdio_open = bdio.bdio_open
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@ -529,9 +567,9 @@ def read_dSdm(file_path, bdio_path='./libbdio.so', **kwargs):
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# d1 = 0 # nnoise
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prop_kappa = [] # Contains propagator kappas (Component of corr_kappa)
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# Check noise type for multiple replica?
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cnfg_no = -1
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corr_no = -1
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data = []
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idl = []
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fbdio = bdio_open(ctypes.c_char_p(b_path), ctypes.c_char_p(b_read), ctypes.c_char_p(b_form))
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@ -586,12 +624,13 @@ def read_dSdm(file_path, bdio_path='./libbdio.so', **kwargs):
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if ruinfo == 2:
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prop_kappa.append(_get_kwd(tmp_string, 'KAPPA='))
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if ruinfo == 4:
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if 'stop' in kwargs:
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if cnfg_no >= kwargs.get('stop') - 1:
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cnfg_no = int(_get_kwd(tmp_string, 'CNFG_ID='))
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if stop:
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if cnfg_no > kwargs.get('stop'):
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break
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cnfg_no += 1
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idl.append(cnfg_no)
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print('\r%s %i' % ('Reading configuration', cnfg_no + 1), end='\r')
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if cnfg_no == 0:
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if len(idl) == 1:
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no_corrs = len(corr_name)
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data = []
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for c in range(no_corrs):
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@ -612,9 +651,18 @@ def read_dSdm(file_path, bdio_path='./libbdio.so', **kwargs):
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for item in corr_props:
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corr_kappa.append(float(prop_kappa[int(item)]))
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if stop is None:
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stop = idl[-1]
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idl_target = range(start, stop + 1, step)
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try:
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indices = [idl.index(i) for i in idl_target]
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except ValueError as err:
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raise Exception('Configurations in file do no match target list!', err)
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result = {}
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for c in range(no_corrs):
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result[(corr_name[c], str(corr_kappa[c]))] = Obs([np.asarray(data[c])], [ensemble_name])
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deltas = [np.asarray(data[c])[index] for index in indices]
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result[(corr_name[c], str(corr_kappa[c]))] = Obs([deltas], [ensemble_name], idl=[idl_target])
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# Check that all data entries have the same number of configurations
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if len(set([o.N for o in list(result.values())])) != 1:
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