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Merge branch 'develop' into documentation

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fjosw 2021-11-30 11:58:23 +00:00
commit 3c083bfae3
1 changed files with 59 additions and 3 deletions
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pyerrors/input/hadrons.py
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@ -63,7 +63,7 @@ def read_meson_hd5(path, filestem, ens_id, meson='meson_0', tree='meson', idl=No
for outputs of the Meson module. Can be altered to read input for outputs of the Meson module. Can be altered to read input
from other modules with similar structures. from other modules with similar structures.
idl : range idl : range
If specified only conifgurations in the given range are read in. If specified only configurations in the given range are read in.
""" """
files, idx = _get_files(path, filestem, idl) files, idx = _get_files(path, filestem, idl)
@ -139,7 +139,7 @@ def read_ExternalLeg_hd5(path, filestem, ens_id, idl=None):
filestem -- namestem of the files to read filestem -- namestem of the files to read
ens_id -- name of the ensemble, required for internal bookkeeping ens_id -- name of the ensemble, required for internal bookkeeping
idl : range idl : range
If specified only conifgurations in the given range are read in. If specified only configurations in the given range are read in.
""" """
files, idx = _get_files(path, filestem, idl) files, idx = _get_files(path, filestem, idl)
@ -176,7 +176,7 @@ def read_Bilinear_hd5(path, filestem, ens_id, idl=None):
filestem -- namestem of the files to read filestem -- namestem of the files to read
ens_id -- name of the ensemble, required for internal bookkeeping ens_id -- name of the ensemble, required for internal bookkeeping
idl : range idl : range
If specified only conifgurations in the given range are read in. If specified only configurations in the given range are read in.
""" """
files, idx = _get_files(path, filestem, idl) files, idx = _get_files(path, filestem, idl)
@ -216,3 +216,59 @@ def read_Bilinear_hd5(path, filestem, ens_id, idl=None):
result_dict[key] = Npr_matrix(matrix.swapaxes(1, 2).reshape((12, 12), order='F'), mom_in=mom_in, mom_out=mom_out) result_dict[key] = Npr_matrix(matrix.swapaxes(1, 2).reshape((12, 12), order='F'), mom_in=mom_in, mom_out=mom_out)
return result_dict return result_dict
def read_Fourquark_hd5(path, filestem, ens_id, idl=None):
"""Read hadrons FourquarkFullyConnected hdf5 file and output an array of CObs
Parameters
-----------------
path -- path to the files to read
filestem -- namestem of the files to read
ens_id -- name of the ensemble, required for internal bookkeeping
idl : range
If specified only configurations in the given range are read in.
"""
files, idx = _get_files(path, filestem, idl)
mom_in = None
mom_out = None
corr_data = {}
tree = 'FourQuarkFullyConnected/FourQuarkFullyConnected_'
for hd5_file in files:
file = h5py.File(path + '/' + hd5_file, "r")
for i in range(1):
name = file[tree + str(i) + '/info'].attrs['gammaA'][0].decode('UTF-8') + '_' + file[tree + str(i) + '/info'].attrs['gammaB'][0].decode('UTF-8')
if name not in corr_data:
corr_data[name] = []
raw_data = file[tree + str(i) + '/corr'][0][0].view('complex')
corr_data[name].append(raw_data)
if mom_in is None:
mom_in = np.array(str(file[tree + str(i) + '/info'].attrs['pIn'])[3:-2].strip().split(' '), dtype=int)
if mom_out is None:
mom_out = np.array(str(file[tree + str(i) + '/info'].attrs['pOut'])[3:-2].strip().split(' '), dtype=int)
file.close()
result_dict = {}
for key, data in corr_data.items():
local_data = np.array(data)
rolled_array = np.moveaxis(local_data, 0, 8)
matrix = np.empty((rolled_array.shape[:-1]), dtype=object)
for index in np.ndindex(rolled_array.shape[:-1]):
real = Obs([rolled_array[index].real], [ens_id], idl=[idx])
imag = Obs([rolled_array[index].imag], [ens_id], idl=[idx])
matrix[index] = CObs(real, imag)
result_dict[key] = Npr_matrix(matrix, mom_in=mom_in, mom_out=mom_out)
# result_dict[key] = Npr_matrix(matrix.swapaxes(1, 2).reshape((12, 12), order='F'), mom_in=mom_in, mom_out=mom_out)
return result_dict