nexus to echo file creation in temp directory (e8bac3f0) · Commits · Zolnierczuk, Piotr / pysen

pysen/inout/hdf.py

+7 −4

Original line number	Diff line number	Diff line
		@@ -5,6 +5,7 @@ File type translators
		Convert .echo to HDF5
		"""
		import os.path
		import tempfile
		import logging
		#
		import h5py
		@@ -184,13 +185,15 @@ class HdfConverter:
		return subgroup, subkey


		def read_nexus_echo(filename, outdir='.'):
		def read_nexus_echo(filename):
		"read nexus echo file"
		echo = EchoWriter()
		if not echo.read_nexus(filename):
		raise RuntimeError("Error reading NeXus file {filename}")
		echofile = echo.save(outdir)
		return read_echo(echofile)
		with tempfile.TemporaryDirectory() as tmpdir:
		echofile = echo.save(tmpdir)
		echodata = read_echo(echofile)
		return echodata

		# CONVERTER
		DATA_READER = { 'application/taco-nse-echo' : read_echo,
		@@ -234,7 +237,7 @@ def convert_to_hdf(filename, outdir, **kwargs):
		reader = DATA_READER.get(data_type)
		if reader is None:
		raise RuntimeError(f"Don't know how to handle {file_type} file")
		converter.data = reader(filename, outdir=outdir)
		converter.data = reader(filename)
		converter.write(outfile, mode=mode, compression=compression)
		return outfile

+3 −3

Original line number	Diff line number	Diff line
		@@ -457,7 +457,7 @@ def read_echo_data(fdesc, newshape, **kwargs):
		logging.getLogger().debug('read echo data (maxcount=%d)', np.max(result.get('detector',0)))
		return result

		def read_echo(filename, **_kwargs):
		def read_echo(filename):
		"""
		Read echo file
		"""
		@@ -719,7 +719,7 @@ def read_xyz_info(fdesc):
		logging.getLogger().debug('ok')
		return result

		def read_xyz(filename, **_kwargs):
		def read_xyz(filename):
		"read xyz analysis .xyz file"
		result = OrderedDict()
		_log = logging.getLogger()
		@@ -753,7 +753,7 @@ def read_xyz(filename, **_kwargs):
		result['data'] = data
		return result

		def read_magnetic(filename, **_kwargs):
		def read_magnetic(filename):
		"read magnetic up/down .dat file"
		result = OrderedDict()

+2 −2