def storePeakMap(pm, path=None):
""" Stores peakmap *pm* in mzXML, mzML or mzData format.
The used format depends on the file extension given
in *path*. If no *path* is given, a dialog for
choosing an output file name is opened.
"""
# local import in order to keep namespaces clean
import ms
import sys
from pyopenms import FileHandler
if isinstance(path, unicode):
path = path.encode(sys.getfilesystemencoding())
elif path is None:
path = ms.askForSave(extensions="mzML mzXML mzData".split())
if path is None:
return None
if sys.platform == "win32":
path = path.replace("/","\\") # needed for network shares
experiment = pm.toMSExperiment()
fh = FileHandler()
fh.storeExperiment(path, experiment)
def storePeakMap(pm, path=None):
""" Stores peakmap *pm* in mzXML, mzML or mzData format.
The used format depends on the file extension given
in *path*. If no *path* is given, a dialog for
choosing an output file name is opened.
"""
# local import in order to keep namespaces clean
import ms
import sys
from pyopenms import FileHandler
if isinstance(path, unicode):
path = path.encode(sys.getfilesystemencoding())
elif path is None:
path = ms.askForSave(extensions="mzML mzXML mzData".split())
if path is None:
return None
if sys.platform == "win32":
path = path.replace("/", "\\") # needed for network shares
experiment = pm.toMSExperiment()
fh = FileHandler()
fh.storeExperiment(path, experiment)
def storeCSV(tab, path=None):
""" Saves *tab* in a textual ``.csv`` file.
If *path* is not provided, a file dialog opens
for choosing the files name and location.
"""
# local import in order to keep namespaces clean
import ms
import sys
if isinstance(path, unicode):
path = path.encode(sys.getfilesystemencoding())
elif path is None:
path = ms.askForSave(extensions=["csv"])
if path is None:
return None
tab.storeCSV(path)
def storeCSV(tab, path=None):
""" Saves *tab* in a textual ``.csv`` file.
If *path* is not provided, a file dialog opens
for choosing the files name and location.
"""
# local import in order to keep namespaces clean
import ms
import sys
if isinstance(path, unicode):
path = path.encode(sys.getfilesystemencoding())
elif path is None:
path = ms.askForSave(extensions=["csv"])
if path is None:
return None
tab.storeCSV(path)
def storeTable(tab, path=None, forceOverwrite=False):
""" Saves *tab* in a binary ``.table`` file.
If *path* is not provided, a file dialog opens
for choosing the files name and location.
*path* must have file extension ``.table``.
"""
# local import in order to keep namespaces clean
import ms
import sys
from libms.DataStructures.Table import compressPeakMaps
compressPeakMaps(tab)
if isinstance(path, unicode):
path = path.encode(sys.getfilesystemencoding())
elif path is None:
startAt = tab.meta.get("loaded_from", "")
path = ms.askForSave(extensions=["table"], startAt=startAt)
if path is None:
return None
tab.store(path, forceOverwrite)
def storeTable(tab, path=None, forceOverwrite=False):
""" Saves *tab* in a binary ``.table`` file.
If *path* is not provided, a file dialog opens
for choosing the files name and location.
*path* must have file extension ``.table``.
"""
# local import in order to keep namespaces clean
import ms
import sys
from libms.DataStructures.Table import compressPeakMaps
compressPeakMaps(tab)
if isinstance(path, unicode):
path = path.encode(sys.getfilesystemencoding())
elif path is None:
startAt = tab.meta.get("loaded_from", "")
path = ms.askForSave(extensions=["table"], startAt=startAt)
if path is None:
return None
tab.store(path, forceOverwrite)