def _parseargs(argv):
path = argv[1]
outdir = argv[2] if len(argv) > 2 else None
mode = argv[3].lower() if len(argv) > 3 else ''
assay, _, _, _ = scrape_coords(path)
d = dict()
l = locals()
params = ('path mode assay outdir')
for p in params.split():
d[p] = l[p]
_setparams(d)
def _extract_wells_data(paths, wanted_features=None):
nds = dict()
for path in sorted(set(paths)):
coords = scrape_coords(path)
try:
nds[coords] = _extract_field_data(path, wanted_features)
except NoDataError:
pass
if not nds:
raise NoDataError()
return nds
def _parseargs(argv):
path = argv[1]
# e.g. scans/linkfarm/20100924_HCC1187/CK2/H12
assay, plate, well, _ = scrape_coords(path)
# row = well[0]
# col = int(well[1:])
# rownum = ord(row) - ord('A')
# colnum = col - 1
d = dict()
l = locals()
params = (# 'row col rownum colnum '
'path assay plate well')
for p in params.split():
d[p] = l[p]
_setparams(d)
def _parseargs(argv):
nargs = len(argv)
assert 2 < nargs < 5
path = argv[1]
assay, plate, well, _ = scrape_coords(path)
extent = 'plate' if well is None else 'well'
wavelength = argv[2]
antibody = '%s_antibody' % wavelength
d = dict()
l = locals()
params = ('path wavelength antibody '
'assay plate well extent')
for p in params.split():
d[p] = l[p]
_setparams(d)