def consistency_check(d):
if len(d) != ROWS * COLUMNS:
writer = ScreenWriter("foo", ROWS, COLUMNS, FIELDS)
missing = []
for idx in range(ROWS * COLUMNS):
k = writer.index2d(idx)
if k not in d:
missing.append(k)
print("ERROR: missing well(s):", missing)
for v in d.itervalues():
assert set(v) == set(EXPECTED_FIELDS)
def consistency_check(d):
if len(d) != ROWS * COLUMNS:
writer = ScreenWriter("foo", ROWS, COLUMNS, FIELDS)
missing = []
for idx in xrange(ROWS * COLUMNS):
k = writer.index2d(idx)
if k not in d:
missing.append(k)
print "ERROR: missing well(s):", missing
for v in d.itervalues():
assert set(v) == set(EXPECTED_FIELDS)
def write_screen(data_dir, plate, outf):
d = group_files(data_dir)
consistency_check(d)
writer = ScreenWriter(plate, ROWS, COLUMNS, FIELDS,
exclude_readers=EXCLUDE_READERS)
for idx in range(ROWS * COLUMNS):
well_coords = writer.index2d(idx)
field_values = []
try:
by_field = d[well_coords]
except KeyError:
sys.stderr.write("missing well: %r\n" % (well_coords,))
else:
for i, field_coords in enumerate(EXPECTED_FIELDS):
field_values.append(build_pattern(by_field[field_coords]))
writer.add_well(field_values)
writer.write(outf)
def write_screen(data_dir, plate, outf):
d = group_files(data_dir)
consistency_check(d)
writer = ScreenWriter(plate, ROWS, COLUMNS, FIELDS,
exclude_readers=EXCLUDE_READERS)
for idx in xrange(ROWS * COLUMNS):
well_coords = writer.index2d(idx)
field_values = []
try:
by_field = d[well_coords]
except KeyError:
sys.stderr.write("missing well: %r\n" % (well_coords,))
else:
for i, field_coords in enumerate(EXPECTED_FIELDS):
field_values.append(build_pattern(by_field[field_coords]))
writer.add_well(field_values)
writer.write(outf)