Exemple #1
0
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)
Exemple #2
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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)
Exemple #3
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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)
Exemple #4
0
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)