c034a486630d90544beb2f42cc05e796e2973138,cnvlib/fix.py,,match_ref_to_probes,#Any#Any#,58

Before Change

        raise ValueError("Reference is missing %d bins found in %s"
                         % (len(missing_keys), probes.sample_id))

    ref_lookup = dict(zip(ref_labels, ref_pset))
    ref_matched_rows = [ref_lookup[label] for label in probe_labels]
    ref_matched = ref_pset.as_rows(ref_matched_rows)
    return ref_matched

After Change

    ref_labeled = ref_pset.data.set_index(ref_pset.labels())
    ref_matched = ref_labeled.reindex(index=probes_labeled.index)
    // Check for signs that the wrong reference was used
    num_missing = pd.isnull(ref_matched.start).sum()
    if num_missing > 0:
        raise ValueError("Reference is missing %d bins found in %s"
                         % (len(num_missing), probes.sample_id))
    return ref_pset.as_dataframe(ref_matched.reset_index(drop=True))

Instances