Answers for "query mriqc api with Python"

query mriqc api with Python

In [2]:

    
def get_iqms(modality, versions=None, software='mriqc'):
    """
    Grab all iqms for the given modality and the list of versions
    """
    url_root = 'https://mriqc.nimh.nih.gov/api/v1/{modality}?{query}'
    page = 1
    dfs = []
    
    if versions is None:
        versions = ['*']

    for version in versions:
        while True:
            query = []
            
            if software is not None:
                query.append('"provenance.software":"%s"' % software)
            
            if version != '*':
                query.append('"provenance.version":"%s"' % version)
                
            page_url = url_root.format(
                modality=modality,
                query='where={%s}&page=%d' % (','.join(query), page)
            )
            with urllib.request.urlopen(page_url) as url:
                data = json.loads(url.read().decode())
                dfs.append(json_normalize(data['_items']))
                if 'next' not in data['_links'].keys():
                    break
                else:
                    page += 1

    # Compose a pandas dataframe
    return pd.concat(dfs, ignore_index=True)


def plot_measure(data, xlabel=None, label=None, ax=None, min=None, max=None):
    """
    Distribution plot of a given measure
    """
    sns.distplot(data, ax=ax, label=label)
    
    if xlabel is not None:
        ax.set_xlabel(xlabel)
    
    if min is None:
        min = np.percentile(data, 0.5)
    
    if max is None:
        max = np.percentile(data, 99.5)
    ax.set_xlim((min, max))