def find_latest_image_main(package_name, package_version, json, all, sort_by_size,
sort_by_download, container_type, registry_host):
images = find_latest_image(package_name, package_version, all, sort_by_size,
sort_by_download, container_type, registry_host)
if type(images) == list:
if json:
print(json.dumps(images, indent=4))
elif all:
print('image\tupdated\tsize\tdownloads\tcontainer_type')
for i in images:
image_name = '' if 'image_name' not in i else i['image_name']
image_type = '' if 'image_type' not in i else i['image_type']
updated = '' if 'updated' not in i else i['updated']
size = '' if 'size' not in i else i['size']
downloads = '' if 'downloads' not in i else i['downloads']
print('{}\t{}\t{}\t{}\t{}'.format(
image_name, updated,
size, downloads,
image_type))
elif type(images) == dict:
print(images['image_name'])
else:
if container_type:
print('No version {} available for package {} with container type {}'.format(
package_version, package_name, container_type))
else:
print('No version {} available for package {}'.format(package_version, package_name))
print('Searching available versions for package {}'.format(package_name))
find_tool(package_name, False)
def test_find_latest_image_sort_by_downloads(self):
images = find_latest_image('bedtools', '2.27.0', True, False, True,
'Docker', 'quay.io')
flag = False
for i in images:
if i['updated'] == '2019-10-26T00:00:00Z':
flag = True
assert i[
'image_name'] == 'quay.io/biocontainers/bedtools:2.27.0--he513fc3_4'
assert flag
def update_cwl_docker_from_biocontainers(package_name, package_version,
cwl_path):
biocontainer_image = find_latest_image(package_name, package_version,
False, False, False, 'Docker', None)
if isinstance(biocontainer_image, dict):
for root, dirs, files in os.walk(cwl_path):
for f in files:
f = os.path.join(root, f)
if f.endswith('.cwl'):
__replace_in_cwl(f, package_name, package_version,
biocontainer_image['image_name'])
elif f.endswith('.yml') or f.endswith('.yaml'):
__replace_in_yml(f, package_name, package_version,
biocontainer_image['image_name'])
else:
print('There is not biocontainer image for {} version {}'.format(
package_name, package_version))
def test_find_latest_image_status_code(self):
images = find_latest_image('bedtoolss', '2.27.0', True, False, True,
'Docker', 'quay.io')
assert images == 204
def test_find_latest_image(self):
images = find_latest_image('bedtools', '2.27.0', False, False, False,
'Docker', 'quay.io')
assert type(images) == dict