pytest-wdl
latest
Contents:
User manual
pytest_wdl
pytest-wdl
Docs
»
Index
Edit on GitHub
Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
J
|
L
|
M
|
N
|
O
|
P
|
R
|
S
|
T
|
U
|
V
|
W
|
Y
A
alias() (pytest_wdl.url_schemes.UrlHandler method)
as_dict() (pytest_wdl.config.UserConfiguration method)
assert_bam_files_equal() (in module pytest_wdl.data_types.bam)
assert_binary_files_equal() (in module pytest_wdl.data_types)
assert_contents_equal() (pytest_wdl.data_types.DataFile method)
assert_text_files_equal() (in module pytest_wdl.data_types)
B
bam_to_sam() (in module pytest_wdl.data_types.bam)
BamDataFile (class in pytest_wdl.data_types.bam)
BaseResponse (class in pytest_wdl.url_schemes)
C
chdir() (in module pytest_wdl.utils)
cleanup() (in module pytest_wdl.config)
(pytest_wdl.config.UserConfiguration method)
collect() (pytest_wdl.loader.WdlTestsModule method)
compare_files_with_hash() (in module pytest_wdl.utils)
compare_gzip() (in module pytest_wdl.data_types)
context_dir() (in module pytest_wdl.utils)
COORDINATE (pytest_wdl.data_types.bam.Sorting attribute)
create_data_file() (in module pytest_wdl.core)
create_executor() (in module pytest_wdl.core)
CromwellLocalExecutor (class in pytest_wdl.executors.cromwell_local)
CromwellServerExecutor (class in pytest_wdl.executors.cromwell_server)
D
DATA_TYPES (in module pytest_wdl.core)
DataDirs (class in pytest_wdl.core)
DataFile (class in pytest_wdl.data_types)
DataManager (class in pytest_wdl.core)
DataResolver (class in pytest_wdl.core)
default_executors() (in module pytest_wdl.fixtures)
default_user_config_file() (in module pytest_wdl.config)
DefaultDataFile (class in pytest_wdl.data_types)
diff_bam_columns() (in module pytest_wdl.data_types.bam)
diff_default() (in module pytest_wdl.data_types)
diff_vcf_columns() (in module pytest_wdl.data_types.vcf)
DigestsNotEqualError
download_file() (in module pytest_wdl.localizers)
(pytest_wdl.providers.dx.DxResponse method)
(pytest_wdl.url_schemes.BaseResponse method)
(pytest_wdl.url_schemes.Response method)
DxInputsFormatter (class in pytest_wdl.providers.dx)
DxResponse (class in pytest_wdl.providers.dx)
DxUrlHandler (class in pytest_wdl.providers.dx)
DxWdlExecutor (class in pytest_wdl.providers.dx)
E
ensure_path() (in module pytest_wdl.utils)
env_map() (in module pytest_wdl.utils)
ExecutionFailedError
Executor (class in pytest_wdl.executors)
ExecutorError
EXECUTORS (in module pytest_wdl.core)
exit_status_str() (pytest_wdl.executors.ExecutionFailedError property)
F
find_executable_path() (in module pytest_wdl.utils)
find_in_classpath() (in module pytest_wdl.utils)
find_project_path() (in module pytest_wdl.utils)
format_inputs() (pytest_wdl.executors.InputsFormatter method)
(pytest_wdl.providers.dx.DxInputsFormatter method)
format_value() (pytest_wdl.executors.InputsFormatter method)
(pytest_wdl.providers.dx.DxInputsFormatter method)
G
get_content_length() (pytest_wdl.url_schemes.BaseResponse method)
(pytest_wdl.url_schemes.ResponseWrapper method)
get_dict() (pytest_wdl.core.DataManager method)
get_executor_defaults() (pytest_wdl.config.UserConfiguration method)
get_instance() (in module pytest_wdl.config)
(pytest_wdl.executors.InputsFormatter class method)
get_list() (pytest_wdl.core.DataManager method)
get_provider_defaults() (pytest_wdl.config.UserConfiguration method)
get_target_name() (in module pytest_wdl.executors)
H
handles() (pytest_wdl.providers.dx.DxUrlHandler property)
(pytest_wdl.url_schemes.UrlHandler property)
hash_file() (in module pytest_wdl.utils)
http_headers() (pytest_wdl.localizers.UrlLocalizer property)
I
import_dirs() (in module pytest_wdl.fixtures)
import_paths() (in module pytest_wdl.fixtures)
InputsFormatter (class in pytest_wdl.executors)
install_schemes() (in module pytest_wdl.url_schemes)
is_executable() (in module pytest_wdl.utils)
J
JavaExecutor (class in pytest_wdl.executors)
JsonDataFile (class in pytest_wdl.data_types.json)
JsonLocalizer (class in pytest_wdl.localizers)
JsonWdlTestsModule (class in pytest_wdl.loader)
L
LinkLocalizer (class in pytest_wdl.localizers)
localize() (pytest_wdl.localizers.JsonLocalizer method)
(pytest_wdl.localizers.LinkLocalizer method)
(pytest_wdl.localizers.Localizer method)
(pytest_wdl.localizers.StringLocalizer method)
(pytest_wdl.localizers.UrlLocalizer method)
Localizer (class in pytest_wdl.localizers)
login() (in module pytest_wdl.providers.dx)
M
MaxCallException
Method (class in pytest_wdl.url_schemes)
MiniwdlExecutor (class in pytest_wdl.executors.miniwdl)
N
NAME (pytest_wdl.data_types.bam.Sorting attribute)
NONE (pytest_wdl.data_types.bam.Sorting attribute)
O
OPEN (pytest_wdl.url_schemes.Method attribute)
P
parse_wdl() (in module pytest_wdl.executors)
path() (pytest_wdl.data_types.DataFile property)
paths() (pytest_wdl.core.DataDirs property)
plugin_factory_map() (in module pytest_wdl.plugins)
PluginError
PluginFactory (class in pytest_wdl.plugins)
poll() (in module pytest_wdl.utils)
PollingException
project_root() (in module pytest_wdl.fixtures)
project_root_files() (in module pytest_wdl.fixtures)
proxies() (pytest_wdl.localizers.UrlLocalizer property)
pytest_collect_file() (in module pytest_wdl.loader)
pytest_collection() (in module pytest_wdl.loader)
pytest_wdl (module)
pytest_wdl.config (module)
pytest_wdl.core (module)
pytest_wdl.data_types (module)
pytest_wdl.data_types.bam (module)
pytest_wdl.data_types.json (module)
pytest_wdl.data_types.vcf (module)
pytest_wdl.executors (module)
pytest_wdl.executors.cromwell_local (module)
pytest_wdl.executors.cromwell_server (module)
pytest_wdl.executors.miniwdl (module)
pytest_wdl.fixtures (module)
pytest_wdl.loader (module)
pytest_wdl.localizers (module)
pytest_wdl.plugins (module)
pytest_wdl.providers (module)
pytest_wdl.providers.dx (module)
pytest_wdl.url_schemes (module)
pytest_wdl.utils (module)
R
read() (pytest_wdl.url_schemes.BaseResponse method)
(pytest_wdl.url_schemes.ResponseWrapper method)
read_write_inputs() (in module pytest_wdl.executors)
REQUEST (pytest_wdl.url_schemes.Method attribute)
request() (pytest_wdl.url_schemes.UrlHandler method)
resolve() (pytest_wdl.core.DataResolver method)
resolve_file() (in module pytest_wdl.utils)
resolve_jar_file() (pytest_wdl.executors.JavaExecutor static method)
resolve_value_descriptor() (in module pytest_wdl.utils)
Response (class in pytest_wdl.url_schemes)
RESPONSE (pytest_wdl.url_schemes.Method attribute)
response() (pytest_wdl.url_schemes.UrlHandler method)
ResponseWrapper (class in pytest_wdl.url_schemes)
run_workflow() (pytest_wdl.executors.cromwell_local.CromwellLocalExecutor method)
(pytest_wdl.executors.Executor method)
(pytest_wdl.executors.cromwell_server.CromwellServerExecutor method)
(pytest_wdl.executors.miniwdl.MiniwdlExecutor method)
(pytest_wdl.providers.dx.DxWdlExecutor method)
runtest() (pytest_wdl.loader.TestItem method)
S
safe_string() (in module pytest_wdl.utils)
save() (pytest_wdl.config.UserConfiguration method)
scheme() (pytest_wdl.providers.dx.DxUrlHandler property)
(pytest_wdl.url_schemes.UrlHandler property)
set_compare_opts() (pytest_wdl.data_types.DataFile method)
set_instance() (in module pytest_wdl.config)
setup() (pytest_wdl.loader.TestItem method)
Sorting (class in pytest_wdl.data_types.bam)
StringLocalizer (class in pytest_wdl.localizers)
T
tempdir() (in module pytest_wdl.utils)
TestItem (class in pytest_wdl.loader)
TimeoutException
U
UrlHandler (class in pytest_wdl.url_schemes)
UrlLocalizer (class in pytest_wdl.localizers)
urlopen() (pytest_wdl.providers.dx.DxUrlHandler method)
(pytest_wdl.url_schemes.UrlHandler method)
user_config() (in module pytest_wdl.fixtures)
user_config_file() (in module pytest_wdl.fixtures)
UserConfiguration (class in pytest_wdl.config)
V
VcfDataFile (class in pytest_wdl.data_types.vcf)
verify() (pytest_wdl.localizers.Localizer method)
(pytest_wdl.localizers.UrlLocalizer method)
verify_digests() (in module pytest_wdl.utils)
W
WdlTestsModule (class in pytest_wdl.loader)
workflow_data() (in module pytest_wdl.fixtures)
workflow_data_descriptor_file() (in module pytest_wdl.fixtures)
workflow_data_descriptors() (in module pytest_wdl.fixtures)
workflow_data_resolver() (in module pytest_wdl.fixtures)
workflow_runner() (in module pytest_wdl.fixtures)
WorkflowRunner (class in pytest_wdl.fixtures)
Y
YamlWdlTestsModule (class in pytest_wdl.loader)
Read the Docs
v: latest
Versions
master
latest
stable
1.4.1
1.4.0
1.3.0
1.2.1
1.2.0
1.1.1
1.1.0
1.0.1
1.0.0
main
develop
Downloads
pdf
html
epub
On Read the Docs
Project Home
Builds
Free document hosting provided by
Read the Docs
.