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dnanexus/dx-toolkit | src/python/dxpy/api.py | project_transfer | def project_transfer(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /project-xxxx/transfer API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Project-Permissions-and-Sharing#API-method%3A-%2Fproject-xxxx%2Ftransfer
"""
return DXHTTPRequest(... | python | def project_transfer(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /project-xxxx/transfer API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Project-Permissions-and-Sharing#API-method%3A-%2Fproject-xxxx%2Ftransfer
"""
return DXHTTPRequest(... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | project_update | def project_update(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /project-xxxx/update API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Projects#API-method%3A-%2Fproject-xxxx%2Fupdate
"""
return DXHTTPRequest('/%s/update' % object_id, inp... | python | def project_update(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /project-xxxx/update API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Projects#API-method%3A-%2Fproject-xxxx%2Fupdate
"""
return DXHTTPRequest('/%s/update' % object_id, inp... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | project_update_sponsorship | def project_update_sponsorship(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /project-xxxx/updateSponsorship API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Projects#API-method%3A-%2Fproject-xxxx%2FupdateSponsorship
"""
return DXHTTPReq... | python | def project_update_sponsorship(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /project-xxxx/updateSponsorship API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Projects#API-method%3A-%2Fproject-xxxx%2FupdateSponsorship
"""
return DXHTTPReq... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | project_new | def project_new(input_params={}, always_retry=False, **kwargs):
"""
Invokes the /project/new API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Projects#API-method%3A-%2Fproject%2Fnew
"""
return DXHTTPRequest('/project/new', input_params, always_retry=always_retry, *... | python | def project_new(input_params={}, always_retry=False, **kwargs):
"""
Invokes the /project/new API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Projects#API-method%3A-%2Fproject%2Fnew
"""
return DXHTTPRequest('/project/new', input_params, always_retry=always_retry, *... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_add_tags | def record_add_tags(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/addTags API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FaddTags
"""
return DXHTTPRequest('/%s/addTags' % object_id, input_... | python | def record_add_tags(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/addTags API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FaddTags
"""
return DXHTTPRequest('/%s/addTags' % object_id, input_... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_add_types | def record_add_types(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/addTypes API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Types#API-method%3A-%2Fclass-xxxx%2FaddTypes
"""
return DXHTTPRequest('/%s/addTypes' % object_id, i... | python | def record_add_types(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/addTypes API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Types#API-method%3A-%2Fclass-xxxx%2FaddTypes
"""
return DXHTTPRequest('/%s/addTypes' % object_id, i... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_close | def record_close(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/close API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Data-Object-Lifecycle#API-method%3A-%2Fclass-xxxx%2Fclose
"""
return DXHTTPRequest('/%s/close' % object_id... | python | def record_close(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/close API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Data-Object-Lifecycle#API-method%3A-%2Fclass-xxxx%2Fclose
"""
return DXHTTPRequest('/%s/close' % object_id... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_describe | def record_describe(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/describe API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Records#API-method%3A-%2Frecord-xxxx%2Fdescribe
"""
return DXHTTPRequest('/%s/describe' % object_id,... | python | def record_describe(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/describe API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Records#API-method%3A-%2Frecord-xxxx%2Fdescribe
"""
return DXHTTPRequest('/%s/describe' % object_id,... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_get_details | def record_get_details(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/getDetails API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Details-and-Links#API-method%3A-%2Fclass-xxxx%2FgetDetails
"""
return DXHTTPRequest('/%s/getDet... | python | def record_get_details(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/getDetails API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Details-and-Links#API-method%3A-%2Fclass-xxxx%2FgetDetails
"""
return DXHTTPRequest('/%s/getDet... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_list_projects | def record_list_projects(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/listProjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Cloning#API-method%3A-%2Fclass-xxxx%2FlistProjects
"""
return DXHTTPRequest('/%s/listProjec... | python | def record_list_projects(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/listProjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Cloning#API-method%3A-%2Fclass-xxxx%2FlistProjects
"""
return DXHTTPRequest('/%s/listProjec... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_remove_tags | def record_remove_tags(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/removeTags API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FremoveTags
"""
return DXHTTPRequest('/%s/removeTags' % objec... | python | def record_remove_tags(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/removeTags API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FremoveTags
"""
return DXHTTPRequest('/%s/removeTags' % objec... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_remove_types | def record_remove_types(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/removeTypes API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Types#API-method%3A-%2Fclass-xxxx%2FremoveTypes
"""
return DXHTTPRequest('/%s/removeTypes' % ... | python | def record_remove_types(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/removeTypes API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Types#API-method%3A-%2Fclass-xxxx%2FremoveTypes
"""
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_rename | def record_rename(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/rename API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Name#API-method%3A-%2Fclass-xxxx%2Frename
"""
return DXHTTPRequest('/%s/rename' % object_id, input_param... | python | def record_rename(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/rename API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Name#API-method%3A-%2Fclass-xxxx%2Frename
"""
return DXHTTPRequest('/%s/rename' % object_id, input_param... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_set_details | def record_set_details(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/setDetails API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Details-and-Links#API-method%3A-%2Fclass-xxxx%2FsetDetails
"""
return DXHTTPRequest('/%s/setDet... | python | def record_set_details(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/setDetails API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Details-and-Links#API-method%3A-%2Fclass-xxxx%2FsetDetails
"""
return DXHTTPRequest('/%s/setDet... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_set_properties | def record_set_properties(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/setProperties API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Properties#API-method%3A-%2Fclass-xxxx%2FsetProperties
"""
return DXHTTPRequest('/%s/setP... | python | def record_set_properties(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/setProperties API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Properties#API-method%3A-%2Fclass-xxxx%2FsetProperties
"""
return DXHTTPRequest('/%s/setP... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | record_set_visibility | def record_set_visibility(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/setVisibility API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Visibility#API-method%3A-%2Fclass-xxxx%2FsetVisibility
"""
return DXHTTPRequest('/%s/setV... | python | def record_set_visibility(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /record-xxxx/setVisibility API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Visibility#API-method%3A-%2Fclass-xxxx%2FsetVisibility
"""
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_describe_data_objects | def system_describe_data_objects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/describeDataObjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/System-Methods#API-method:-/system/describeDataObjects
"""
return DXHTTPRequest('/system/des... | python | def system_describe_data_objects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/describeDataObjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/System-Methods#API-method:-/system/describeDataObjects
"""
return DXHTTPRequest('/system/des... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_describe_executions | def system_describe_executions(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/describeExecutions API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/System-Methods#API-method:-/system/describeExecutions
"""
return DXHTTPRequest('/system/describ... | python | def system_describe_executions(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/describeExecutions API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/System-Methods#API-method:-/system/describeExecutions
"""
return DXHTTPRequest('/system/describ... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_describe_projects | def system_describe_projects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/describeProjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/System-Methods#API-method:-/system/describeProjects
"""
return DXHTTPRequest('/system/describeProje... | python | def system_describe_projects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/describeProjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/System-Methods#API-method:-/system/describeProjects
"""
return DXHTTPRequest('/system/describeProje... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_affiliates | def system_find_affiliates(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findAffiliates API method.
"""
return DXHTTPRequest('/system/findAffiliates', input_params, always_retry=always_retry, **kwargs) | python | def system_find_affiliates(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findAffiliates API method.
"""
return DXHTTPRequest('/system/findAffiliates', input_params, always_retry=always_retry, **kwargs) | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_apps | def system_find_apps(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findApps API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindApps
"""
return DXHTTPRequest('/system/findApps', input_params, always_retry=a... | python | def system_find_apps(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findApps API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindApps
"""
return DXHTTPRequest('/system/findApps', input_params, always_retry=a... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_data_objects | def system_find_data_objects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findDataObjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindDataObjects
"""
return DXHTTPRequest('/system/findDataObjects',... | python | def system_find_data_objects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findDataObjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindDataObjects
"""
return DXHTTPRequest('/system/findDataObjects',... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_global_workflows | def system_find_global_workflows(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findGlobalWorkflows API method.
"""
return DXHTTPRequest('/system/findGlobalWorkflows', input_params, always_retry=always_retry, **kwargs) | python | def system_find_global_workflows(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findGlobalWorkflows API method.
"""
return DXHTTPRequest('/system/findGlobalWorkflows', input_params, always_retry=always_retry, **kwargs) | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_resolve_data_objects | def system_resolve_data_objects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/resolveDataObjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/System-Methods#API-method:-/system/resolveDataObjects
"""
return DXHTTPRequest('/system/resolv... | python | def system_resolve_data_objects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/resolveDataObjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/System-Methods#API-method:-/system/resolveDataObjects
"""
return DXHTTPRequest('/system/resolv... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_executions | def system_find_executions(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findExecutions API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindExecutions
"""
return DXHTTPRequest('/system/findExecutions', inpu... | python | def system_find_executions(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findExecutions API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindExecutions
"""
return DXHTTPRequest('/system/findExecutions', inpu... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_analyses | def system_find_analyses(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findAnalyses API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindAnalyses
"""
return DXHTTPRequest('/system/findAnalyses', input_params... | python | def system_find_analyses(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findAnalyses API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindAnalyses
"""
return DXHTTPRequest('/system/findAnalyses', input_params... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_databases | def system_find_databases(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findDatabases API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindDatabases
"""
return DXHTTPRequest('/system/findDatabases', input_pa... | python | def system_find_databases(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findDatabases API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindDatabases
"""
return DXHTTPRequest('/system/findDatabases', input_pa... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_jobs | def system_find_jobs(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findJobs API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindJobs
"""
return DXHTTPRequest('/system/findJobs', input_params, always_retry=a... | python | def system_find_jobs(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findJobs API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindJobs
"""
return DXHTTPRequest('/system/findJobs', input_params, always_retry=a... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_projects | def system_find_projects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findProjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindProjects
"""
return DXHTTPRequest('/system/findProjects', input_params... | python | def system_find_projects(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findProjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindProjects
"""
return DXHTTPRequest('/system/findProjects', input_params... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_users | def system_find_users(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findUsers API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindUsers
"""
return DXHTTPRequest('/system/findUsers', input_params, always_ret... | python | def system_find_users(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findUsers API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method%3A-%2Fsystem%2FfindUsers
"""
return DXHTTPRequest('/system/findUsers', input_params, always_ret... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_project_members | def system_find_project_members(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findProjectMembers API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method:-/system/findProjectMembers
"""
return DXHTTPRequest('/system/findProjectMem... | python | def system_find_project_members(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findProjectMembers API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method:-/system/findProjectMembers
"""
return DXHTTPRequest('/system/findProjectMem... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_find_orgs | def system_find_orgs(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findOrgs API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method:-/system/findOrgs
"""
return DXHTTPRequest('/system/findOrgs', input_params, always_retry=always_... | python | def system_find_orgs(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/findOrgs API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method:-/system/findOrgs
"""
return DXHTTPRequest('/system/findOrgs', input_params, always_retry=always_... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_generate_batch_inputs | def system_generate_batch_inputs(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/generateBatchInputs API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method:-/system/generateBatchInputs
"""
return DXHTTPRequest('/system/generateBat... | python | def system_generate_batch_inputs(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/generateBatchInputs API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method:-/system/generateBatchInputs
"""
return DXHTTPRequest('/system/generateBat... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_global_search | def system_global_search(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/globalSearch API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method:-/system/globalSearch
"""
return DXHTTPRequest('/system/globalSearch', input_params, alwa... | python | def system_global_search(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/globalSearch API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Search#API-method:-/system/globalSearch
"""
return DXHTTPRequest('/system/globalSearch', input_params, alwa... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_greet | def system_greet(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/greet API method.
"""
return DXHTTPRequest('/system/greet', input_params, always_retry=always_retry, **kwargs) | python | def system_greet(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/greet API method.
"""
return DXHTTPRequest('/system/greet', input_params, always_retry=always_retry, **kwargs) | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_headers | def system_headers(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/headers API method.
"""
return DXHTTPRequest('/system/headers', input_params, always_retry=always_retry, **kwargs) | python | def system_headers(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/headers API method.
"""
return DXHTTPRequest('/system/headers', input_params, always_retry=always_retry, **kwargs) | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_shorten_url | def system_shorten_url(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/shortenURL API method.
"""
return DXHTTPRequest('/system/shortenURL', input_params, always_retry=always_retry, **kwargs) | python | def system_shorten_url(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/shortenURL API method.
"""
return DXHTTPRequest('/system/shortenURL', input_params, always_retry=always_retry, **kwargs) | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | system_whoami | def system_whoami(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/whoami API method.
"""
return DXHTTPRequest('/system/whoami', input_params, always_retry=always_retry, **kwargs) | python | def system_whoami(input_params={}, always_retry=True, **kwargs):
"""
Invokes the /system/whoami API method.
"""
return DXHTTPRequest('/system/whoami', input_params, always_retry=always_retry, **kwargs) | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | user_describe | def user_describe(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /user-xxxx/describe API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Users#API-method%3A-%2Fuser-xxxx%2Fdescribe
"""
return DXHTTPRequest('/%s/describe' % object_id, input_p... | python | def user_describe(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /user-xxxx/describe API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Users#API-method%3A-%2Fuser-xxxx%2Fdescribe
"""
return DXHTTPRequest('/%s/describe' % object_id, input_p... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | user_update | def user_update(object_id, input_params={}, always_retry=False, **kwargs):
"""
Invokes the /user-xxxx/update API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Users#API-method%3A-%2Fuser-xxxx%2Fupdate
"""
return DXHTTPRequest('/%s/update' % object_id, input_params, ... | python | def user_update(object_id, input_params={}, always_retry=False, **kwargs):
"""
Invokes the /user-xxxx/update API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Users#API-method%3A-%2Fuser-xxxx%2Fupdate
"""
return DXHTTPRequest('/%s/update' % object_id, input_params, ... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_add_stage | def workflow_add_stage(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/addStage API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FaddStage
"""
return DXHTTPRequest('/%s/... | python | def workflow_add_stage(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/addStage API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FaddStage
"""
return DXHTTPRequest('/%s/... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_add_tags | def workflow_add_tags(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/addTags API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FaddTags
"""
return DXHTTPRequest('/%s/addTags' % object_id, in... | python | def workflow_add_tags(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/addTags API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FaddTags
"""
return DXHTTPRequest('/%s/addTags' % object_id, in... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_add_types | def workflow_add_types(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/addTypes API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Types#API-method%3A-%2Fclass-xxxx%2FaddTypes
"""
return DXHTTPRequest('/%s/addTypes' % object_i... | python | def workflow_add_types(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/addTypes API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Types#API-method%3A-%2Fclass-xxxx%2FaddTypes
"""
return DXHTTPRequest('/%s/addTypes' % object_i... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_close | def workflow_close(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/close API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Data-Object-Lifecycle#API-method%3A-%2Fclass-xxxx%2Fclose
"""
return DXHTTPRequest('/%s/close' % objec... | python | def workflow_close(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/close API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Data-Object-Lifecycle#API-method%3A-%2Fclass-xxxx%2Fclose
"""
return DXHTTPRequest('/%s/close' % objec... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_describe | def workflow_describe(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/describe API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2Fdescribe
"""
return DXHTTPRequest('/%s/d... | python | def workflow_describe(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/describe API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2Fdescribe
"""
return DXHTTPRequest('/%s/d... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_dry_run | def workflow_dry_run(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/dryRun API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FdryRun
"""
return DXHTTPRequest('/%s/dryRun... | python | def workflow_dry_run(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/dryRun API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FdryRun
"""
return DXHTTPRequest('/%s/dryRun... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_get_details | def workflow_get_details(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/getDetails API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Details-and-Links#API-method%3A-%2Fclass-xxxx%2FgetDetails
"""
return DXHTTPRequest('/%s/ge... | python | def workflow_get_details(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/getDetails API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Details-and-Links#API-method%3A-%2Fclass-xxxx%2FgetDetails
"""
return DXHTTPRequest('/%s/ge... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_is_stage_compatible | def workflow_is_stage_compatible(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/isStageCompatible API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FisStageCompatible
"""
... | python | def workflow_is_stage_compatible(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/isStageCompatible API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FisStageCompatible
"""
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_list_projects | def workflow_list_projects(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/listProjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Cloning#API-method%3A-%2Fclass-xxxx%2FlistProjects
"""
return DXHTTPRequest('/%s/listPr... | python | def workflow_list_projects(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/listProjects API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Cloning#API-method%3A-%2Fclass-xxxx%2FlistProjects
"""
return DXHTTPRequest('/%s/listPr... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_move_stage | def workflow_move_stage(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/moveStage API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FmoveStage
"""
return DXHTTPRequest('/... | python | def workflow_move_stage(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/moveStage API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FmoveStage
"""
return DXHTTPRequest('/... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_overwrite | def workflow_overwrite(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/overwrite API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2Foverwrite
"""
return DXHTTPRequest('/%... | python | def workflow_overwrite(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/overwrite API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2Foverwrite
"""
return DXHTTPRequest('/%... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_remove_stage | def workflow_remove_stage(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/removeStage API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FremoveStage
"""
return DXHTTPRequ... | python | def workflow_remove_stage(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/removeStage API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FremoveStage
"""
return DXHTTPRequ... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_remove_tags | def workflow_remove_tags(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/removeTags API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FremoveTags
"""
return DXHTTPRequest('/%s/removeTags' % o... | python | def workflow_remove_tags(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/removeTags API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FremoveTags
"""
return DXHTTPRequest('/%s/removeTags' % o... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_remove_types | def workflow_remove_types(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/removeTypes API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Types#API-method%3A-%2Fclass-xxxx%2FremoveTypes
"""
return DXHTTPRequest('/%s/removeTypes... | python | def workflow_remove_types(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/removeTypes API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Types#API-method%3A-%2Fclass-xxxx%2FremoveTypes
"""
return DXHTTPRequest('/%s/removeTypes... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_rename | def workflow_rename(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/rename API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Name#API-method%3A-%2Fclass-xxxx%2Frename
"""
return DXHTTPRequest('/%s/rename' % object_id, input_p... | python | def workflow_rename(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/rename API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Name#API-method%3A-%2Fclass-xxxx%2Frename
"""
return DXHTTPRequest('/%s/rename' % object_id, input_p... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_validate_batch | def workflow_validate_batch(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/validateBatch API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FvalidateBatch
"""
return DXHT... | python | def workflow_validate_batch(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/validateBatch API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FvalidateBatch
"""
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_set_details | def workflow_set_details(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/setDetails API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Details-and-Links#API-method%3A-%2Fclass-xxxx%2FsetDetails
"""
return DXHTTPRequest('/%s/se... | python | def workflow_set_details(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/setDetails API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Details-and-Links#API-method%3A-%2Fclass-xxxx%2FsetDetails
"""
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_set_properties | def workflow_set_properties(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/setProperties API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Properties#API-method%3A-%2Fclass-xxxx%2FsetProperties
"""
return DXHTTPRequest('/%s/... | python | def workflow_set_properties(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/setProperties API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Properties#API-method%3A-%2Fclass-xxxx%2FsetProperties
"""
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_set_stage_inputs | def workflow_set_stage_inputs(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/setStageInputs API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FsetStageInputs
"""
return ... | python | def workflow_set_stage_inputs(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/setStageInputs API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FsetStageInputs
"""
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_set_visibility | def workflow_set_visibility(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/setVisibility API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Visibility#API-method%3A-%2Fclass-xxxx%2FsetVisibility
"""
return DXHTTPRequest('/%s/... | python | def workflow_set_visibility(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/setVisibility API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Visibility#API-method%3A-%2Fclass-xxxx%2FsetVisibility
"""
return DXHTTPRequest('/%s/... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_update | def workflow_update(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/update API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2Fupdate
"""
return DXHTTPRequest('/%s/update'... | python | def workflow_update(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/update API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2Fupdate
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return DXHTTPRequest('/%s/update'... | [
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dnanexus/dx-toolkit | src/python/dxpy/api.py | workflow_update_stage_executable | def workflow_update_stage_executable(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/updateStageExecutable API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FupdateStageExecutabl... | python | def workflow_update_stage_executable(object_id, input_params={}, always_retry=True, **kwargs):
"""
Invokes the /workflow-xxxx/updateStageExecutable API method.
For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Workflows-and-Analyses#API-method%3A-%2Fworkflow-xxxx%2FupdateStageExecutabl... | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | _image_to_data | def _image_to_data(img):
"""
Does the work of encoding an image into Base64
"""
# If the image is already encoded in Base64, we have nothing to do here
if "src" not in img.attrs or img["src"].startswith("data:"):
return
elif re.match("https?://", img["src"]):
img_data = _load_url... | python | def _image_to_data(img):
"""
Does the work of encoding an image into Base64
"""
# If the image is already encoded in Base64, we have nothing to do here
if "src" not in img.attrs or img["src"].startswith("data:"):
return
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img_data = _load_url... | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | _bake_css | def _bake_css(link):
"""
Takes a link element and turns it into an inline style link if applicable
"""
if "href" in link.attrs and (re.search("\.css$", link["href"])) or ("rel" in link.attrs and link["rel"] is "stylesheet") or ("type" in link.attrs and link["type"] is "text/css"):
if re.match("h... | python | def _bake_css(link):
"""
Takes a link element and turns it into an inline style link if applicable
"""
if "href" in link.attrs and (re.search("\.css$", link["href"])) or ("rel" in link.attrs and link["rel"] is "stylesheet") or ("type" in link.attrs and link["type"] is "text/css"):
if re.match("h... | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | _bake_script | def _bake_script(script):
"""
Takes a script element and bakes it in only if it contains a remote resource
"""
if "src" in script.attrs:
if re.match("https?://", script["src"]):
script_data = _load_url(script["src"]).read()
else:
script_data = _load_file(script["s... | python | def _bake_script(script):
"""
Takes a script element and bakes it in only if it contains a remote resource
"""
if "src" in script.attrs:
if re.match("https?://", script["src"]):
script_data = _load_url(script["src"]).read()
else:
script_data = _load_file(script["s... | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | _load_file | def _load_file(path):
"""
Loads a file from the local filesystem
"""
if not os.path.exists(path):
parser.error("{} was not found!".format(path))
if USING_PYTHON2:
mode = "r"
else:
mode = "rb"
try:
f = open(path, mode)
return f
except IOError as ex:... | python | def _load_file(path):
"""
Loads a file from the local filesystem
"""
if not os.path.exists(path):
parser.error("{} was not found!".format(path))
if USING_PYTHON2:
mode = "r"
else:
mode = "rb"
try:
f = open(path, mode)
return f
except IOError as ex:... | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | _load_url | def _load_url(url):
"""
Loads a URL resource from a remote server
"""
try:
response = requests.get(url)
return BytesIO(response.content)
except IOError as ex:
parser.error("{url} could not be loaded remotely! ({ex})".format(url=url, ex=ex)) | python | def _load_url(url):
"""
Loads a URL resource from a remote server
"""
try:
response = requests.get(url)
return BytesIO(response.content)
except IOError as ex:
parser.error("{url} could not be loaded remotely! ({ex})".format(url=url, ex=ex)) | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | bake | def bake(src):
"""
Runs the encoder on the given source file
"""
src = os.path.realpath(src)
path = os.path.dirname(src)
filename = os.path.basename(src)
html = _load_file(src).read()
if imghdr.what("", html):
html = "<html><body><img src='{}'/></body></html>".format(cgi.escape(f... | python | def bake(src):
"""
Runs the encoder on the given source file
"""
src = os.path.realpath(src)
path = os.path.dirname(src)
filename = os.path.basename(src)
html = _load_file(src).read()
if imghdr.what("", html):
html = "<html><body><img src='{}'/></body></html>".format(cgi.escape(f... | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | upload_html | def upload_html(destination, html, name=None):
"""
Uploads the HTML to a file on the server
"""
[project, path, n] = parse_destination(destination)
try:
dxfile = dxpy.upload_string(html, media_type="text/html", project=project, folder=path, hidden=True, name=name or None)
return dxfi... | python | def upload_html(destination, html, name=None):
"""
Uploads the HTML to a file on the server
"""
[project, path, n] = parse_destination(destination)
try:
dxfile = dxpy.upload_string(html, media_type="text/html", project=project, folder=path, hidden=True, name=name or None)
return dxfi... | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | create_record | def create_record(destination, file_ids, width=None, height=None):
"""
Creates a master record for the HTML report; this doesn't contain contain the actual HTML, but reports
are required to be records rather than files and we can link more than one HTML file to a report
"""
[project, path, name] = p... | python | def create_record(destination, file_ids, width=None, height=None):
"""
Creates a master record for the HTML report; this doesn't contain contain the actual HTML, but reports
are required to be records rather than files and we can link more than one HTML file to a report
"""
[project, path, name] = p... | [
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dnanexus/dx-toolkit | src/python/dxpy/scripts/dx_build_report_html.py | save | def save(filename, html):
"""
Creates a baked HTML file on the local system
"""
try:
out_file = open(filename, "w")
out_file.write(html)
out_file.close()
except IOError as ex:
parser.error("Could not write baked HTML to local file {name}. ({ex})".format(name=filename,... | python | def save(filename, html):
"""
Creates a baked HTML file on the local system
"""
try:
out_file = open(filename, "w")
out_file.write(html)
out_file.close()
except IOError as ex:
parser.error("Could not write baked HTML to local file {name}. ({ex})".format(name=filename,... | [
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dnanexus/dx-toolkit | src/python/dxpy/utils/describe.py | get_size_str | def get_size_str(size):
"""
Formats a byte size as a string.
The returned string is no more than 9 characters long.
"""
if size == 0:
magnitude = 0
level = 0
else:
magnitude = math.floor(math.log(size, 10))
level = int(min(math.floor(magnitude // 3), 4))
retu... | python | def get_size_str(size):
"""
Formats a byte size as a string.
The returned string is no more than 9 characters long.
"""
if size == 0:
magnitude = 0
level = 0
else:
magnitude = math.floor(math.log(size, 10))
level = int(min(math.floor(magnitude // 3), 4))
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dnanexus/dx-toolkit | src/python/dxpy/utils/describe.py | is_job_ref | def is_job_ref(thing, reftype=dict):
'''
:param thing: something that might be a job-based object reference hash
:param reftype: type that a job-based object reference would be (default is dict)
'''
return isinstance(thing, reftype) and \
((len(thing) == 2 and \
isinstance(thin... | python | def is_job_ref(thing, reftype=dict):
'''
:param thing: something that might be a job-based object reference hash
:param reftype: type that a job-based object reference would be (default is dict)
'''
return isinstance(thing, reftype) and \
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dnanexus/dx-toolkit | src/python/dxpy/utils/describe.py | print_desc | def print_desc(desc, verbose=False):
'''
:param desc: The describe hash of a DNAnexus entity
:type desc: dict
Depending on the class of the entity, this method will print a
formatted and human-readable string containing the data in *desc*.
'''
if desc['class'] in ['project', 'workspace', 'c... | python | def print_desc(desc, verbose=False):
'''
:param desc: The describe hash of a DNAnexus entity
:type desc: dict
Depending on the class of the entity, this method will print a
formatted and human-readable string containing the data in *desc*.
'''
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dnanexus/dx-toolkit | src/python/dxpy/utils/describe.py | get_ls_l_desc | def get_ls_l_desc(desc, include_folder=False, include_project=False):
"""
desc must have at least all the fields given by get_ls_l_desc_fields.
"""
# If you make this method consume an additional field, you must add it to
# get_ls_l_desc_fields above.
if 'state' in desc:
state_len = len(... | python | def get_ls_l_desc(desc, include_folder=False, include_project=False):
"""
desc must have at least all the fields given by get_ls_l_desc_fields.
"""
# If you make this method consume an additional field, you must add it to
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if 'state' in desc:
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dnanexus/dx-toolkit | src/python/dxpy/utils/describe.py | get_find_executions_string | def get_find_executions_string(desc, has_children, single_result=False, show_outputs=True,
is_cached_result=False):
'''
:param desc: hash of execution's describe output
:param has_children: whether the execution has children to be printed
:param single_result: whether the ... | python | def get_find_executions_string(desc, has_children, single_result=False, show_outputs=True,
is_cached_result=False):
'''
:param desc: hash of execution's describe output
:param has_children: whether the execution has children to be printed
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dnanexus/dx-toolkit | src/python/dxpy/system_requirements.py | SystemRequirementsDict.from_instance_count | def from_instance_count(cls, instance_count_arg, entrypoint="*"):
"""
Returns a SystemRequirementsDict that can be passed as a
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"""
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dnanexus/dx-toolkit | src/python/dxpy/system_requirements.py | SystemRequirementsDict.from_instance_type | def from_instance_type(cls, instance_type_arg, entrypoint="*"):
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"""
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dnanexus/dx-toolkit | src/python/dxpy/system_requirements.py | SystemRequirementsDict.from_sys_requirements | def from_sys_requirements(cls, system_requirements, _type='all'):
"""
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"""
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"""
Returns SystemRequirementsDict encapsulating system requirements.
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dnanexus/dx-toolkit | src/python/dxpy/system_requirements.py | SystemRequirementsDict.override_cluster_spec | def override_cluster_spec(self, srd):
"""
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input to app-xxx/run, e.g. {'fn': {'clusterSpec': {initialInstanceCount: 3, version: "2.4.0", ..}}}
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"""
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dnanexus/dx-toolkit | src/python/dxpy/system_requirements.py | SystemRequirementsDict._add_dict_values | def _add_dict_values(self, d1, d2):
"""
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d2 = {'a': {'y': lmn}, 'b': {'y': rst}}
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Collisions of the keys of th... | python | def _add_dict_values(self, d1, d2):
"""
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d1 = {'a': {'x': pqr}}
d2 = {'a': {'y': lmn}, 'b': {'y': rst}}
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dnanexus/dx-toolkit | src/python/dxpy/bindings/dxrecord.py | new_dxrecord | def new_dxrecord(details=None, **kwargs):
'''
:rtype: :class:`DXRecord`
:param details: The contents of the record to be created.
:type details: dict
Additional optional parameters not listed: all those under
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Creates a new remote r... | python | def new_dxrecord(details=None, **kwargs):
'''
:rtype: :class:`DXRecord`
:param details: The contents of the record to be created.
:type details: dict
Additional optional parameters not listed: all those under
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dnanexus/dx-toolkit | src/python/dxpy/bindings/dxrecord.py | DXRecord._new | def _new(self, dx_hash, close=False, **kwargs):
"""
:param dx_hash: Standard hash populated in :func:`dxpy.bindings.DXDataObject.new()` containing attributes common to all data object classes.
:type dx_hash: dict
:param init_from: Record from which to initialize the metadata
:typ... | python | def _new(self, dx_hash, close=False, **kwargs):
"""
:param dx_hash: Standard hash populated in :func:`dxpy.bindings.DXDataObject.new()` containing attributes common to all data object classes.
:type dx_hash: dict
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dnanexus/dx-toolkit | src/python/dxpy/utils/executable_unbuilder.py | _recursive_cleanup | def _recursive_cleanup(foo):
"""
Aggressively cleans up things that look empty.
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if isinstance(foo, dict):
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_recursive_cleanup(val)
if val == "" or val == [] or val == {}:
del... | python | def _recursive_cleanup(foo):
"""
Aggressively cleans up things that look empty.
"""
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dnanexus/dx-toolkit | src/python/dxpy/utils/executable_unbuilder.py | dump_executable | def dump_executable(executable, destination_directory, omit_resources=False, describe_output={}):
"""
Reconstitutes an app, applet, or a workflow into a directory that would
create a functionally identical executable if "dx build" were run on it.
destination_directory will be the root source directory f... | python | def dump_executable(executable, destination_directory, omit_resources=False, describe_output={}):
"""
Reconstitutes an app, applet, or a workflow into a directory that would
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | resolve_data_objects | def resolve_data_objects(objects, project=None, folder=None, batchsize=1000):
"""
:param objects: Data object specifications, each with fields "name"
(required), "folder", and "project"
:type objects: list of dictionaries
:param project: ID of project context; a data object's project... | python | def resolve_data_objects(objects, project=None, folder=None, batchsize=1000):
"""
:param objects: Data object specifications, each with fields "name"
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:type objects: list of dictionaries
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | _find | def _find(api_method, query, limit, return_handler, first_page_size, **kwargs):
''' Takes an API method handler (dxpy.api.find*) and calls it with *query*,
and then wraps a generator around its output. Used by the methods below.
Note that this function may only be used for /system/find* methods.
'''
... | python | def _find(api_method, query, limit, return_handler, first_page_size, **kwargs):
''' Takes an API method handler (dxpy.api.find*) and calls it with *query*,
and then wraps a generator around its output. Used by the methods below.
Note that this function may only be used for /system/find* methods.
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_data_objects | def find_data_objects(classname=None, state=None, visibility=None,
name=None, name_mode='exact', properties=None,
typename=None, tag=None, tags=None,
link=None, project=None, folder=None, recurse=None,
modified_after=None, modified_... | python | def find_data_objects(classname=None, state=None, visibility=None,
name=None, name_mode='exact', properties=None,
typename=None, tag=None, tags=None,
link=None, project=None, folder=None, recurse=None,
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_executions | def find_executions(classname=None, launched_by=None, executable=None, project=None,
state=None, origin_job=None, parent_job=None, no_parent_job=False,
parent_analysis=None, no_parent_analysis=False, root_execution=None,
created_after=None, created_before=None... | python | def find_executions(classname=None, launched_by=None, executable=None, project=None,
state=None, origin_job=None, parent_job=None, no_parent_job=False,
parent_analysis=None, no_parent_analysis=False, root_execution=None,
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_projects | def find_projects(name=None, name_mode='exact', properties=None, tags=None,
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public=None, created_after=None, created_before=None, billed_to=None,
limit=None, return_handler=False, first_page_size=100, con... | python | def find_projects(name=None, name_mode='exact', properties=None, tags=None,
level=None, describe=False, explicit_perms=None, region=None,
public=None, created_after=None, created_before=None, billed_to=None,
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_global_executables | def find_global_executables(method, name=None, name_mode='exact', category=None,
all_versions=None, published=None,
billed_to=None, created_by=None, developer=None,
created_after=None, created_before=None,
mo... | python | def find_global_executables(method, name=None, name_mode='exact', category=None,
all_versions=None, published=None,
billed_to=None, created_by=None, developer=None,
created_after=None, created_before=None,
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_apps | def find_apps(name=None, name_mode='exact', category=None,
all_versions=None, published=None,
billed_to=None, created_by=None, developer=None,
created_after=None, created_before=None,
modified_after=None, modified_before=None,
describe=False, limit=N... | python | def find_apps(name=None, name_mode='exact', category=None,
all_versions=None, published=None,
billed_to=None, created_by=None, developer=None,
created_after=None, created_before=None,
modified_after=None, modified_before=None,
describe=False, limit=N... | [
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_one_data_object | def find_one_data_object(zero_ok=False, more_ok=True, **kwargs):
"""
:param zero_ok:
If False (default), :class:`~dxpy.exceptions.DXSearchError` is
raised if the search has 0 results; if True, returns None if the
search has 0 results
:type zero_ok: bool
:param more_ok:
If... | python | def find_one_data_object(zero_ok=False, more_ok=True, **kwargs):
"""
:param zero_ok:
If False (default), :class:`~dxpy.exceptions.DXSearchError` is
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_one_project | def find_one_project(zero_ok=False, more_ok=True, **kwargs):
"""
:param zero_ok:
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raised if the search has 0 results; if True, returns None if the
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:type zero_ok: bool
:param more_ok:
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"""
:param zero_ok:
If False (default), :class:`~dxpy.exceptions.DXSearchError` is
raised if the search has 0 results; if True, returns None if the
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_one_app | def find_one_app(zero_ok=False, more_ok=True, **kwargs):
"""
:param zero_ok:
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raised if the search has 0 results; if True, returns None if the
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"""
:param zero_ok:
If False (default), :class:`~dxpy.exceptions.DXSearchError` is
raised if the search has 0 results; if True, returns None if the
search has 0 results
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | _org_find | def _org_find(api_method, org_id, query, first_page_size=100):
"""
Takes an API method handler ``dxpy.api.org_find...`` and calls it with
*org_id* and *query*, then wraps a generator around its output. Used by
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:param first_page_size: The... | python | def _org_find(api_method, org_id, query, first_page_size=100):
"""
Takes an API method handler ``dxpy.api.org_find...`` and calls it with
*org_id* and *query*, then wraps a generator around its output. Used by
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | org_find_members | def org_find_members(org_id=None, level=None, describe=False):
"""
:param org_id: ID of the organization
:type org_id: string
:param level: The membership level in the org that each member in the result set must have (one of "MEMBER" or
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:type level: string
:param describe: Wheth... | python | def org_find_members(org_id=None, level=None, describe=False):
"""
:param org_id: ID of the organization
:type org_id: string
:param level: The membership level in the org that each member in the result set must have (one of "MEMBER" or
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:type level: string
:param describe: Wheth... | [
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | org_find_projects | def org_find_projects(org_id=None, name=None, name_mode='exact', ids=None, properties=None, tags=None, describe=False,
public=None, created_after=None, created_before=None, region=None, containsPHI=None):
"""
:param org_id: ID of the organization
:type org_id: string
:param name: N... | python | def org_find_projects(org_id=None, name=None, name_mode='exact', ids=None, properties=None, tags=None, describe=False,
public=None, created_after=None, created_before=None, region=None, containsPHI=None):
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:type org_id: string
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dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | org_find_apps | def org_find_apps(org_id,
name=None,
name_mode='exact',
category=None,
all_versions=None,
published=None,
created_by=None,
developer=None,
authorized_user=None,
... | python | def org_find_apps(org_id,
name=None,
name_mode='exact',
category=None,
all_versions=None,
published=None,
created_by=None,
developer=None,
authorized_user=None,
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:param category: ... | [
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... | 74befb53ad90fcf902d8983ae6d74580f402d619 | https://github.com/dnanexus/dx-toolkit/blob/74befb53ad90fcf902d8983ae6d74580f402d619/src/python/dxpy/bindings/search.py#L868-L985 | train | This function returns a list of apps that are available for the org. | GiP5xwVCF98Z,B3LV8Eo811Ma,bIsJhlpYrrU2,UtiWT6f6p9yZ,sY2ClS3bs_Vs,cXy7eDEmqBLX,WBIJpxagI_Bm,oiYQtqKByLVy,pKtZbyLPTF7M,N5KuUvtbiyqB,Y8CO_HpFZe1H,lFpHwHL3xiEO,QT_5wdIFQ3WX,gn988v5t9NEf,dVZxwLTOCtbO,RjQP07DYIdkf,Wun5u3i1rn23,m64e4RQAlmFd,zfo2Sgkz3IVJ,aWb0eXvJHTT7,s2y8nAB4S7UF,znAfcqx_89tO,ZnHlCcECsuOK,TdYHRT1SBW60,mBmBrDJU... |
dnanexus/dx-toolkit | src/python/dxpy/bindings/search.py | find_orgs | def find_orgs(query, first_page_size=10):
"""
:param query: The input to the /system/findOrgs API method.
:type query: dict
:param first_page_size: The number of results that the initial
/system/findOrgs API call will return; default 10, max 1000. Subsequent
calls will raise the number ... | python | def find_orgs(query, first_page_size=10):
"""
:param query: The input to the /system/findOrgs API method.
:type query: dict
:param first_page_size: The number of results that the initial
/system/findOrgs API call will return; default 10, max 1000. Subsequent
calls will raise the number ... | [
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:param first_page_size: The number of results that the initial
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] | 74befb53ad90fcf902d8983ae6d74580f402d619 | https://github.com/dnanexus/dx-toolkit/blob/74befb53ad90fcf902d8983ae6d74580f402d619/src/python/dxpy/bindings/search.py#L987-L1004 | train | Returns a generator that yields all orgs matching the query. | GiP5xwVCF98Z,B3LV8Eo811Ma,bIsJhlpYrrU2,UtiWT6f6p9yZ,sY2ClS3bs_Vs,cXy7eDEmqBLX,WBIJpxagI_Bm,oiYQtqKByLVy,pKtZbyLPTF7M,N5KuUvtbiyqB,Y8CO_HpFZe1H,lFpHwHL3xiEO,QT_5wdIFQ3WX,gn988v5t9NEf,dVZxwLTOCtbO,RjQP07DYIdkf,Wun5u3i1rn23,m64e4RQAlmFd,zfo2Sgkz3IVJ,aWb0eXvJHTT7,s2y8nAB4S7UF,znAfcqx_89tO,ZnHlCcECsuOK,TdYHRT1SBW60,mBmBrDJU... |
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