code stringlengths 3 6.57k |
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delete(self) |
HistoryDatasetCollectionAssociation(DatasetCollection) |
delete(self) |
self.gi.gi.histories.delete_dataset_collection(self.container.id, self.id) |
self.container.refresh() |
self.refresh() |
LibRelatedDataset(Dataset) |
_stream_url(self) |
self.gi.gi.libraries._make_url() |
LibraryDatasetDatasetAssociation(LibRelatedDataset) |
LibraryDataset(LibRelatedDataset) |
delete(self, purged=False) |
purge (permanently delete) |
self.container.refresh() |
self.refresh() |
update(self, **kwds) |
build (dbkey) |
self.gi.gi.libraries.update_library_dataset(self.id, **kwds) |
self.container.refresh() |
self.__init__(res, self.container, gi=self.gi) |
ContentInfo(Wrapper) |
LibraryContentInfo(ContentInfo) |
HistoryContentInfo(ContentInfo) |
DatasetContainer(Wrapper, metaclass=abc.ABCMeta) |
containers (histories and libraries) |
__init__(self, c_dict, content_infos=None, gi=None) |
super() |
__init__(c_dict, gi=gi) |
object.__setattr__(self, 'content_infos', content_infos) |
object.__setattr__(self, 'obj_gi_client', getattr(self.gi, self.API_MODULE) |
API_MODULE(self) |
dataset_ids(self) |
preview(self) |
getf() |
getf(deleted=True) |
ValueError(f"no object for id {self.id}") |
refresh(self) |
self.obj_gi_client.get(self.id) |
get_dataset(self, ds_id) |
getattr(self.gi.gi, self.API_MODULE) |
gi_client.show_dataset(self.id, ds_id) |
self.DS_TYPE(ds_dict, self, gi=self.gi) |
get_datasets(self, name=None) |
self.get_dataset(_) |
History(DatasetContainer) |
update(self, **kwds) |
purged (permanently deleted) |
self.gi.gi.histories.update_history(self.id, **kwds) |
self.refresh() |
delete(self, purge=False) |
purge (permanently delete) |
self.gi.histories.delete(id_=self.id, purge=purge) |
self.refresh() |
self.unmap() |
import_dataset(self, lds) |
RuntimeError('history is not mapped to a Galaxy object') |
isinstance(lds, LibraryDataset) |
TypeError('lds is not a LibraryDataset') |
self.gi.gi.histories.upload_dataset_from_library(self.id, lds.id) |
isinstance(res, Mapping) |
self.refresh() |
self.get_dataset(res['id']) |
upload_file(self, path, **kwargs) |
self.gi.gi.tools.upload_file(path, self.id, **kwargs) |
self.refresh() |
self.get_dataset(out_dict['outputs'][0]['id']) |
upload_from_ftp(self, path, **kwargs) |
self.gi.gi.tools.upload_from_ftp(path, self.id, **kwargs) |
self.refresh() |
self.get_dataset(out_dict['outputs'][0]['id']) |
paste_content(self, content, **kwargs) |
parameters (except file_name) |
self.gi.gi.tools.paste_content(content, self.id, **kwargs) |
self.refresh() |
self.get_dataset(out_dict['outputs'][0]['id']) |
download(self, jeha_id, outf, chunk_size=bioblend.CHUNK_SIZE) |
create_dataset_collection(self, collection_description) |
self.gi.gi.histories.create_dataset_collection(self.id, collection_description) |
self.refresh() |
self.get_dataset_collection(dataset_collection['id']) |
get_dataset_collection(self, dsc_id) |
self.gi.gi.histories.show_dataset_collection(self.id, dsc_id) |
self.DSC_TYPE(dsc_dict, self, gi=self.gi) |
Library(DatasetContainer) |
folder_ids(self) |
delete(self) |
self.gi.libraries.delete(id_=self.id) |
self.refresh() |
self.unmap() |
_pre_upload(self, folder) |
RuntimeError('library is not mapped to a Galaxy object') |
upload_data(self, data, folder=None, **kwargs) |
self._pre_upload(folder) |
self.refresh() |
self.get_dataset(res[0]['id']) |
upload_from_url(self, url, folder=None, **kwargs) |
self._pre_upload(folder) |
self.refresh() |
self.get_dataset(res[0]['id']) |
upload_from_local(self, path, folder=None, **kwargs) |
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