Mercurial > repos > dchristiany > data_manager_proteore

comparison data_manager/resource_building.py @ 6:9c75521e4a64 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit d703392579d96e480c6461ce679516b12cefb3de-dirty
author dchristiany
date Fri, 19 Oct 2018 04:19:36 -0400
parents 2de84fea8367
children d16a52bf0e5b
comparison
equal deleted inserted replaced
5:1dc87bb457c7 6:9c75521e4a64
216 216
217 name_dict={"human" : "Homo sapiens", "mouse" : "Mus musculus", "rat" : "Rattus norvegicus"} 217 name_dict={"human" : "Homo sapiens", "mouse" : "Mus musculus", "rat" : "Rattus norvegicus"}
218 name = name_dict[species]+" ("+time.strftime("%d-%m-%Y")+")" 218 name = name_dict[species]+" ("+time.strftime("%d-%m-%Y")+")"
219 219
220 data_table_entry = dict(value = species+"_id_mapping_"+ time.strftime("%d-%m-%Y"), name = name, path = path) 220 data_table_entry = dict(value = species+"_id_mapping_"+ time.strftime("%d-%m-%Y"), name = name, path = path)
221 _add_data_table_entry(data_manager_dict, data_table_entry, "id_mapping_tab") 221 _add_data_table_entry(data_manager_dict, data_table_entry, "id_mapping")
222 222
223 def download_from_uniprot_ftp(file,target_directory) : 223 def download_from_uniprot_ftp(file,target_directory) :
224 ftp_dir = "pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/" 224 ftp_dir = "pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/"
225 path = os.path.join(target_directory, file) 225 path = os.path.join(target_directory, file)
226 ftp = ftplib.FTP("ftp.uniprot.org") 226 ftp = ftplib.FTP("ftp.uniprot.org")