# HG changeset patch
# User estrain
# Date 1653867304 0
# Node ID 12903778c5adf2a38eaa7910073af28d4ed022ee
# Parent  e199998ae681936f66c342e3562dc77ddcdfe319
Uploaded

diff -r e199998ae681 -r 12903778c5ad data_manager_fastani/data_manager/data_manager_fastani.py
--- a/data_manager_fastani/data_manager/data_manager_fastani.py	Sun May 29 22:30:38 2022 +0000
+++ b/data_manager_fastani/data_manager/data_manager_fastani.py	Sun May 29 23:35:04 2022 +0000
@@ -49,7 +49,8 @@
       'NZ_CP018311':'Vibrio_rotiferianus_strain_B64D1'}
 
     for acc in accdict: 
-      ecmd = "efetch -db nuccore -id " + acc + " -format fasta > " + accdict[acc] + ".fna"
+      cmd = "efetch -db nuccore -id " + acc + " -format fasta > " + accdict[acc] + ".fna"
+      os.system(cmd)
 
     os.chdir(cwd)    
     return 
@@ -93,7 +94,7 @@
       download_D1(output_directory)    
       version="FastANI D1"
     elif(args.type[0]=="VL"): 
-      download_D1(output_directory)    
+      #download_D1(output_directory)    
       download_VL(output_directory)    
       version="FastANI D1 + VetLIRN"