Update app.py

app.py

@@ -203,12 +203,28 @@ if file_to_lookat !=[] and sub:
     
         if not os.path.exists('input/input'):
             os.mkdir('input/input')
-        remove_old_vcf()    
-        bytes_data=file_to_lookat[j].read()
-        with open(os.path.join("input",file_to_lookat[j].name),"wb") as f:
-            f.write(bytes_data)
-            f.close()
-            seev=glob.glob('input/*')
+        remove_old_vcf() 
+        if re.findall('vcf$',file_to_lookat[j].name) != []:
+            bytes_data=file_to_lookat[j].read()
+            with open(os.path.join("input",file_to_lookat[j].name),"wb") as f:
+                f.write(bytes_data)
+                f.close()
+                seev=glob.glob('input/*')
+        else:
+            table_of_penn_file=pd.read_excel(file_to_lookat[j])
+            tovcf=pd.DataFrame()
+            tovcf['Chrom']=table_of_penn_file['Chrom']
+            tovcf['Pos']=table_of_penn_file['Pos']
+            tovcf['db']='.'
+            tovcf['ref']=table_of_penn_file['Ref']
+            tovcf['alt']=table_of_penn_file['Alt']
+            nameuse=re.sub('xlsx$','vcf',file_to_lookat[j].name)
+            tovcf.to_csv(nameuse,sep='\t',header=False, index=False)
+            bytes_data=nameuse.read()
+            with open(os.path.join("input",nameuse),"wb") as f:
+                f.write(bytes_data)
+                f.close()
+                seev=glob.glob('input/*')        
             #for i in seev:
             #    st.write(i)
         #vcfuse=glob.glob('file_to_lookat[0].name')[0]