tools

tools/urls.py

@@ -10,5 +10,6 @@ urlpatterns = [
     url("orf", views.orf),
     url("basics", views.basics),
     url("pfam", views.pfam),
-    url("Differential_expression_analysis", views.Differential_expression_analysis)
+    url("Differential_expression_analysis", views.Differential_expression_analysis),
+    url("blast", views.blast)
 ]

tools/views.py

@@ -21,8 +21,28 @@ def id_transform(request):
 
 
 def blast(request):
+    file = request.FILES.get('file', None)
     file1 = request.FILES.get('file1', None)
-    pass
+    id_ = request.POST.get("id", None)
+    fl = request.POST.get("fl", None)
+    if fl:
+        file_path, file_id = tools.path_out("chart", name=id_ + "seq")
+        tools.keep_file(file, file_path)
+        return JsonResponse({})
+    else:
+        file_path, file_id = tools.path_out("chart", name=id_)
+
+        tools.keep_file(file1, file_path)
+        outfmt = request.POST.get("outfmt", None)
+        evalue = request.POST.get("evalue", None)
+        num_descriptions = request.POST.get("num_descriptions", None)
+        type = request.POST.get("type", None)
+        os.system(
+            f"makeblastdb -in {file_path} -dbtype {'prot' if type in ['blastx'] else 'nucl'} -parse_seqids -out db")
+        os.system(
+            f"{type} -query {file_path}seq -out {file_path}.blast -db db -outfmt {outfmt} -evalue {evalue} -num_descriptions {num_descriptions} -num_threads 8")
+
+        return JsonResponse({"id": id_})
 
 
 def gen_to_fa(request):
@@ -96,7 +116,7 @@ def pfam(request):
     tools.keep_file(file, file_path)
     data = {"id": file_id}
     os.system(
-        f"{tools.tools_path}/pfam_scan.pl -fasta {file_path} -b_dom {b_dom} -b_seq {b_seq} -e_dom {e_dom} -e_seq {e_seq} -align {align} -clan_overlap {clan_overlap} -dir {tools.tools_path}/db/ -out {file_path}.txt")
+        f"{tools.tools_path}/pfam_scan.pl -fasta {file_path} -b_dom {b_dom} -b_seq {b_seq} -e_dom {e_dom} -e_seq {e_seq} -align {align} -clan_overlap {clan_overlap} -dir {tools.tools_path}/pfam_db/ -out {file_path}.txt")
 
     return JsonResponse(data)