added default container and added check for printed components

Author: tiagofilipe12

flowcraft/generator/engine.py

@@ -1533,6 +1533,10 @@ def fetch_docker_tags(self):
         the -t flag.
         """
 
+        # list to store the already parsed components (useful when forks are
+        # given to the pipeline string via -t flag
+        list_of_parsed = []
+
         # fetches terminal width and subtracts 3 because we always add a
         # new line character and we want a space at the beggining and at the end
         # of each line
@@ -1562,12 +1566,20 @@ def fetch_docker_tags(self):
         # Skip first init process and iterate through the others
         for p in self.processes[1:]:
             template = p.template
+            # if component has already been printed then skip and don't print
+            # again
+            if template in list_of_parsed:
+                continue
+
+            list_of_parsed.append(template)
+
             # fetch repo name from directives of the template. Since some
             # components like integrity_coverage doesn't have a directives with
             # container, thus if no directive there the script will skip this
             # template
             try:
                 repo = p.directives[template]["container"]
+                default_version = p.directives[template]["version"]
             except KeyError:
                 continue
             # make the request to docker hub
@@ -1581,7 +1593,10 @@ def fetch_docker_tags(self):
                 # parse response content to dict and fetch results key
                 r_content = json.loads(r.content)["results"]
                 for version in r_content:
-                    tags_list.append([template, repo, version["name"]])
+                    printed_version = (version["name"] + "*") \
+                        if version["name"] == default_version \
+                        else version["name"]
+                    tags_list.append([template, repo, printed_version])
             else:
                 tags_list.append([template, repo, "No DockerHub tags"])
 
@@ -1607,7 +1622,8 @@ def fetch_docker_tags(self):
                     *entry, *final_width), color)
             )
         # assures that the entire line gets the same color
-        sys.stdout.write("\n")
+        sys.stdout.write("\n{0: >{1}}\n".format("(* = default)",
+                                                terminal_width + 3))
 
     def build(self):
         """Main pipeline builder

flowcraft/templates/mashdist2json.py

@@ -165,6 +165,7 @@ def main(mash_output, hash_cutoff, sample_id, assembly_file):
     # assures that file is closed in last iteration of the loop
     send_to_output(master_dict, mash_output, sample_id, assembly_file)
 
+
 if __name__ == "__main__":
 
     main(MASH_TXT, HASH_CUTOFF, SAMPLE_ID, ASSEMBLY_IN)