YES: Remove hacks (#57)

* Output type set correctly in q2galaxy

* Detect errors set correctly in q2galaxy

* Profile updated in q2galaxy, version already being set accurately

repo-utils/swap-in-docker.py

@@ -16,20 +16,6 @@ def main(tool_fp, docker_image):
 
     root.replace(root.find('requirements'), new_reqs)
 
-    # TODO: port these to q2galaxy
-    # HACK: set correct profile and hack version
-    root.set('version', root.get('version') + '.2')
-    root.set('profile', '22.05')
-
-    # HACK: fix visualizer output ftype
-    for output in root.iterfind('.//output'):
-        if output.get('name') == 'visualization':
-            output.set('ftype', 'qzv')
-
-    # HACK: change command dectect_errors
-    command = root.find('command')
-    command.set('detect_errors', 'exit_code')
-
     xml.indent(tool, ' ' * 4)
     xmlbytes = xml.tostring(tool, pretty_print=True, encoding='utf-8',
                             xml_declaration=True)