Unverified Commit e2d43806 authored by mvdbeek's avatar mvdbeek
Browse files

Fix ``sff_extract`` tool, drop type annotation 

I don't think this tool is really used much, but it is loaded in
`tool_conf.xml`.
https://github.com/galaxyproject/galaxy/pull/11877 added type
annotations, and that's a syntax error on 2.7

The alternative would be to fix the rest of the tool for 3.x,
but I think we're just wasting our time there and we shouldn't
touch this again.
parent 99835a86

tools/filters/sff_extract.py

+2 −3
Original line number Diff line number Diff line
@@ -31,7 +31,6 @@ import struct 
import subprocess

import sys

import tempfile

from typing import Dict, List



__author__ = 'Jose Blanca and Bastien Chevreux'

__copyright__ = 'Copyright 2008, Jose Blanca, COMAV, and Bastien Chevreux'
@@ -43,9 +42,9 @@ __status__ = 'beta' 
fake_sff_name = 'fake_sff_name'



# readname as key: lines with matches from SSAHA, one best match

ssahapematches: Dict[str, List] = {}

ssahapematches = {}  # type: ignore

# linker readname as key: length of linker sequence

linkerlengths: Dict[str, int] = {}

linkerlengths = {}  # type: ignore



# set to true if something really fishy is going on with the sequences

stern_warning = True

tools/filters/sff_extractor.xml

+0 −2
Original line number Diff line number Diff line
@@ -57,5 +57,3 @@ Clippings (XML) 


    </help>

</tool>