Merge pull request #122 from J35P312/master

fix graphlib import problem in python 3.11

Author: J35P312

Dockerfile

@@ -3,7 +3,7 @@ FROM condaforge/mambaforge:24.9.2-0
 WORKDIR /app
 
 ## Set TIDDIT version
-ARG TIDDIT_VERSION=3.9.0
+ARG TIDDIT_VERSION=3.9.1
 
 ## Add some info
 LABEL base_image="python:3.8-slim"

setup.py

@@ -27,7 +27,7 @@
 
 setup(
     name = 'tiddit',
-    version = '3.9.0',
+    version = '3.9.1',
 
 
     url = "https://github.com/SciLifeLab/TIDDIT",

tiddit/__main__.py

@@ -18,7 +18,7 @@
 import tiddit.tiddit_gc as tiddit_gc
 
 def main():
-	version="3.9.0"
+	version="3.9.1"
 	parser = argparse.ArgumentParser("""tiddit-{}""".format(version),add_help=False)
 	parser.add_argument("--sv"	 , help="call structural variation", required=False, action="store_true")
 	parser.add_argument("--cov"        , help="generate a coverage bed file", required=False, action="store_true")

tiddit/silverfish.pyx

@@ -1,6 +1,6 @@
 import time
 import sys
-import graphlib
+import tiddit.graphlib as graphlib
 import copy
 
 def build_kmer_hist(seq,kmer_hist,k):