GIT: Merge branch 'main' into JOSS

docs/install.md

@@ -1 +1,19 @@
-# Installing GraphBin-Tk
+# Installing GraphBin-Tk
+
+```shell
+# clone repository
+git clone https://github.com/metagentools/gbintk.git
+
+# move to gbintk directory
+cd gbintk
+
+# create and activate conda env
+conda env create -f environment.yml
+conda activate gbintk
+
+# install using flit
+flit install
+
+# test installation
+gbintk --help
+```

src/gbintk/support/visualise_result_Flye.py

@@ -17,7 +17,7 @@
 import sys
 from collections import defaultdict
 
-from graphbin.utils.bidirectionalmap.bidirectionalmap import BidirectionalMap
+from graphbin.bidirectionalmap.bidirectionalmap import BidirectionalMap
 from igraph import *
 
 __author__ = "Vijini Mallawaarachchi"

src/gbintk/support/visualise_result_MEGAHIT.py

@@ -18,7 +18,7 @@
 import sys
 
 from cogent3.parse.fasta import MinimalFastaParser
-from graphbin.utils.bidirectionalmap.bidirectionalmap import BidirectionalMap
+from graphbin.bidirectionalmap.bidirectionalmap import BidirectionalMap
 from igraph import *
 
 __author__ = "Vijini Mallawaarachchi"

src/gbintk/support/visualise_result_SPAdes.py

@@ -18,7 +18,7 @@
 import sys
 from collections import defaultdict
 
-from graphbin.utils.bidirectionalmap.bidirectionalmap import BidirectionalMap
+from graphbin.bidirectionalmap.bidirectionalmap import BidirectionalMap
 from igraph import *
 
 __author__ = "Vijini Mallawaarachchi"