Devina Bhookhun Seeruttun
Devina Bhookhun Seeruttun
hi One question Why when I start running the program (base) devina@Devinas-MacBook-Pro ~ % python3 GenGraph/gengraphTool.py make_genome_graph --seq_file Documents/anagengraph.txt --out_file_name Documents/output Conducting progressiveMauve progressiveMauve It got stuck. I am using...
Hi, Yes I am using the latest version in the repository. However since I am using a Mac I have install the alignment software using the following commands 1.# Install...
Thank you. I have run /usr/local/bin/progressiveMauve (base) devina@Devinas-MacBook-Pro ~ % /usr/local/bin/progressiveMauve progressiveMauve usage: When each genome resides in a separate file: /usr/local/bin/progressiveMauve [options] ... When all genomes are in a...
hi what is the new code? I was testing GenGraph with your reference WGSs The log file INFO:root:({'seq0': 'H37Ra', 'seq1': 'F11'}, {'H37Ra': 'Documents/genomes/H37Ra/sequence.fasta/H37Ra.fas', 'F11': 'Documents/genomes/F11/sequence.fasta/F11.fas'}, ['Documents/genomes/H37Ra/sequence.fasta/H37Ra.fas', 'Documents/genomes/F11/sequence.fasta/F11.fas'], {'H37Ra': 'NA', 'F11':...
Thank you. I’ll make the requested changes. Now I have the following error > (base) devina@Devinas-MacBook-Pro ~ % python3 GenGraph/gengraphTool.py make_genome_graph --seq_file Documents/anagengraph.txt --out_file_name genoutput > Conducting progressiveMauve > progressiveMauve...
Done When I run it I got the following error (base) devina@Devinas-MacBook-Pro ~ % python3 GenGraph/gengraphTool.py make_genome_graph --seq_file Documents/anagengraph.txt --out_file_name output Conducting progressiveMauve progressiveMauve Complete Traceback (most recent call last):...
Hi, I have network 2.4 installed to you think that why I having the following problem AttributeError: 'MultiDiGraph' object has no attribute ‘node’. Pease help. Thank you Cheers Devina >...
Yes networkx 2.4 was the problem\Now I am stuck The key error is ‘_leftend' (base) devina@Devinas-MacBook-Pro ~ % python3 GenGraph/gengraphTool.py make_genome_graph --seq_file Documents/anagengraph.txt --out_file_name output Conducting progressiveMauve progressiveMauve Complete Conducting...
Thank you. Devina > On 17 Jun 2020, at 14:11, Jambler wrote: > > > Hi Devina, > > Thanks for spotting the networkx 2.4 problem, I will add a...
Great.Thank you Cheers Devina > On 23 Jun 2020, at 13:15, Jambler wrote: > > > Just an update, the code now supports networkx 2.4. > > The code works...