Rebaler
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rrwick
reference-based long read assemblies of bacterial genomes
Attempting to install the most recent release will lead to the following error: ``` Traceback (most recent call last): File "setup.py", line 16, in version = re.search('^__version__\s*=\s*"(.*)"', open('rebaler/rebaler.py').read(), re.M).group(1) FileNotFoundError:...
I have been using Rebaler to improve Canu assemblies with Unicycler contigs. Is there a way to generate genome graphs from rebaler output to inspect using Bandage?
Hello! Could you explain me, if my reads don't contain all parts of genome (there are mismatched amplicons), why my assembly doesn't contain N's? May I "turn" it in your...
Hi there, I am using Rebaler for the first time, trying it on a Google Colab script. the script installs minimap2, racon, biopython and Rebaler. The installation fails but I...
Force the process quit when Racon returns Illegal Instruction error, which happens sometimes if installing via bioconda.
I receive the following error when trying to install Collecting git+https://github.com/rrwick/Rebaler.git Cloning https://github.com/rrwick/Rebaler.git to /tmp/pip-req-build-uznp9bpv Running command git clone -q https://github.com/rrwick/Rebaler.git /tmp/pip-req-build-uznp9bpv ERROR: Command errored out with exit status 1:...
Hello, First, thank you very much for this tool. I am using rebaler for chloroplast genome assembly and it crashed at the final shred and polish stage. Full traceback: Final...
`Traceback (most recent call last): File "./rebaler-runner.py", line 9, in main() File "/mnt/volume/Rebaler/rebaler/__main__.py", line 93, in main unpolished_sequences = build_unpolished_assembly(args, reference, ref_names, ref_seqs) File "/mnt/volume/Rebaler/rebaler/__main__.py", line 149, in build_unpolished_assembly print_partitions(ref_names,...
Hello. This problem might be different from the one below. I downloaded rebaler using bioconda. It did not work indicating the problem below. I deleted the enviroment in which rebaler...
