JianJun Jin comments

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                                            JianJun Jin

Getting multiple "Disentangling Failed" even after changing settings.

According to the graph, the second and third tries generated [organelle-complete graph](https://github.com/Kinggerm/GetOrganelle/wiki/Terminology), which is improved from the first try. However, there are too many repeats within this graph, making it...

animal_mt: No valid Assembly graph found: an example of --reduce-reads-for-coverage

@9326xiaoxiao Your issue is different. Please check #198

Cannot download repodata: Solving environment: failed with initial frozen solve. Retrying with flexible solve

I will create a virtual environment for getorganelle with conda create -n getorganelle conda activate getorganelle then check if you can install it smoothly, conda install -c bioconda getorganelle if...

Error with running SPAdes: you should at least specify one file with reads

Hi Max, It is because you used an arbitrary word size (195) that is even larger than the read length (100). I should have forbidden this after read length checking...

Assembling exited halfway - ERROR: No valid assembly graph found

Your issue is different from issue116. Please note that the spades assembly step exited almost immediately after the start. So you troubleshoot your environment to run spades normally. The spades.log...

“Disentangling failed: 'Multiple isolated embplant_pt components detected! Broken or contamination?” AND the assemble length range different from reference

Thank you for your query. Based on your runs, it appears that the organelle sufficient graph has already been achieved, so adjusting parameters may not be necessary (refer to our...