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Hello,
There seems to be an error at the fastq-fasta conversion, or fastq filtering step. Can you provide advice based on the error message below? I have 180 fastq samples and it seems to proceed t…
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When I run the virsorter setup command, it always report error.
(virsort2) bo@bioinofo2:~$ virsorter setup -d virsorter_db/
[2024-10-24 02:47 INFO] VirSorter 2.2.4
[2024-10-24 02:47 INFO] /home/b…
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As we have made some changes to the workflow, the instructions on how to get started with the model is now outdated. More specifically, this related to the conda environments.
We are saying that p…
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It would be useful to have such a command line option.
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**Snakemake version**
8.10.6
**Describe the bug**
I am trying to troubleshoot why SnakeMake thinks [my rules ](https://github.com/AgResearch/snakemake-playpen/blob/main/workflow/playpen.smk)a…
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Hello,
I'm attempting to run the provided test dataset on a computing cluster. Unfortunately, I encountered the following error:
```
Error in rule go_fetch:
jobid: 141
output: results…
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Thanks for your effort in providing this amazing tool. I encountered an issue while running the Snakemake pipeline for Cellpose segmentation on Phenocycler data. Could you please help me figure out wh…
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**Describe the bug**
Mamba not detected in snakemake when hybracter is run on the cluster via slurm. hybracterENV installed with miniforge3.
**To Reproduce**
1. conda activate hybracterENV in …
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Work coming from the BGE hackathon in Leiden. Reporting of products made should go in the report here: https://docs.google.com/document/d/1if6ukMKN3xHQHAwGEQPhhgvp7iQcFnauj4W1ZtIs8wk/edit
Aim is to…
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https://github.com/AllenCell/benchmarking_representations/tree/main/src/br/data/preprocessing/image_preprocessing
need to mention the number of cores in the command snakemake -s Snakefile --cores (th…