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### Description of the bug
CAT_DB_GENERATE fails on my system due to what seem to be network connection issues, despite nodes having internet access:
```
WARNING: Skipping mount /var/apptainer/mn…
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Hi, I have forked this repo and in order to get it to work on our hpc cluster, I would like to implement slurm usage in the pipeline. But I see that some steps in the pipeline want to download things …
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Greetings,
I'm trying to set the genome via `-g hg38` on version 2.2, from the Docker container. However, I get:
```
Try parsing VCF files...
Reading file(s): /data/cds_group/Processed-Data/20…
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Hi!
I am trying to install mitograph inside an apptainer container and I am getting an error during the make phase.
The list of commands I used are below. I have attached the log file as well.
[…
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### Description of the bug
I provide a fasta file for running Mutect2 and have this error :
` A USER ERROR has occurred: Fasta index file file://GRCh38_latest_genomic.fna.fai for reference fi…
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Hey again,
I was able to run this pipeline successfully with test and real data, but am running into an issue I can't solve with a new set of real data. Here is my command:
```
nextflow run mai…
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Hello!
I recently updated gubbins to version 3.3.3 with the quay.io docker image.
When running the program on a core genome alignment from ParSNP, I get the following error message:
```
Command …
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In the docker image, we have to git clone the code and activate the conda environment. The point of a docker container is to have everything in there so we can just run the program. Can you git clo…
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**Describe the bug**
The [C++ dataset helper makefile](https://github.com/NVIDIA/NeMo/blob/main/nemo/collections/nlp/data/language_modeling/megatron/Makefile) of Megatron in NeMo attempts to write …
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Hi,
First, thanks for maintaining a great tool. I think maybe I am doing something wrong, but have been using the "agat_sp_keep_longest_isoform.pl" tool, and it finishes 95% of the time within a fe…