bacass
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nf-core
Simple bacterial assembly and annotation pipeline
### Description of feature Currently, nf-core/bacass does not support mamba or micromamba. It would increase the versatility and compatibility of the pipeline, aligning it with other nf-core pipelines that already...
### Description of the bug Hello, after the most recent updates, I've been unable to run my pipeline. It stops right after the processes are shown on the check list....
Version `3.2.0` of [nf-core/tools](https://github.com/nf-core/tools) has just been released with updates to the nf-core template. This automated pull-request attempts to apply the relevant updates to this pipeline. Please make sure to...
### Description of feature As discussed in #170 I'm suggesting to get rid of `--ncbi_assembly_metadata` requirement and obtain relevant assemblies directly based on assembly IDs. Below I provide `python3` script...
Version `3.4.1` of [nf-core/tools](https://github.com/nf-core/tools) has just been released with updates to the nf-core template. This automated pull-request attempts to apply the relevant updates to this pipeline. Please make sure to...
### Description of the bug ERROR ~ Error executing process > 'NFCORE_BACASS:BACASS:FASTQ_TRIM_FASTP_FASTQC:FASTP (r-ERR044595)' Caused by: Process `NFCORE_BACASS:BACASS:FASTQ_TRIM_FASTP_FASTQC:FASTP (r-ERR044595)` terminated with an error exit status (126) Command executed: [ ! -f...
### Description of feature `tests/.nftignore` keeps growing because some `out_dir` files change checksum each run. In this issue we create a whitelist to assert outputs known to be stable. If...
### Description of feature Would it be possible to remove the default channel from all the conda profile, as this is not free anymore?
