bgcflow

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matinnuhamunada

Prune BGCFlow rules

1

I think we should reduce the number of rules, either by: - Dropping unused or redundant rules - Merging relevant rules into one package These are the rules that are...

matinnuhamunada

How to use Custom input directory?

7

540889956

The updated release of gtdbtk has different pattern

matinnuhamunada

Server port: Auto-assign ports for database with report.

1

Hey team, First off, great job with BGCflow! It is super useful! I've noticed an issue when the original or default port is busy, and the BGCflow analysis report can...

SPBorkar04

For DTU students/staff that wanted to run BGCFlow on the LSF HPC facility, follow these steps: - Access the HPC by following the guide from here https://www.hpc.dtu.dk/?page_id=2501 ```bash # go...

matinnuhamunada

genome_id = sequence in df_arts

1

For a lot of genome_id values present in df_arts_allhits_as-7.1.0.csv there is either 'sequence', 'extrachromosomal' or 'genome'. It appears to only happen when duplication column is TRUE. E.g. NBC_00193__TIGR00558__1__1721 | TIGR00558...

Sam-Will

bgcflow run -n command

10

```bash (bgcflow) [n@login01 bgcflow]$ bgcflow init -n Usage: bgcflow init [OPTIONS] Try 'bgcflow init -h' for help. Error: No such option: -n (bgcflow) [n@login01 bgcflow]$ bgcflow init DEBUG 23/09 12:30:14...

coderbins

Error in Generating Markdown Report for eggNOG-Roary - Proposed Solution

2

Hi Matin, when I run `bgcflow build report` on the Lactobacillus_delbrueckii example dataset, I get this error for the generation of the eggNOG-Roary markdown: `Error in rule mkdocs_py_report: jobid: 31...

andrekind17

GECCO Error

2

Hi Matin, when I run GECCO on the Lactobacillus_delbrueckii example dataset with `bgcflow run`, I get this error: `/usr/bin/bash: line 2: 657128 Illegal instruction (core dumped) gecco run --genome data/interim/processed-genbank/GCA_000014405.1.gbk...

andrekind17