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Project Lead: @kipkurui
Mentor: @felipez3r0
Welcome to OL6, Cohort E! This issue will be used to track your project and progress during the program. Please use this checklist over the next few w…
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[here](https://hutchdatascience.org/FH_WDL101_Cromwell/using-shiny-to-manage-workflows.html#validate-a-workflow) (the 'validate a workflow' section) it says "It does not perform a “dry run” or check …
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Hi,
**Snakemake version**
8.16.0
**Describe the bug**
with this submodule in a workflow
```Python
import os
from pathlib import Path
import sys
from itertools import product
import…
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add tests of the C++ component of the repository. please add more as desired
Big Book o' Tests:
- [x] preflight: `pytest` and `snakemake` available in run environment
- [x] single rule
- [x] m…
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I was made aware that you can run Samplot-ML on Google Cloud Platform (https://docs.google.com/document/d/1EfrNv6Y5aGDbQ3Je5jBI83owdOveVbmqIP6fuCDmEEw), but from the `workflows/conf/samplot-ml-predict…
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Hi!
I was trying to run:
calculate-tin.py -i Sample_A.bam -r hg19_Ensembl_gene.bed
But I get an error:
```
@ 2024-03-15 16:00:51: Get BAM file(s) ...
Total 1 BAM file(s):
Sample_A.bam
Trace…
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Hi,
I`m running anvio-8 to do assembly and binning. I can successfully submit the job script with no errors but it fails after a few seconds. There is no error in the output file so I`m really conf…
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Hi,
I went through all the past issue and hit the same problems as previous users.
/smsk_popoolation$ snakemake --conda-create-envs-only
Error: you need to specify the maximum number of CPU cor…
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Hello,
I would like to run Hecatomb only using the assembly or ctg_annotations module, but I end up with an error.
Here is an example code:
hecatomb run --reads /reads ctg_annotations --threa…
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### Context
@huddlej's response to a [discussion question](https://discussion.nextstrain.org/t/why-do-my-sequences-end-up-in-excluded-by-diagnostics-txt/1250) prompted me to take a closer look at the…