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When I was trying to install binny using default settings: `./binny -i config/config.init.yaml` I got this error message:
```bash
Full Traceback (most recent call last):
File "/home/qijie/binny…
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Hello,
I am encountering an issue with running Scenic+ using Snakemake (see issue #468), as instructed by the tutorial https://scenicplus.readthedocs.io/en/latest/human_cerebellum.html#Running-SCENI…
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The rule annotate_vep does not run before annotate_esm.
After the checkpoint prescore, the snakemake pipeline directly runs annotate_esm.
It says that inside the snakefile, the input of annota…
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DENIS hits an error with snakemake v8.25.0:
```
rule all:
input:
output_files
message: f"Pipeline done. Started {start_time}"
```
^ Seems to be from line 54 of the Snakefi…
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The latest `datavzrd` version for `osx-arm64` from `conda-forge` is `v2.42.1` but using it with `snakemake`, this gives an issue on my apple silicon Mac because the defined configuration in the follow…
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Using BLR version 0.5.dev21+gc0d6996, I attempted to process a TELL-Seq sample using the _Solanum tuberosum_ (potato) ([link](https://phytozome-next.jgi.doe.gov/info/Stuberosum_v6_1)) genome as a refe…
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**Describe the bug**
Hello, I'm trying to run SCENIC+ using SnakeMake in a linux machine (centos 9), on the tutorial dataset.
I ran scATAC-seq preprocessing in python (using pycistopic, using the tu…
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Our cellbrowser Snakemake pipeline `snakemake/wrappers/cellbrowser/wrapper.py` uses `cbImportScanpy` to create the cellbrowser input. After the cellbrowser input (tar file) is created, we manually mov…
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Hi,
thank you for this great tool.
I am running spacemake for an openST data and encountering the following Error when running `spacemake run --cores 8`:
```Error
KeyError in line 286 of /ho…