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Hi,
I'm just wanting to check in regarding how to obtain an all-sites VCF using snpArcher. From what I can tell, I just need to add the -all-sites flag to the GenotypeGVCFs command in the following…
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Add IDs to the rules so the rule orders are easier to understand, i.e. `00_helper_functions.smk`, `01_prepare_fastqs.smk`, etc.
Also, within the files, add letters for the same reason, i.e. `01a_`,…
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Hi,
Can add more settings to pick up common ids? For example 30%，70%.
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File `file.smk` belongs to the current project, thus resolve works. File `WorkflowLoca…
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**Snakemake version**
```
$ snakemake --version
8.24.0
```
**Describe the bug**
I am using snakemake (actually via Python) on Linux but find if run in quite mode (``--quiet all``) this doe…
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The FreeAiming patch causes a freeze or crash in conjunction with the modification [Gothic 1 Revised Edition](https://www.worldofgothic.de/dl/download_720.htm) version 1.6 and 1.9 on Linux in a manual…
szapp updated
3 months ago
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**Snakemake version**
tested with :
8.10.8
7.32.3
**Describe the bug**
I have a snakefile using the Rule object to reference outputs from previous rules.
I have a second snakefile in which I …
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Hi, I'm trying to run the flow via snakemake (snakemake --cores all --use-conda ) but I get this error.
https://raw.githubusercontent.com/akcorut/kGWASflow/v1.3.0/workflow/rules/common.smk:98: Sy…
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### Checklist
- [X] I am using the current [`master`](https://github.com/PyPSA/pypsa-usa/tree/master) branch
- [X] I am running on an up-to-date [`pypsa-usa` environment](https://github.com/PyPSA/pyp…
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I run saw realign after I did register on StereoMap:
saw realign \
--id=Adjuated \
--sn=test \
--count-data=./result/ \
--realigned-image-tar=./test_4.0.1.tar.gz
…