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Hi,
I'm trying to test agnostos update module (`db_update`) using a small test set of sequences (50 or so). I've been running the snakemake pipeline manually going through each `smk` file, startin…
wchow updated
2 years ago
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The line numbers for warnings are reported on the old (pre-formatting) file. That means it is either hard to figure out where the issue is, or I need to run snakefmt again, to get the correct numbers …
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SMK currently only loads a single kml icon style for the whole uploaded layer. Decide on handling for this scenario in SMK to either allow a layer to have multiple marker styles, or to split the data …
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On omnibenchmark `dev` commit https://github.com/omnibenchmark/omnibenchmark/commit/e6dab704a08cff5a5addce6106207f49a8c832f3
```
(omnibenchmark) imallona@mlshainan:~/src/omnibenchmark$ git log | h…
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Currently upon `source $ASSIGNS_FILE` is called in SMOKE, several controlling environmental variables (e.g., DAY_SPECIFIC_YN, HOUR_SPECIFIC_YN, SMK_PING_METHOD, etc.) are assigned with ' ' (empty sp…
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Dear SMACK team,
I met the issue with SMACK transmute function with ubifs file system:
**Snerio**:
1. Add access label and transmute label for directory: chsmack -a "Object" -t
2. Add rule "t" f…
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Dear all
We are currently testing AGNOSTOS on our system, but breaking it based on the different snakemake sub-runs in `agnostos-wf/db_update/rules/`
In the steps within mmseqs_clustering_update…
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When opening/previewing the map window, of basemaps are set to 'Advance Imagery' or'Terrain' the map window will not open.
An error message was returned stating "smk viewer #smk-map-frame failed t…
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# Update May 28th
Today, I was able to complete the pipeline up till deseq2 or possibly featurecounts. The Star script is finished, and now, within the Star rule, I am using samtools to separate th…
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showyourwork version: 0.4.4.dev37+g1526059 (latest on main branch as of August 1)
snakemake version: 7.15.2
Python version: 3.9.19
Minimal reproducible example:
In one of my projects I changed…