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Hello, I am getting stuck on my run right before repeat classification. It looks like the issue is that GenomeInfoDb is not being loaded. I checked that I have bioconductor-genomeinfodb installed in m…
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Hello,
Thanks for your work on this tool. We were finally able to get it up and running after many dependency issues. One question I have as I experiment with earlGrey: RepeatModeler2 has the LTRSt…
SamCT updated
11 months ago
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Leave below as comments your memos that grapple with the topic of The Future, inspired by the readings, movies, & novels (at least one per quarter), your research, experiences, and imagination! Also a…
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EG appears to be stuck at Step 7 (although this is a big genome >6 GB)
```
Tue Jan 16 22:29:49 2024 Job finished! Check out wf-genome-FINAL.fasta.prep.finder.combine.scn
) (
…
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### Environment
- Operating System: Darwin
- Node Version: v16.19.1
- Nuxt Version: 3.4.3
- Nitro Version: 2.3.3
- Package Manager: npm@8.19.3
- Builder: vite
- User Config…
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Hi there,
I just found these lines in the early stages of earlGrey where it preppes the input genome
```
cp ${genome} ${genome}.bak && gzip -f ${genome}.bak
sed -i '/>/ s/ .*//g; /^$/d' $…
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Hello, the following atm options don't appear to exist in the code any more, but they remain in the documentation. Does anyone know if they should be re-implemented or removed? I looked in $MESA_DIR/s…
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Hi,
Thank you for making earlGrey. I tried to use it through gitpod and wanted to include RepBase.
I uploaded `RMRBSeqs.embl` and `RMRBSeqs.embl` in `/workspace/conda/envs/earlGrey/share/RepeatMas…
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@martin-lueker
just want to understand if the watermark event is edge triggered or level triggered? (In uart, [watermark is edge triggered](https://github.com/lowRISC/opentitan/blob/master/hw/ip/uart…
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Hello!
I see that in `earlGrey.yml` that the version of R used in earlGrey is 4.1.
However, `install_r_packages.R` installs version 3.15 of Bioconductor in my setup, which works with version 4.2…