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When rerunning `atlas run genomes` to get the DRAM output per MAG, the rule `DRAM_annotate` seems to fail at the pfam step (for each MAG) according to the `log/dram/run_dram/MAGxxx.log` files:
```
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The colabdb_search.sh script calls `mmseqs result2msa --msa-format-mode 6` (`"${MMSEQS}" result2msa "${BASE}/qdb" "${DBBASE}/${DB1}.idx" "${BASE}/res_exp_realign_filter" "${BASE}/uniref.a3m" --msa-for…
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Hi, I tried to run [AlphaFold2.ipynb](https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/AlphaFold2.ipynb) in `single sequence` mode, but the result is completely same to `MMseq2 (…
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## Expected Behavior
The Resfinder database is downloaded and an mmseqs2 index is created.
## Current Behavior
Fails at the download extraction step.
## Steps to Reproduce (for bugs)
mmseqs d…
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Hi,
I'm interested in how the meltome train-test splits were made. Is the `mmseqs easy-cluster` command with `--min-seq-id 0.2`, or are there more parameters involved?
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Opened on behalf of menghappy324 (moved from https://github.com/davidemms/OrthoFinder/issues/188):
Hi, when I use the orthofinder, I find the sequence search program included blast, mmseqs, blast_g…
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Hi folks,
I'm trying to use a snakemake workflow to run a number of EzAAI jobs. However, I'm getting an error during `extract` that makes me a bit worried about whether or not the files will always…
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Hi,
Thank you for developing DRAM. I have installed the software and the database as follows:
1. Software: installation via conda and DRAM updated. Running version 1.3
2. Database was successfull…
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When attempting to bring docker-compose up, the api image crashes with the following output :
mmseqs-web-api_1 | panic: invalid character 'e' in numeric literal
mmseqs-web-api_1 |
m…
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Hi! Thank you for providing this new tool. I tried it run it and after 30-40 seconds of job running, I am getting the following errors. I also did the prior test run and found that "ET model: Not fou…