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Hi again @cumbof
I couldn't run the examples/chopin2.py script.
Could you provide a sample input data that is in the expected format?
Additionally, if you could provide a method or a script t…
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select protein clusters (PCs)
write seqs for each PC
build multiple seq alignment (MSA) for each PC, round 1
build hmm from each MSA
search hmms versus original proteins
Error: File format prob…
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This issue will collect all feedback submitted via the feedback form at the end of each tutorial
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Results have been [aggregated](https://nbviewer.jupyter.org/github/bebatut/galaxy-training-m…
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### Summary
Description of issue: using heudiconv to convert some participants' sessions ("vis") results in a `numpy.AxisError: axis 1 is out of bounds for array of dimension 1` error. The same…
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```shell
poetry run linkml-validate --target-class ExhaustiveTestClassCollection --schema generated_schema/GSC_MIxS_6.yaml extracted_data/mixs_v6.xlsx.extracted_examples.yaml
```
- ✗ 'coverage an…
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Hello! I have Roary output data (gene_presence_absence.csv) of about 450 isolates belonging to a single species. I have a traits file. But the traits are not binary. They are continuous. The pre-print…
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Hello,
As part of some benchmarking I run:
```
treetime --dates tree_dates.tsv --tree distance_tree.nwk --sequence-length 1000 --keep-root --keep-polytomies
```
In `0.9.6` this runs without a…
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### What happened?
Essentially, when passing the 6 representing the age in months of my subject python is having an issue recognizing it as an int. Was initially trying to do this in a loop but then …
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I'm trying to set up GTDBtk in our cluster. It halts after it tries to look for the `failed_genomes.tsv`file. Details are below, but the file doesn't exist.
The error I get is
```
EXCEPTION: F…
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Looks like a user permissions problem:
```
searching path /usr/local/lib/python3.6/dist-packages/sierralocal/data/HIVDB*.xml
Error: could not find local copy of HIVDB XML, attempting download...
U…