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When I run `entrez_search()` with `use_history` and `retmax = 5`, the function will respect this and return 5 UIDs:
```
biosample_uid
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Hi,
I am having trouble running phyluce_ncbi_prep_uce_align_files_for_ncbi_targeted_locus_db.
Seems to not run into an error, but it creates empty fsa and tbl files.
I am using the path to my m…
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We want to load the `biosampleIndex` that @Tobi1kenobi has created in #3445. Actions:
- [x] Create a version of the dataset in JSONL (pyspark `write.json`)
- [x] Provide the schema of the dataset in …
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- Note that these revert away from NCBI's structured comment names in several places, presumably to keep the SCN lengths under 20 characters.
- See https://www.ncbi.nlm.nih.gov/biosample/docs/attribu…
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to discuss further with @mpoelchau and @childers
Problem:
NCBI doesnt provide ontology mappings for attributes.Monica has [done lots of work](https://gitlab.com/i5k_Workspace/ncbi_cvterms) goin…
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## Pilot project by @bradfordcondon
on dev...
- [x] load PTO
- [x] install tripal curator
- [x] Convert a property to a "good" ontology
Once this is done, we can discuss converting all pr…
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Hi, I'm trying to run your code and I'm getting this error:
urllib.error.HTTPError: HTTP Error 400: Bad Request
I would appreciate any help on how to fix it.
Thanks
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This issue imported from the [Chado v1.4 requested changes](https://docs.google.com/document/d/1t_Jb4XxUPtgGRSKtznsqvjTjmR4vpFHPQROMQ0OZK9A/edit) google doc:
Requests by Andrew Farmer
http://gmo…
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closes
- #661
We can use `lint-linkml` to find schema elements that are lacking basic textual annotations.
@mslarae13 could you please (when your schedule allows)
- add descriptions to any of…
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In the current code, it's possible to export invalid json to DS because provenance fields are being populated during exporting and validation has already happened by then.
These fields should be po…