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The goal is to develop an ETL script to convert NMDC submissions to NCBI submissions using version 6.0 MIxS packages. We will start by developing support for the following packages:
- soil
- water
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## To move from https://github.com/turbomam/biosample-xmldb-sqldb/issues/42
@ssarrafan @emileyfadrosh and others from NMDC went through milestones and priorities and wanted to follow up something t…
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This recommendation was raised in the [review of the Poseidon paper](https://elifesciences.org/reviewed-preprints/98317v1/reviews#tab-content#tab-content).
> The BioSamples database (https://www.eb…
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**Deliverable this task is associated with**
_See Deliverables tab here: _
- [Add the Deliverable #]
**RACI**
_Tag people in their roles_
- Responsible: @sujaypatil96
- Accountable:
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- create a [.pgpass](https://www.postgresql.org/docs/current/libpq-pgpass.html) file
- install [pgloader](https://pgloader.readthedocs.io/en/latest/ref/sqlite.html)
In psql, as an administrative …
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Possibly available from https://gold.jgi.doe.gov/downloads, specifically the [Public Studies/Biosamples/SPs/APs/Organisms Excel](https://gold.jgi.doe.gov/download?mode=site_excel) link, which download…
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**Submitter Name and ORCiD**
Amy Zimmerman
**Submission ID**
1d87912e-9c22-4717-acf3-483a9335e770
**Have data already been generated for your study?**
No
**PI Name and ORCiD**
Amy Zimmerm…
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I made a curated lookup in the past.
Use a LLM now?
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I was trying to use `efetch ` to obtain the Attributes of a BioSample record, but I found that for some BioSample records, the Attributes reported in the xml are completely different from those disp…
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There are many BioSamples that have not been added to the database. Examples will be added as comments in this issue thread.