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we cant sort by rank.
This is the order the sequences are returned to me:
```
3624472..3624691-
3624748..3624979-
3634939..3635074-
```
but since its negative strand im not positive i…
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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:
Indexes Suggested by Karl O. Pinc
ht…
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It was proposed in our Tripal/Chado discussion this morning to move the frange, SO and genetic_code tables into the base schema of Chado and no longer have them separate.
This also requires adjusti…
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`organism_analysis` table uses drupal `schema` to install the table which ignores the FK definition.
Possible solutions:
1. Use entity delete hook to remove records
1. Create the table using raw …
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HQ_Permissions adds chado-based deputies. The admin email config page, and the emails themselves, should take this into account and notify deputies. One way to address would be ot add a third check…
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This task is to re-create the previous work that was done by me 1-2 years ago on importing NCBI's bioproject-biosample data from the BioProject XML files using a parser and loader script developed in-…
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We talked about adding a Canto tool for allele renaming.
See also: pombase/pombase-chado#986
and: https://github.com/pombase/website/issues/1294#issuecomment-1218509827
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### Task Description
We need to move all the existing function-based legacy API (those not in classes such as chado_query) into a separate sub-module and add deprecation notices so that people are …
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Once alleles have stable IDs, we'll need to load them into Canto and store them with the alleles.
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Because we now have the ability to run database operations of different schemas, it might be a good idea to also make the loader forms dynamic with respect to the chado schema element and thus dependi…