Send embedding method for download Seurat object

[saracastel]

Description

When downloading the rds file that contains the Seurat object, the dimensionality reduction name is invariably set to "umap" even in instances where t-SNE has been applied.
When the embeddings are calculated, converted to json, and sent to S3, the information on which method was used to generate them (which is in the column names) is lost. This PR is to send the embedding method in the request.

Staging: https://ui-sara-ui57-api22-worker21.scp-staging.biomage.net/

Details

URL to issue

hms-dbmi-cellenics/issues#89

Link to staging deployment URL (or set N/A)

N/A

Links to any PRs or resources related to this PR

hms-dbmi-cellenics/worker#350
hms-dbmi-cellenics/api#510

Integration test branch

master

Merge checklist

Your changes will be ready for merging after all of the steps below have been completed.

Code updates

Have best practices and ongoing refactors being observed in this PR

• Migrated any selector / reducer used to the new format.
• All new dependency licenses have been checked for compatibility.

Manual/unit testing

• Tested changes using InfraMock locally or no tests required for change, e.g. Kubernetes chart updates.
• Validated that current unit tests for code work as expected and are sufficient for code coverage or no unit tests required for change, e.g. documentation update.
• Unit tests written or no unit tests required for change, e.g. documentation update.

Integration testing

You must check the box below to run integration tests on the latest commit on your PR branch.
Integration tests have to pass before the PR can be merged. Without checking the box, your PR
will not pass the required status checks for merging.

• Started end-to-end tests on the latest commit.

Documentation updates

• Relevant Github READMEs updated or no GitHub README updates required.
• Relevant Wiki pages created/updated or no Wiki updates required.

Optional

• Staging environment is unstaged before merging.
• Photo of a cute animal attached to this PR.

[github-actions]

📦 Next.js Bundle Analysis for ui

This analysis was generated by the Next.js Bundle Analysis action. 🤖

One Page Changed Size

The following page changed size from the code in this PR compared to its base branch:

Page	Size (compressed)	First Load
/data-management	243.34 KB (🟡 +7 B)	812.12 KB

Details

Only the gzipped size is provided here based on an expert tip.

First Load is the size of the global bundle plus the bundle for the individual page. If a user were to show up to your website and land on a given page, the first load size represents the amount of javascript that user would need to download. If next/link is used, subsequent page loads would only need to download that page's bundle (the number in the "Size" column), since the global bundle has already been downloaded.

Any third party scripts you have added directly to your app using the <script> tag are not accounted for in this analysis

Next to the size is how much the size has increased or decreased compared with the base branch of this PR. If this percentage has increased by 20% or more, there will be a red status indicator applied, indicating that special attention should be given to this.

[github-actions]

📦 Next.js Bundle Analysis for ui

This analysis was generated by the Next.js Bundle Analysis action. 🤖

🎉 Global Bundle Size Decreased

Page	Size (compressed)
global	568.78 KB (-55 B)

Details

The global bundle is the javascript bundle that loads alongside every page. It is in its own category because its impact is much higher - an increase to its size means that every page on your website loads slower, and a decrease means every page loads faster.

Any third party scripts you have added directly to your app using the <script> tag are not accounted for in this analysis

If you want further insight into what is behind the changes, give @next/bundle-analyzer a try!

Ten Pages Changed Size

The following pages changed size from the code in this PR compared to its base branch:

Page	Size (compressed)	First Load
/data-management	243.34 KB (🟡 +26 B)	812.12 KB
/experiments/[experimentId]/data-exploration	520.2 KB (🟡 +32 B)	1.06 MB
/experiments/[experimentId]/data-processing	538.77 KB (🟡 +1.15 KB)	1.08 MB
/experiments/[experimentId]/plots-and-tables	15.63 KB (🟢 -10 B)	584.41 KB
/experiments/[experimentId]/plots-and-tables/batch-differential-expression	74.59 KB (🟡 +33 B)	643.37 KB
/experiments/[experimentId]/plots-and-tables/dot-plot	495.53 KB (-1 B)	1.04 MB
/experiments/[experimentId]/plots-and-tables/marker-heatmap	585.14 KB (🟡 +2 B)	1.13 MB
/experiments/[experimentId]/plots-and-tables/violin	517.61 KB (-4 B)	1.06 MB
/experiments/[experimentId]/plots-and-tables/volcano	491.16 KB (🟡 +35 B)	1.04 MB
/settings/profile	25.5 KB (🟢 -3 B)	594.28 KB

Details

Only the gzipped size is provided here based on an expert tip.

First Load is the size of the global bundle plus the bundle for the individual page. If a user were to show up to your website and land on a given page, the first load size represents the amount of javascript that user would need to download. If next/link is used, subsequent page loads would only need to download that page's bundle (the number in the "Size" column), since the global bundle has already been downloaded.

Any third party scripts you have added directly to your app using the <script> tag are not accounted for in this analysis

Next to the size is how much the size has increased or decreased compared with the base branch of this PR. If this percentage has increased by 20% or more, there will be a red status indicator applied, indicating that special attention should be given to this.

[github-actions]

📦 Next.js Bundle Analysis for ui

This analysis was generated by the Next.js Bundle Analysis action. 🤖

One Page Changed Size

The following page changed size from the code in this PR compared to its base branch:

Page	Size (compressed)	First Load
/data-management	243.32 KB (🟡 +7 B)	812.15 KB

Details

Only the gzipped size is provided here based on an expert tip.

First Load is the size of the global bundle plus the bundle for the individual page. If a user were to show up to your website and land on a given page, the first load size represents the amount of javascript that user would need to download. If next/link is used, subsequent page loads would only need to download that page's bundle (the number in the "Size" column), since the global bundle has already been downloaded.

Any third party scripts you have added directly to your app using the <script> tag are not accounted for in this analysis

Next to the size is how much the size has increased or decreased compared with the base branch of this PR. If this percentage has increased by 20% or more, there will be a red status indicator applied, indicating that special attention should be given to this.

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Comparison is base (83d3ddd) 85.03% compared to head (546ee71) 85.03%.

Additional details and impacted files

@@           Coverage Diff           @@
##           master     #953   +/-   ##
=======================================
  Coverage   85.03%   85.03%           
=======================================
  Files         548      548           
  Lines       10053    10053           
  Branches     2182     2182           
=======================================
  Hits         8549     8549           
  Misses       1444     1444           
  Partials       60       60           

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

[github-actions]

📦 Next.js Bundle Analysis for ui

This analysis was generated by the Next.js Bundle Analysis action. 🤖

One Page Changed Size

The following page changed size from the code in this PR compared to its base branch:

Page	Size (compressed)	First Load
/data-management	243.32 KB (🟡 +7 B)	812.15 KB

Details

Only the gzipped size is provided here based on an expert tip.

First Load is the size of the global bundle plus the bundle for the individual page. If a user were to show up to your website and land on a given page, the first load size represents the amount of javascript that user would need to download. If next/link is used, subsequent page loads would only need to download that page's bundle (the number in the "Size" column), since the global bundle has already been downloaded.

Any third party scripts you have added directly to your app using the <script> tag are not accounted for in this analysis

Next to the size is how much the size has increased or decreased compared with the base branch of this PR. If this percentage has increased by 20% or more, there will be a red status indicator applied, indicating that special attention should be given to this.

[github-actions]

📦 Next.js Bundle Analysis for ui

This analysis was generated by the Next.js Bundle Analysis action. 🤖

One Page Changed Size

The following page changed size from the code in this PR compared to its base branch:

Page	Size (compressed)	First Load
/data-management	243.32 KB (🟡 +7 B)	812.15 KB

Details

Only the gzipped size is provided here based on an expert tip.

First Load is the size of the global bundle plus the bundle for the individual page. If a user were to show up to your website and land on a given page, the first load size represents the amount of javascript that user would need to download. If next/link is used, subsequent page loads would only need to download that page's bundle (the number in the "Size" column), since the global bundle has already been downloaded.

Any third party scripts you have added directly to your app using the <script> tag are not accounted for in this analysis

Next to the size is how much the size has increased or decreased compared with the base branch of this PR. If this percentage has increased by 20% or more, there will be a red status indicator applied, indicating that special attention should be given to this.

[github-actions]

📦 Next.js Bundle Analysis for ui

This analysis was generated by the Next.js Bundle Analysis action. 🤖

One Page Changed Size

The following page changed size from the code in this PR compared to its base branch:

Page	Size (compressed)	First Load
/data-management	243.23 KB (🟡 +5 B)	812.23 KB

Details

Only the gzipped size is provided here based on an expert tip.

First Load is the size of the global bundle plus the bundle for the individual page. If a user were to show up to your website and land on a given page, the first load size represents the amount of javascript that user would need to download. If next/link is used, subsequent page loads would only need to download that page's bundle (the number in the "Size" column), since the global bundle has already been downloaded.

Any third party scripts you have added directly to your app using the <script> tag are not accounted for in this analysis

Next to the size is how much the size has increased or decreased compared with the base branch of this PR. If this percentage has increased by 20% or more, there will be a red status indicator applied, indicating that special attention should be given to this.