Issues with BigSigdb:Missing body sites and taxon search issues

[sallykinyua]

Hi @tosfos ,I would like to report a bug and feature request observed on BugsigDB's website.

1. Bug Title

Missing body sites (vagina, breastmilk) and regression in taxon search sorting/casing

2. Page URL

https://bugsigdb.org/Main_Page

There are two main issues encountered on the site:

• Missing Body Sites: The options for "vagina" and "breastmilk" are currently missing from the available body sites selection list.
• Taxon Search Regression: When searching/entering taxons, they no longer appear in alphabetical order as they initially did.
  Additionally, they are now displaying entirely in small letters.

3. Steps to Reproduce

• Navigate to the data entry or search form on BugSigD
• • Click on the body sites dropdown/selection tool and observe that "vagina" and "breastmilk" are absent.
• Begin entering a taxon in the taxon search field.
• Observe the dropdown list: note that the results are not sorted alphabetically and the text is forced into start body site all in smal letters.

4 .Expected Behavior:

"Vagina" and "breastmilk" should be available choices under body sites.Taxon search results should display in a mixed-case format (or standard naming convention) and be sorted alphabetically for easy user scanning.

4. Actual Behavior

The specified body sites are missing.Taxons appear disorganized (non-alphabetical) and are rendered entirely in small letters

5. Environment Browser:

• Chrome / SafariDevice
• Desktop / Mobile

[tosfos]

Missing Body Sites: The options for "vagina" and "breastmilk" are currently missing from the available body sites selection list.

Please clarify where you see this on the Main Page. I'm not sure what you mean by "data entry or search form". In the drilldown, vagina appears:

breastmilk does not appear because it is not a body site. See here for the list of valid body sites.

note that the results are not sorted alphabetically

I see that this report is correct:

Are you sure that the behavior was different previously?

the text is forced into start body site all in smal letters.

Please explain.

[sallykinyua]

Hey @tosfos will send a screenshot tomorrow kindly

For the breastmilk that is well noted

[blessdamy]

Missing Body Sites: The options for "vagina" and "breastmilk" are currently missing from the available body sites selection list.

Please clarify where you see this on the Main Page. I'm not sure what you mean by "data entry or search form". In the drilldown, vagina appears:

Well done, @sallykinyua,
I'll help with some clarifications.

@tosfos, thank you for quick your response. Regarding the vagina body site, for example, in this study: https://bugsigdb.org/32487762, when entering “vagina” as the body site, it previously appeared in the body site dropdown, but it is no longer appearing now. Vagina is a frequently curated body site.

Here is the screenshot for reference.

[blessdamy]

the text is forced into start body site all in smal letters.

Please explain.

Previously, body sites appeared with their first letter in uppercase (capital letter). For example, in this study: https://bugsigdb.org/31935465, the body site is displayed with the first letter capitalized. Here is a screenshot for reference.

However, they now appear entirely in lowercase. For example, in this study: https://bugsigdb.org/34044781, the body site is displayed in lowercase. Here is a screenshot for reference.

We are not sure why this recent change in behaviour has occurred.

[sallykinyua]

Hey @tosfos what @blessdamy has demonstrated was what I meant thank you.

[tosfos]

Thank you for this report and the new details. We recently did a major upgrade of the full software stack, so it's likely that the new versions behave differently from previous versions. We will check on the best fix for this.

[sallykinyua]

Thank you @tosfos

[blessdamy]

@tosfos, just an update: I can now see “vagina” in the body site dropdown again, and the body site names are also displaying with the first letter in uppercase as before. It appears that both issues have been resolved.

Thank you so much for looking into it.

[sallykinyua]

Thank you @tosfos .This issue can be closed kindly

[tosfos]

We did indeed fix the issues as you noticed. Here are some notes.

The capitalization issue was due to a change in an upgraded extension's code. We fixed the issue so that new Body site and Condition values will be saved with a capital first letter again, like Feces. Values that were already saved in lowercase will stay that way until those experiments are edited and saved again. Please let us know if that is an issue.

The missing value from the body site dropdown was also tracked to this same cause.

Thanks!

[blessdamy]

Thank you for the explanation, @tosfos, and for fixing the issues. That clarifies everything. We’ll let you know if we notice any further issues.

Thanks again!