> ## Content Index
> Fetch the complete content index at: https://bioinformatics.ghost.io/llms.txt
> Use this file to discover other available public pages before exploring further.

# Deploying bioconductor shiny apps
- URL: https://bioinformatics.ghost.io/deploying-shiny-apps-using-bioconductor/
- Published: 2018-01-09T01:05:27.000Z
- Updated: 2018-01-09T01:05:27.000Z
- Author: Aarthi Ramakrishnan
- Tags: #Import 2026-08-27 15:34

command for deploying shiny apps `rsconnect::setAccountInfo(...)`

*Deployment credentials removed during migration.* you can get above info from [https://www.shinyapps.io/admin/#/tokens](https://www.shinyapps.io/admin/?ref=bioinformatics.ghost.io#/tokens)

When I was first trying to deploy my R shiny app (which uses bioconductor packages) on shinyapps.io, I received the following error:

```r
> rsconnect::deployApp()
Preparing to deploy application...DONE
Uploading bundle for application: 342263...DONE
Deploying bundle: 1371638 for application: 342263 ...
Waiting for task: 525534110
  error: Parsing manifest
################################ Begin Task Log ################################
################################# End Task Log #################################
Error: Unhandled Exception: Child Task 525534111 failed: Error parsing manifest: Unable to determine package source for Bioconductor package BiocGenerics: Repository must be specified

```

In order to get rid of this error, make sure that the bioconductor repository is configured properly.

library(BiocManager) options(repos = BiocManager::repositories())

Once this code was executed, I tried deploying my app again -

```r
> deployApp()
Preparing to deploy application...
Update application currently deployed at
https://aartrama.shinyapps.io/genenames-to-geneids/? [Y/n] Y
DONE
Uploading bundle for application: 342263...DONE
Deploying bundle: 1371644 for application: 342263 ...
Waiting for task: 525534413
  building: Building image: 1384537
  building: Fetching packages
  building: Installing packages
  building: Installing files
  building: Pushing image: 1384537

```

This time, I did not receive any errors.

[https://stackoverflow.com/questions/58561574/r-shinyapps-io-error-deploying-app-unable-to-determine-package-source-for-bioco](https://stackoverflow.com/questions/58561574/r-shinyapps-io-error-deploying-app-unable-to-determine-package-source-for-bioco?ref=bioinformatics.ghost.io)