Dear community,
I have an error when deploying a rshiny app to shinyapps.io, which requires more than one package from Bioconductor.
Preparing to deploy application...DONE
Uploading bundle for application: 4189691...[WARNING] This document format requires a nonempty <title> element.
Please specify either 'title' or 'pagetitle' in the metadata,
e.g. by using --metadata pagetitle="..." on the command line.
Falling back to 'footer.knit'
File rmdstyles.css not found in resource path
[WARNING] This document format requires a nonempty <title> element.
Please specify either 'title' or 'pagetitle' in the metadata,
e.g. by using --metadata pagetitle="..." on the command line.
Falling back to 'intro.knit'
File rmdstyles.css not found in resource path
[WARNING] This document format requires a nonempty <title> element.
Please specify either 'title' or 'pagetitle' in the metadata,
e.g. by using --metadata pagetitle="..." on the command line.
Falling back to 'prf.knit'
File rmdstyles.css not found in resource path
[WARNING] This document format requires a nonempty <title> element.
Please specify either 'title' or 'pagetitle' in the metadata,
e.g. by using --metadata pagetitle="..." on the command line.
Falling back to 'rb.knit'
File rmdstyles.css not found in resource path
[WARNING] This document format requires a nonempty <title> element.
Please specify either 'title' or 'pagetitle' in the metadata,
e.g. by using --metadata pagetitle="..." on the command line.
Falling back to 'rf.knit'
File rmdstyles.css not found in resource path
Error: Unable to retrieve package records for the following packages:
- 'BSgenome', 'BSgenome.Dmelanogaster.UCSC.dm3', 'BiocStyle', 'RNAseqData.HNRNPC.bam.chr14', 'TxDb.Dmelanogaster.UCSC.dm3.ensGene', 'pasillaBamSubset'
In addition: Warning messages:
1: In FUN(X[[i]], ...) :
Package 'BSgenome' not available in repository or locally
2: In FUN(X[[i]], ...) :
Package 'BiocStyle' not available in repository or locally
3: In FUN(X[[i]], ...) :
Package 'pasillaBamSubset' not available in repository or locally
4: In FUN(X[[i]], ...) :
Package 'TxDb.Dmelanogaster.UCSC.dm3.ensGene' not available in repository or locally
5: In FUN(X[[i]], ...) :
Package 'BSgenome.Dmelanogaster.UCSC.dm3' not available in repository or locally
6: In FUN(X[[i]], ...) :
Package 'RNAseqData.HNRNPC.bam.chr14' not available in repository or locally
Execution halted
I already add one in the server.R
options(repos = BiocManager::repositories())
But it does not seems to work on my case.
Below is my sessioninfo
> sessionInfo()
R version 4.0.2 (2020-06-22)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS 10.16
Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] lattice_0.20-41 permute_0.9-5 ggrepel_0.8.2 ggplot2_3.3.5 readxl_1.3.1 DT_0.14 shiny_1.5.0
loaded via a namespace (and not attached):
[1] tidyselect_1.1.0 purrr_0.3.4 splines_4.0.2 colorspace_1.4-1 vctrs_0.3.8
[6] generics_0.1.0 htmltools_0.5.1.1 utf8_1.1.4 blob_1.2.1 rlang_0.4.11
[11] later_1.1.0.1 pillar_1.6.1 glue_1.4.2 withr_2.4.2 DBI_1.1.0
[16] lifecycle_1.0.0 munsell_0.5.0 gtable_0.3.0 cellranger_1.1.0 htmlwidgets_1.5.1
[21] fastmap_1.0.1 httpuv_1.5.4 curl_4.3 parallel_4.0.2 fansi_0.4.1
[26] Rcpp_1.0.5 xtable_1.8-4 openssl_1.4.4 promises_1.1.1 scales_1.1.1
[31] BiocManager_1.30.16 jsonlite_1.7.2 mime_0.9 askpass_1.1 packrat_0.6.0
[36] digest_0.6.25 dplyr_1.0.7 grid_4.0.2 tools_4.0.2 magrittr_2.0.1
[41] tibble_3.1.2 cluster_2.1.2 crayon_1.3.4 pkgconfig_2.0.3 ellipsis_0.3.2
[46] MASS_7.3-51.6 rsconnect_0.8.18 assertthat_0.2.1 rstudioapi_0.11 R6_2.4.1
[51] nlme_3.1-148 compiler_4.0.2
Thank you in advance!