[Bioc-devel] CINdex package build error in Linux

Obenchain, Valerie Valerie.Obenchain at RoswellPark.org
Fri Jan 19 17:40:45 CET 2018

Hi Krithika,

I believe this was related to a problem with getTable() in rtracklayer:


rtracklayer 1.39.5 built successfully today and the error in CINdex has cleared up:



On 01/18/2018 08:19 AM, Krithika Bhuvaneshwar wrote:

Hello Bioconductor team,

We are the creator and maintainers of the CINdex Bioconductor package.

Last few days, we are seeing build errors in our package (See below). The
package builds fine in Mac OS, but is giving the following error on Ubuntu

We have not made any changes to our package, and did not have any errors

Is there some action we need to take on our part ? Please advise.


Attaching package: 'Biobase'

The following object is masked from 'package:AnnotationHub':


Welcome to oligo version 1.42.0
Loading required package: DBI
Warning: closing unused connection 5 (hg19ToHg18.over.chain)
Loading ideogram...
Quitting from lines 230-240 (PrepareInputData.Rmd)
Error: processing vignette 'PrepareInputData.Rmd' failed with diagnostics:
Bad Request
Execution halted

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