[Debian-med-packaging] Bug#1008368: pigx-rnaseq: FTBFS: configure: error: R package rmarkdown not found.

[Lucas Nussbaum]

Source: pigx-rnaseq
Version: 0.0.19-2
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs
User: lucas at debian.org
Usertags: ftbfs-20220326 ftbfs-bookworm

Hi,

During a rebuild of all packages in sid, your package failed to build
on amd64.


Relevant part (hopefully):
> configure: Using /usr/bin/salmon as salmon executable.
> checking for R... /usr/bin/R
> checking for Rscript... /usr/bin/Rscript
> checking for bamCoverage... /usr/bin/bamCoverage
> checking R package rmarkdown ... no
> configure: error: R package rmarkdown not found.
> 	tail -v -n \+0 config.log


The full build log is available from:
http://qa-logs.debian.net/2022/03/26/pigx-rnaseq_0.0.19-2_unstable.log

A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!

If you reassign this bug to another package, please marking it as 'affects'-ing
this package. See https://www.debian.org/Bugs/server-control#affects

If you fail to reproduce this, please provide a build log and diff it with mine
so that we can identify if something relevant changed in the meantime.