[Debian-med-packaging] Bug#1004773: trinityrnaseq: test loops until disk full (with r-cran-readr from unstable on arm64)

[Paul Gevers]

Source: trinityrnaseq
Version: 2.13.2+dfsg-3
X-Debbugs-CC: debian-ci at lists.debian.org
User: debian-ci at lists.debian.org
Usertags: issue

Dear maintainers,

Your package has an autopkgtest great. Unfortunately, recently it 
started to tmpfail on our arm64 host because the test regularly seems to 
run into a loop, fills all disk space and is then aborted by 
autopkgtest. In this case it seems to be caused by r-cran-readr, but can 
you please make your test fail more gracefully than with an infinite loop?

Paul

https://ci.debian.net/data/autopkgtest/testing/arm64/t/trinityrnaseq/18825129/log.gz

----------------8<----------------8<----------------8<-----------------

WARNING: log file truncated at 20 MB (before compression)
          First 1MB is presented above, last 19 MB below

----------------8<----------------8<----------------8<-----------------

uested greater than vector's size: 8914587114456261412>434886
Index requested greater than vector's size: 8914587114456261476>434886
Index requested greater than vector's size: 8914587114456261540>434886
Index requested greater than vector's size: 8914587114456261604>434886

[... which ends with ...]

Index requested greater than vector's size: 8914587114464400536>434886
Index requested greater than vector's size: 8914587114464400600>434886
Index requested greater than vector's size: 8914587114464400664tee: 
/tmp/autopkgtest-lxc.k4ar8ck6/downtmp/run-tests-stderr: No space left on 
device
 >434886
Index requested greater than vector's size: 8914587114464400728>434886
Index requested greater than vector's size: 8914587114464400792>434886
Index requested greater than vector's size: 8914587114464400856>434886
Index requested greater than vector's size: 8914587114464400920>434886
Index requested greater than vector's size: 8914587114464400984>434886
Index requested greater than vector's size: 8914587114464401048>434886
Index requested greater than vector's size: 8914587114464401112>434886
Index requested greater than
-------------- next part --------------
A non-text attachment was scrubbed...
Name: OpenPGP_signature
Type: application/pgp-signature
Size: 495 bytes
Desc: OpenPGP digital signature
URL: <http://alioth-lists.debian.net/pipermail/debian-med-packaging/attachments/20220201/bb50beef/attachment.sig>