Source: r-base, r-cran-data.table Control: found -1 r-base/4.0.1-1 Control: found -1 r-cran-data.table/1.12.8+dfsg-1 Severity: serious Tags: sid bullseye X-Debbugs-CC: debian...@lists.debian.org User: debian...@lists.debian.org Usertags: breaks needs-update
Dear maintainer(s),
With a recent upload of r-base the autopkgtest of r-cran-data.table
fails in testing when that autopkgtest is run with the binary packages
of r-base from unstable. It passes when run with only packages from
testing. In tabular form:
pass fail
r-base from testing 4.0.1-1
r-cran-data.table from testing 1.12.8+dfsg-1
versioned deps [0] from testing from unstable
all others from testing from testing
I copied some of the output at the bottom of this report.
Currently this regression is blocking the migration of r-base to testing
[1]. Due to the nature of this issue, I filed this bug report against
both packages. Can you please investigate the situation and reassign the
bug to the right package?
More information about this bug and the reason for filing it can be found on
https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation
Paul
[0] You can see what packages were added from the second line of the log
file quoted below. The migration software adds source package from
unstable to the list if they are needed to install packages from
r-base/4.0.1-1. I.e. due to versioned dependencies or breaks/conflicts.
[1] https://qa.debian.org/excuses.php?package=r-base
https://ci.debian.net/data/autopkgtest/testing/amd64/r/r-cran-data.table/5803495/log.gz
BEGIN TEST main.R
R version 4.0.1 (2020-06-06) -- "See Things Now"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> require(data.table)
Loading required package: data.table
>
> test.data.table() # runs the main test suite of 5,000+ tests in
/inst/tests/tests.Rraw
getDTthreads(verbose=TRUE):
omp_get_num_procs() 2
R_DATATABLE_NUM_PROCS_PERCENT unset (default 50)
R_DATATABLE_NUM_THREADS unset
omp_get_thread_limit() 2147483647
omp_get_max_threads() 2
OMP_THREAD_LIMIT unset
OMP_NUM_THREADS unset
RestoreAfterFork true
data.table is using 1 threads. See ?setDTthreads.
test.data.table() running:
/usr/lib/R/site-library/data.table/tests/tests.Rraw.bz2
**** Suggested package bit64 is not installed. Tests using it will be
skipped.
**** Suggested package xts is not installed. Tests using it will be skipped.
**** Suggested package nanotime is not installed. Tests using it will be
skipped.
**** Suggested package R.utils is not installed. Tests using it will be
skipped.
**** Suggested package yaml is not installed. Tests using it will be
skipped.
Test 1390.3 produced 1 errors but expected 0
Expected:
Observed: 'origin' must be supplied
Test 1390.4 produced 1 errors but expected 0
Expected:
Observed: 'origin' must be supplied
Test 1390.5 produced 1 errors but expected 0
Expected:
Observed: 'origin' must be supplied
Test 1760 not run because this session either has no OpenMP or has been
limited to one thread (e.g. under UBSAN and ASAN)
10 longest running tests took 15s (38% of 40s)
ID time nTest
1: 1888 2.860 9
2: 1848 1.766 1
3: 1874 1.753 5
4: 1438 1.564 354
5: 1912 1.530 2
6: 1223 1.186 728
7: 1648 1.171 45
8: 1650 1.158 45
9: 1652 1.143 45
10: 1437 1.116 36
Error in test.data.table() :
3 errors out of 7311 in 40.4s elapsed (38.2s cpu) on Sun Jun 7
09:33:45 2020. [endian==little, sizeof(long double)==16,
sizeof(pointer)==8, TZ=Etc/UTC, locale='C', l10n_info()='MBCS=FALSE;
UTF-8=FALSE; Latin-1=FALSE', getDTthreads()='omp_get_num_procs()==2;
R_DATATABLE_NUM_PROCS_PERCENT==unset (default 50);
R_DATATABLE_NUM_THREADS==unset; omp_get_thread_limit()==2147483647;
omp_get_max_threads()==2; OMP_THREAD_LIMIT==unset;
OMP_NUM_THREADS==unset; RestoreAfterFork==true; data.table is using 1
threads. See ?setDTthreads.']. Search tests/tests.Rraw.bz2 for test
numbers: 1390.3, 1390.4, 1390.5.
In addition: Warning messages:
1: In parse(n = -1, file = file, srcfile = NULL, keep.source = FALSE) :
invalid input found on input connection
'/usr/lib/R/site-library/data.table/tests/tests.Rraw.bz2'
2: In parse(n = -1, file = file, srcfile = NULL, keep.source = FALSE) :
invalid input found on input connection
'/usr/lib/R/site-library/data.table/tests/tests.Rraw.bz2'
Execution halted
autopkgtest [09:33:45]: test run-unit-test: -----------------------]
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