Debian Bug report logs - #1103200
r-bioc-rtracklayer: FTBFS: ucsc/common.c:249:9: error: too many arguments to function 'free'

version graph

Package: src:r-bioc-rtracklayer; Maintainer for src:r-bioc-rtracklayer is Debian R Packages Maintainers <[email protected]>;

Reported by: Santiago Vila <[email protected]>

Date: Tue, 15 Apr 2025 00:21:15 UTC

Severity: serious

Tags: forky, ftbfs, sid, trixie

Merged with 1097765

Found in version r-bioc-rtracklayer/1.66.0-2

Fixed in version r-bioc-rtracklayer/1.66.0-3

Done: Rebecca N. Palmer <[email protected]>

Reply or subscribe to this bug.

View this report as an mbox folder, status mbox, maintainer mbox

Report forwarded to [email protected], [email protected], Debian R Packages Maintainers <[email protected]>:
Bug#1103200; Package src:r-bioc-rtracklayer. (Tue, 15 Apr 2025 00:21:15 GMT) (full text, mbox, link).

Acknowledgement sent to Santiago Vila <[email protected]>:
New Bug report received and forwarded. Copy sent to [email protected], Debian R Packages Maintainers <[email protected]>. (Tue, 15 Apr 2025 00:21:15 GMT) (full text, mbox, link).

Message #5 received at [email protected] (full text, mbox, reply):

From: Santiago Vila <[email protected]>
To: Debian BTS <[email protected]>
Subject: r-bioc-rtracklayer: FTBFS: ucsc/common.c:249:9: error: too many arguments to function 'free'
Date: Tue, 15 Apr 2025 00:19:48 +0000
Package: src:r-bioc-rtracklayer
Version: 1.66.0-2
Severity: serious
Tags: ftbfs trixie sid

Dear maintainer:

During a rebuild of all packages in unstable, your package failed to build:

--------------------------------------------------------------------------------
[...]
 debian/rules clean
dh clean --buildsystem R
   dh_auto_clean -O--buildsystem=R
   dh_autoreconf_clean -O--buildsystem=R
   dh_clean -O--buildsystem=R
 debian/rules binary
dh binary --buildsystem R
   dh_update_autotools_config -O--buildsystem=R
   dh_autoreconf -O--buildsystem=R
configure.ac:19: warning: AC_OUTPUT should be used without arguments.
configure.ac:19: You should run autoupdate.
   dh_auto_configure -O--buildsystem=R
   dh_auto_build -O--buildsystem=R
   dh_auto_test -O--buildsystem=R
   create-stamp debian/debhelper-build-stamp
   dh_testroot -O--buildsystem=R
   dh_prep -O--buildsystem=R
   dh_auto_install --destdir=debian/r-bioc-rtracklayer/ -O--buildsystem=R
I: R Package: rtracklayer Version: 1.66.0
I: Building using R version 4.5.0-1
I: R API version: r-api-4.0
I: Using built-time from d/changelog: Mon, 13 Jan 2025 15:21:09 +0100
	mkdir -p /<<PKGBUILDDIR>>/debian/r-bioc-rtracklayer/usr/lib/R/site-library
	R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-rtracklayer/usr/lib/R/site-library --clean . "--built-timestamp='Mon, 13 Jan 2025 15:21:09 +0100'"
* installing *source* package ‘rtracklayer’ ...
** this is package ‘rtracklayer’ version ‘1.66.0’
files ‘configure’, ‘inst/unitTests/test_bed.R’, ‘tests/rtracklayer_unit_tests.R’ have the wrong MD5 checksums
** using staged installation
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for openssl >= 1.0... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘gcc (Debian 14.2.0-19) 14.2.0’
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c IRanges_stubs.c -o IRanges_stubs.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c XVector_stubs.c -o XVector_stubs.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c R_init_rtracklayer.c -o R_init_rtracklayer.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c readGFF.c -o readGFF.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c bbiHelper.c -o bbiHelper.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c bigWig.c -o bigWig.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c bigBedHelper.c -o bigBedHelper.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c bigBed.c -o bigBed.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c chain_io.c -o chain_io.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c twoBit.c -o twoBit.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c handlers.c -o handlers.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c utils.c -o utils.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/memgfx.c -o ucsc/memgfx.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/binRange.c -o ucsc/binRange.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/htmlColor.c -o ucsc/htmlColor.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/sqlList.c -o ucsc/sqlList.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/tokenizer.c -o ucsc/tokenizer.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/asParse.c -o ucsc/asParse.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/basicBed.c -o ucsc/basicBed.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/bigBed.c -o ucsc/bigBed.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/bPlusTree.c -o ucsc/bPlusTree.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/bbiRead.c -o ucsc/bbiRead.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/bbiWrite.c -o ucsc/bbiWrite.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/bwgCreate.c -o ucsc/bwgCreate.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/bwgQuery.c -o ucsc/bwgQuery.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/cirTree.c -o ucsc/cirTree.o
gcc -std=gnu23 -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include'     -fpic  -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/r-base-4.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2  -c ucsc/common.c -o ucsc/common.o
ucsc/common.c: In function ‘slUniqify’:
ucsc/common.c:249:9: error: too many arguments to function ‘free’
  249 |         free(el);
      |         ^~~~
make[1]: *** [/usr/lib/R/etc/Makeconf:202: ucsc/common.o] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
ERROR: compilation failed for package ‘rtracklayer’
* removing ‘/<<PKGBUILDDIR>>/debian/r-bioc-rtracklayer/usr/lib/R/site-library/rtracklayer’
dh_auto_install: error: R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-rtracklayer/usr/lib/R/site-library --clean . "--built-timestamp='Mon, 13 Jan 2025 15:21:09 +0100'" returned exit code 1
make: *** [debian/rules:4: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------

The above is just how the build ends and not necessarily the most relevant part.
If required, the full build log is available here:

https://people.debian.org/~sanvila/build-logs/202504/

About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.

If you could not reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.

If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:r-bioc-rtracklayer, so that this is still
visible in the BTS web page for this package.

Thanks.

Message sent on to Santiago Vila <[email protected]>:
Bug#1103200. (Wed, 23 Apr 2025 19:03:02 GMT) (full text, mbox, link).

Message #8 received at [email protected] (full text, mbox, reply):

From: "Rebecca N. Palmer" <[email protected]>
To: [email protected]
Subject: Bug#1103200 marked as pending in r-bioc-rtracklayer
Date: Wed, 23 Apr 2025 18:59:33 +0000
Control: tag -1 pending

Hello,

Bug #1103200 in r-bioc-rtracklayer reported by you has been fixed in the
Git repository and is awaiting an upload. You can see the commit
message below and you can check the diff of the fix at:

https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer/-/commit/4edeaf607e736aca6ca19f2691d23f69da6d96ba

------------------------------------------------------------------------
Avoid pointer type mismatch FTBFS. (Closes: #1103200)
------------------------------------------------------------------------

(this message was generated automatically)
-- 
Greetings

https://bugs.debian.org/1103200

Added tag(s) pending. Request was from "Rebecca N. Palmer" <[email protected]> to [email protected]. (Wed, 23 Apr 2025 19:03:02 GMT) (full text, mbox, link).

Added tag(s) forky. Request was from "Rebecca N. Palmer" <[email protected]> to [email protected]. (Thu, 24 Apr 2025 07:45:09 GMT) (full text, mbox, link).

Merged 1097765 1103200 Request was from "Rebecca N. Palmer" <[email protected]> to [email protected]. (Thu, 24 Apr 2025 07:45:09 GMT) (full text, mbox, link).

Message sent on to Santiago Vila <[email protected]>:
Bug#1103200. (Thu, 24 Apr 2025 11:54:05 GMT) (full text, mbox, link).

Message #17 received at [email protected] (full text, mbox, reply):

From: Andreas Tille <[email protected]>
To: [email protected]
Subject: Bug#1103200 marked as pending in r-bioc-rtracklayer
Date: Thu, 24 Apr 2025 11:51:30 +0000
Control: tag -1 pending

Hello,

Bug #1103200 in r-bioc-rtracklayer reported by you has been fixed in the
Git repository and is awaiting an upload. You can see the commit
message below and you can check the diff of the fix at:

https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer/-/commit/4edeaf607e736aca6ca19f2691d23f69da6d96ba

------------------------------------------------------------------------
Avoid pointer type mismatch FTBFS. (Closes: #1103200)
------------------------------------------------------------------------

(this message was generated automatically)
-- 
Greetings

https://bugs.debian.org/1103200

Message sent on to Santiago Vila <[email protected]>:
Bug#1103200. (Thu, 24 Apr 2025 11:54:05 GMT) (full text, mbox, link).

Message #20 received at [email protected] (full text, mbox, reply):

From: Andreas Tille <[email protected]>
To: [email protected]
Subject: Bug#1103200 marked as pending in r-bioc-rtracklayer
Date: Thu, 24 Apr 2025 11:51:30 +0000
Control: tag -1 pending

Hello,

Bug #1103200 in r-bioc-rtracklayer reported by you has been fixed in the
Git repository and is awaiting an upload. You can see the commit
message below and you can check the diff of the fix at:

https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer/-/commit/312daf3584163d2e12180cdc1bd5a5a6303c913a

------------------------------------------------------------------------
Merge branch 'c23compat' into 'master'

Avoid pointer type mismatch (FTBFS in C23, which is now the default). (Closes: #1103200)

See merge request r-pkg-team/r-bioc-rtracklayer!1
------------------------------------------------------------------------

(this message was generated automatically)
-- 
Greetings

https://bugs.debian.org/1103200

Reply sent to [email protected] (Rebecca N. Palmer):
You have taken responsibility. (Thu, 24 Apr 2025 12:21:02 GMT) (full text, mbox, link).

Notification sent to Santiago Vila <[email protected]>:
Bug acknowledged by developer. (Thu, 24 Apr 2025 12:21:02 GMT) (full text, mbox, link).

Message #25 received at [email protected] (full text, mbox, reply):

From: Debian FTP Masters <[email protected]>
To: [email protected]
Subject: Bug#1103200: fixed in r-bioc-rtracklayer 1.66.0-3
Date: Thu, 24 Apr 2025 12:19:31 +0000
[Message part 1 (text/plain, inline)]
Source: r-bioc-rtracklayer
Source-Version: 1.66.0-3
Done: Rebecca N. Palmer <[email protected]>

We believe that the bug you reported is fixed in the latest version of
r-bioc-rtracklayer, which is due to be installed in the Debian FTP archive.

A summary of the changes between this version and the previous one is
attached.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Rebecca N. Palmer <[email protected]> (supplier of updated r-bioc-rtracklayer package)

(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])


-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512

Format: 1.8
Date: Wed, 23 Apr 2025 19:58:02 +0100
Source: r-bioc-rtracklayer
Architecture: source
Version: 1.66.0-3
Distribution: unstable
Urgency: medium
Maintainer: Debian R Packages Maintainers <[email protected]>
Changed-By: Rebecca N. Palmer <[email protected]>
Closes: 1103200
Changes:
 r-bioc-rtracklayer (1.66.0-3) unstable; urgency=medium
 .
   * Team upload.
   * Avoid pointer type mismatch FTBFS. (Closes: #1103200)
Checksums-Sha1:
 c128b4a97fc1eb08ab7595a4de7258866939aa06 2460 r-bioc-rtracklayer_1.66.0-3.dsc
 e106e5f62f82980aa4a198543667c675d31235ac 27896 r-bioc-rtracklayer_1.66.0-3.debian.tar.xz
 bf039a760ecf48a0e36d617505a0e854d9c1fd67 14178 r-bioc-rtracklayer_1.66.0-3_amd64.buildinfo
Checksums-Sha256:
 6a1ae443079e34b0e4eab3f1c8c56a03b3f91b89abde50b1142895447c04f5d8 2460 r-bioc-rtracklayer_1.66.0-3.dsc
 e4d8ee75e604bafa25ff27f4dffd3e95aad809e887d08c97929a7ef3c6526eab 27896 r-bioc-rtracklayer_1.66.0-3.debian.tar.xz
 f32c470fdb59722f3f20cf80bcadb16721da50b4f4379f20b7516fedf3c086a8 14178 r-bioc-rtracklayer_1.66.0-3_amd64.buildinfo
Files:
 7447f977f8b8b72cd17ce93374496d3a 2460 gnu-r optional r-bioc-rtracklayer_1.66.0-3.dsc
 3008935e8c6c6b6fea8d5056cb527eee 27896 gnu-r optional r-bioc-rtracklayer_1.66.0-3.debian.tar.xz
 75ed132bdc175175e0a14cad7e20cf36 14178 gnu-r optional r-bioc-rtracklayer_1.66.0-3_amd64.buildinfo

-----BEGIN PGP SIGNATURE-----
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=O9W3
-----END PGP SIGNATURE-----


[Message part 2 (application/pgp-signature, inline)]

Reply sent to [email protected] (Rebecca N. Palmer):
You have taken responsibility. (Thu, 24 Apr 2025 12:21:02 GMT) (full text, mbox, link).

Notification sent to Matthias Klose <[email protected]>:
Bug acknowledged by developer. (Thu, 24 Apr 2025 12:21:03 GMT) (full text, mbox, link).

Send a report that this bug log contains spam.

Debian bug tracking system administrator <[email protected]>. Last modified: Tue May 13 17:07:24 2025; Machine Name: bembo

Debian Bug tracking system

Debbugs is free software and licensed under the terms of the GNU General Public License version 2. The current version can be obtained from https://bugs.debian.org/debbugs-source/.

Copyright © 1999 Darren O. Benham, 1997,2003 nCipher Corporation Ltd, 1994-97 Ian Jackson, 2005-2017 Don Armstrong, and many other contributors.