Bug#1022087: jellyfish: FTBFS with pkgconf
Control: reassign -1 pkgconf Control: found -1 1.8.0-6 Control: close -1 1.8.0-9 On 2022-10-22 Andreas Metzler wrote: > On 2022-10-21 Andreas Metzler wrote: > [...] > > Indeed applying the upstream patch fixes the testcase Nilesh provided. > > I have not tried rebuilding jellyfish with patched pkgconf. > Strangely the fix does not work in the installed version: Nevermind. User-error, still had old libpkgconf3. jellyfish builds successfully with the new pkgconf upload in experimental. cu Andreas -- `What a good friend you are to him, Dr. Maturin. His other friends are so grateful to you.' `I sew his ears on from time to time, sure'
Bug#1022087: jellyfish: FTBFS with pkgconf
X-Debbugs-Cc: pkgc...@packages.debian.org On 2022-10-21 Andreas Metzler wrote: [...] > Indeed applying the upstream patch fixes the testcase Nilesh provided. > I have not tried rebuilding jellyfish with patched pkgconf. Strangely the fix does not work in the installed version: (sid)ametzler@argenau:/dev/shm/JEL/pkgconf-1.8.0$ ln -s pkgconf pkg-config (sid)ametzler@argenau:/dev/shm/JEL/pkgconf-1.8.0$ PKG_CONFIG_PATH=/tmp/ PKG_CONFIG_SYSROOT_DIR=debian/tmp/ ./pkg-config --cflags jellyfish-2.0 -Idebian/tmp//usr/include/jellyfish-2.3.0 (sid)ametzler@argenau:/dev/shm/JEL/pkgconf-1.8.0$ PKG_CONFIG_PATH=/tmp/ PKG_CONFIG_SYSROOT_DIR=debian/tmp/ pkg-config --cflags jellyfish-2.0 -I/usr/include/jellyfish-2.3.0 (sid)ametzler@argenau:/dev/shm/JEL/pkgconf-1.8.0$ pkg-config --version 1.8.0 (sid)ametzler@argenau:/dev/shm/JEL/pkgconf-1.8.0$ ./pkg-config --version 1.8.0 (sid)ametzler@argenau:/dev/shm/JEL/pkgconf-1.8.0$ dpkg -s pkgconf | grep ^Versio n Version: 1.8.0-9 cu Andreas -- `What a good friend you are to him, Dr. Maturin. His other friends are so grateful to you.' `I sew his ears on from time to time, sure'
Bug#1022087: jellyfish: FTBFS with pkgconf
Hi, On Fri, 21 Oct 2022, at 19:34, Nilesh Patra wrote: > D'you plan to rebuild this, and other few currently failing packages w/ > the new pkgconf release? Yes, I also will rebuild all packages that failed because of missing dependencies (Perl transition) or aborted during the build (possibly OOM or disk space). -- Cheers, Andrej
Bug#1022087: jellyfish: FTBFS with pkgconf
On Fri, Oct 21, 2022 at 07:24:59PM +0200, Andrej Shadura wrote: > On Fri, 21 Oct 2022, at 19:01, Andreas Metzler wrote: > > On 2022-10-21 Andreas Metzler wrote: > >> Looks like this could be https://github.com/pkgconf/pkgconf/issues/267 > >> which was fixed in June > >> https://github.com/pkgconf/pkgconf/commit/a61193c7236f5b240585c4f8eef6f452f1d9a7ee > >> but has not hit a release yet. > > > > Indeed applying the upstream patch fixes the testcase Nilesh provided. > > > > I have not tried rebuilding jellyfish with patched pkgconf. > > Thanks for confirming, I was looking at the same upstream commit, and > actually I have just uploaded it to experimental. D'you plan to rebuild this, and other few currently failing packages w/ the new pkgconf release? -- Best, Nilesh signature.asc Description: PGP signature
Bug#1022087: jellyfish: FTBFS with pkgconf
Hi, On Fri, 21 Oct 2022, at 19:01, Andreas Metzler wrote: > On 2022-10-21 Andreas Metzler wrote: >> Looks like this could be https://github.com/pkgconf/pkgconf/issues/267 >> which was fixed in June >> https://github.com/pkgconf/pkgconf/commit/a61193c7236f5b240585c4f8eef6f452f1d9a7ee >> but has not hit a release yet. > > Indeed applying the upstream patch fixes the testcase Nilesh provided. > > I have not tried rebuilding jellyfish with patched pkgconf. Thanks for confirming, I was looking at the same upstream commit, and actually I have just uploaded it to experimental. -- Cheers, Andrej
Bug#1022087: jellyfish: FTBFS with pkgconf
On 2022-10-21 Andreas Metzler wrote: > On 2022-10-20 Nilesh Patra wrote: >> On Wed, 19 Oct 2022 21:11:12 +0100 Andrej Shadura >> wrote: >> > Source: jellyfish > [] >> I took a look at this one, and this seems to FTBFS with pkgconf >> because pkgconf does not seem to honor atleast PKG_CONFIG_SYSROOT_DIR >> which is set in d/rules for this package[1] > [...] >> with old pkg-config: >> $ PKG_CONFIG_PATH=. PKG_CONFIG_SYSROOT_DIR=debian/tmp/ pkg-config --cflags >> jellyfish-2.0 >> -Idebian/tmp//usr/include/jellyfish-2.3.0 >> with pkgconf: >> $ PKG_CONFIG_PATH=. PKG_CONFIG_SYSROOT_DIR=debian/tmp/ pkg-config --cflags >> jellyfish-2.0 >> -I/usr/include/jellyfish-2.3.0 > [...] > Hello, > Looks like this could be https://github.com/pkgconf/pkgconf/issues/267 > which was fixed in June > https://github.com/pkgconf/pkgconf/commit/a61193c7236f5b240585c4f8eef6f452f1d9a7ee > but has not hit a release yet. Indeed applying the upstream patch fixes the testcase Nilesh provided. I have not tried rebuilding jellyfish with patched pkgconf. cu Andreas -- `What a good friend you are to him, Dr. Maturin. His other friends are so grateful to you.' `I sew his ears on from time to time, sure'
Bug#1022087: jellyfish: FTBFS with pkgconf
On 2022-10-20 Nilesh Patra wrote: > On Wed, 19 Oct 2022 21:11:12 +0100 Andrej Shadura wrote: > > Source: jellyfish [] > I took a look at this one, and this seems to FTBFS with pkgconf > because pkgconf does not seem to honor atleast PKG_CONFIG_SYSROOT_DIR > which is set in d/rules for this package[1] [...] > with old pkg-config: > $ PKG_CONFIG_PATH=. PKG_CONFIG_SYSROOT_DIR=debian/tmp/ pkg-config --cflags > jellyfish-2.0 > -Idebian/tmp//usr/include/jellyfish-2.3.0 > with pkgconf: > $ PKG_CONFIG_PATH=. PKG_CONFIG_SYSROOT_DIR=debian/tmp/ pkg-config --cflags > jellyfish-2.0 > -I/usr/include/jellyfish-2.3.0 [...] Hello, Looks like this could be https://github.com/pkgconf/pkgconf/issues/267 which was fixed in June https://github.com/pkgconf/pkgconf/commit/a61193c7236f5b240585c4f8eef6f452f1d9a7ee but has not hit a release yet. cu Andreas -- `What a good friend you are to him, Dr. Maturin. His other friends are so grateful to you.' `I sew his ears on from time to time, sure'
Bug#1022087: jellyfish: FTBFS with pkgconf
Hi Andrej,
On Wed, 19 Oct 2022 21:11:12 +0100 Andrej Shadura wrote:
> Source: jellyfish
> Version: 2.3.0-15
> Severity: normal
> Tags: ftbfs
> User: andre...@debian.org
> Usertags: pkgconf-rebuild-ftbfs
I took a look at this one, and this seems to FTBFS with pkgconf because pkgconf
does not seem
to honor atleast PKG_CONFIG_SYSROOT_DIR which is set in d/rules for this
package[1]
In particular:
| $ cat jellyfish-2.0.pc
| prefix=/usr
| exec_prefix=${prefix}
| libdir=${prefix}/lib/x86_64-linux-gnu
| includedir=${prefix}/include
|
| Name: Jellyfish
| Description: A multi-threaded hash based k-mer counter.
| Version: 2.3.0
| Libs: -L${libdir} -ljellyfish-2.0 -lpthr
with old pkg-config:
$ PKG_CONFIG_PATH=. PKG_CONFIG_SYSROOT_DIR=debian/tmp/ pkg-config --cflags
jellyfish-2.0
-Idebian/tmp//usr/include/jellyfish-2.3.0
with pkgconf:
$ PKG_CONFIG_PATH=. PKG_CONFIG_SYSROOT_DIR=debian/tmp/ pkg-config --cflags
jellyfish-2.0
-I/usr/include/jellyfish-2.3.0
This looks like a problem with pkgconf instead. Let me know if I am mistaken.
If not, could you fix this, please?
[1]: https://sources.debian.org/src/jellyfish/2.3.0-15/debian/rules/#L12
Thanks!
--
Best,
Nilesh
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