Greetings, Adrian,
On Mon, Mar 01, 2021 at 02:32:03AM +0200, Adrian Bunk wrote:
On Sat, Feb 20, 2021 at 05:03:45PM +0100, Filippo Rusconi wrote:
Greetings, Andreas and Michael,
I hope you are doing fine.
On Fri, Feb 19, 2021 at 10:19:11PM +0100, Andreas Tille wrote:
> Hi Filippo,
>
> this is extremely unfortunate. However, I guess the alternative would
> have been to keep some RC buggy seqan-dev which would not have helped
> openms as well. I tried the same as Peter and replaced the
> Build-Depends seqan-dev by libseqan2-dev.
>
> I can confirm the observation from Peter about the missing header file.
> I simply tried to comment those missing headers (next one is also
> missing):
>
>
> // #include <seqan/seq_io/guess_stream_format.h>
> // #include <seqan/seq_io/read_fasta_fastq.h>
[...]
Thank you for your trials and explanations. I am no on vacation, which means
I'll finally find some time to try understand the implications of that SeqAn
upgrade.
I'll keep you posted with my findings.
The brute force approach works for me:
1. install seqan-dev from buster (for step 2)
2. cp -a /usr/include/seqan debian/
3. in debian/control remove the seqan-dev build dependency
4. in debian/rules pass -DSEQAN_INCLUDE_DIR=$(DEBIAN_DIR)
to dh_auto_configure
I first tried to check if putting some header files in the local source tree
would do. But no, in fact the file handling-related headers pull down almost all
the seqan headers, so this strategy did not work out, leading me to envision
exactly what you tried. I now wonder where to put the seqan headers when we
install the -dev stuff, so that people working with OpenMS do find them. I
thought creating a seqan subdirectory to the /usr/include/OpenMS directory and
point the compiler to that location by providing -I/usr/include/OpenMS.
But then, how do we inform the users about the unconventional location of the
header files? Do they actually need that location ?
Any idea ?
cu Adrian
Cheers,
Filippo
--
⢀⣴⠾⠻⢶⣦⠀ Filippo Rusconi, PhD
⣾⠁⢠⠒⠀⣿⡁ Research scientist at CNRS
⢿⡄⠘⠷⠚⠋⠀ Debian Developer
⠈⠳⣄⠀⠀⠀⠀ http://msxpertsuite.org
http://www.debian.org
