Hi Loris,
On 23/02/2021 13:42, Loris Bennett wrote:
Thanks for the information, John.
So there seem to be a number of solutions:
1. Software author patches software
2. EasyConfig author patches software
3. EasyConfig author builds against pre-10 GCC
There's another option if you don't want to patch the code: you could
add -fcommon to the compiler flags via the easyconfig file (but that's
not recommended).
Would it be worthwhile having something in the EB docs about the issue
which would be useful for those involved in cases 1 and 2?
There's some excellent information on this at
https://wiki.gentoo.org/wiki/Gcc_10_porting_notes/fno_common .
regards,
Kenneth
Cheers,
Loris
John Dey <j...@fuzzdog.com> writes:
The default with GCC 10.2 is to compile with -fn-common which is causing many
issues with packages. In every case, I have encountered the software should be
patched.
https://gcc.gnu.org/gcc-10/porting_to.html
John Dey
j...@fuzzdog.com
On Mon, Feb 22, 2021 at 5:45 AM Loris Bennett <loris.benn...@fu-berlin.de>
wrote:
Hi,
Starting from
Subread-2.0.0-GCC-8.3.0.eb
I updated the package to 2.0.1 and changed the compiler version to
10.2.0 to build:
Subread-2.0.1-GCC-10.2.0.eb
However, this fails with multiple errors all like the following:
/trinity/shared/easybuild/software/binutils/2.35-GCCcore-10.2.0/bin/ld.gold:
error: core-junction.o: multiple definition of 'replica_index'
/trinity/shared/easybuild/software/binutils/2.35-GCCcore-10.2.0/bin/ld.gold:
core.o: previous definition here
There is a Debian bug report which mentions a similar issue
https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=957846
Regarding the solutions given there, I can confirm that building with
GCC 9.2.0 works, however when
export CC=gcc-10 CXX=g++-10
is set, as suggested in the bug report, the build fails with the same
error as above.
Is this a known problem with GCC 10?
Cheers,
Loris
--
Dr. Loris Bennett (Hr./Mr.)
ZEDAT, Freie Universität Berlin Email loris.benn...@fu-berlin.de
