Debian Patches

Status for soapdenovo2/242+dfsg-5

Patch Description Author Forwarded Bugs Origin Last update
use_libsam use Debian libraries instead of embedded headers Olivier Sallou <osallou@debian.org> no
fix_compilation code from upstream fails to compile. An include is missing.
Mail has been sent upstream and question posted to
their google group but got no answer.		 Olivier Sallou <osallou@debian.org> no
fix_usage_name usage show SOAPdenovo binary name while generated binaries are kmer dependent.
Debian modification to lowercase applied too.		 Olivier Sallou <osallou@debian.org> no
add_hardening Makefile does not load CFLAGS from env, add extra flags for debian fortify Olivier Sallou <osallou@debian.org> no
use_debian_zlib Debian library is more recent than the one embedded upstream. Its API changed and code needs to be updated to use this version.
See more info here:
http://www.postgresql.org/message-id/1329988571.6474.9.camel@vanquo.pezone.net		 Olivier Sallou <osallou@debian.org> no
reproducible Enable reproducible build Sascha Steinbiss <sascha@steinbiss.name> no 2016-05-27
gcc-10.patch Fix gcc-10 FTBFS Nilesh Patra <npatra974@gmail.om> no 2020-10-27
gcc-14.patch fix a lot of issues identified by gcc 14. Étienne Mollier <emollier@debian.org> no debian 2024-08-11
gcc-15.patch fix build failure with gcc-15. This patch fixes the following build failure by completing the
debugging2 function declaration with the missing argument type:
.
Compiling orderContig.c...
orderContig.c:1965:13: error: conflicting types for ‘debugging2’; have ‘void(unsigned int)’
1965 | static void debugging2 ( unsigned int ctg )
| ^~~~~~~~~~
orderContig.c:86:13: note: previous declaration of ‘debugging2’ with type ‘void(void)’
86 | static void debugging2();
| ^~~~~~~~~~
Error in command: gcc -c -O3 -fomit-frame-pointer -w -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/soapdenovo2-242+dfsg/standardPregraph=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBDATE="Aug 11 2024" -DBTIME="17:08:09" -DMER63 -m64 -Iinc -I/usr/include/samtools orderContig.c		 Étienne Mollier <emollier@debian.org> no debian 2025-10-24
fix-deps.patch stabilise make rules ordering. Étienne Mollier <emollier@debian.org> no debian 2025-10-24

All known versions for source package 'soapdenovo2'

Links