| Patch | Description | Author | Forwarded | Bugs | Origin | Last update |
|---|---|---|---|---|---|---|
| probconsrna.patch | Debian-specific adjustment. The program "probconsRNA" is called "probcons-RNA" in Debian. | not-needed | 2014-08-16 | |||
| bypass_legacy_blast.patch | See origin | "Aaron M. Ucko" <ucko@debian.org> | no | https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=956848#20 | 2020-04-20 | |
| use_debian_packaged_TMalign.patch | There is no need to build TMalign since the Debian packaged version is used anyway | Andreas Tille <tille@debian.org> | no | 2015-12-21 | ||
| hardening.patch | propagate hardening options | Andreas Tille <tille@debian.org> | no | 2015-12-21 | ||
| set_proper_dir_permissions.patch | When creating subdirectories in $HOME do not make these world writable but keep users umask | Andreas Tille <tille@debian.org> | no | debian | 2015-12-21 | |
| mayhem.patch | Fix Mayhem issue The idea behind this patch is that if there is a problem to set the HOME directories no additional processes can exist and so we should *really* exit. Somehow the printf_exit() function does some logic which ends up in an endless loop and thus forcing the exit will help here. |
Andreas Tille <tille@debian.org> | no | debian | 2018-09-28 | |
| stable-linking-inputs.patch | provide stable file order for linking This makes the package reproducible. | Sascha Steinbiss <sascha@steinbiss.name> | no | |||
| clustalw2.patch | Executable in clustalw 2.x package is named clustalw When using bioperl-run test suite it is uncovered that t-coffee is wrongly seeking for a clustalw2 executable. A patch is applied to rather seek for clustalw. |
Andreas Tille <tille@debian.org> | no | 2016-12-16 | ||
| verbose_build | don't hide the build flags | Michael R. Crusoe <michael.crusoe@gmail.com> | no | |||
| increase_max_pid.patch | increase MAX_N_PID to Linux 64 bits theoretical maximum Since Debian Bullseye, the system now has a default pid_max of 4194304 instead of the historical 32768. This renders t-coffee much more likely to crash on compute nodes always powered on in computer centers. This patch addresses that issue with a value set to the theoretical upper limit of Linux on 64 bits systems. |
Étienne Mollier <etienne.mollier@mailoo.org> | no | debian upstream | 2020-06-17 |