| Patch | Description | Author | Forwarded | Bugs | Origin | Last update |
|---|---|---|---|---|---|---|
| hardening_flags | Make build system more flexible https://github.com/benedictpaten/sonLib/pull/42 https://github.com/vgteam/gfakluge/pull/6 https://github.com/yoheirosen/sublinear-Li-Stephens/pull/7 https://github.com/vgteam/vg/pull/3168 https://github.com/vgteam/cpp_progress_bar/pull/2 So that Debian can pass hardening flags |
"Michael R. Crusoe" <crusoe@debian.org> | yes | 2019-09-06 | ||
| static | For Debian, don't statically link to cairo, jansson, libstdc++, libgcc | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-09 | ||
| use_packaged_lz4 | Use the Debian packaged lz4 library | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-09 | ||
| parallize_better | improve build parallelization | "Michael R. Crusoe" <crusoe@debian.org> | yes | 2019-09-09 | ||
| use_packaged_libtsl-hopscotch-map-dev | Use the tsl-hopscotch-map cmake target | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2020-01-13 | ||
| libVCFH_unneeded | libVCFH is unneeded | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2020-01-13 | ||
| better_clean | don't clean a file that is part of the distribution tarball | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2020-02-01 | ||
| use_packaged_vcflib | Attempt to use the Debian version of vcflib | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| use_packaged_htslib | Use the Debian package of htslib | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| simde | Increase portability by using SIMD Everywhere library | "Michael R. Crusoe" <crusoe@debian.org> | yes | 2020-02-01 | ||
| crossbuild | Enable cross building | "Michael R. Crusoe" <crusoe@debian.org> | yes | 2020-02-01 | ||
| python3 | convert all Python scripts to Python v3 | "Michael R. Crusoe" <crusoe@debian.org> | yes | 2020-02-09 | ||
| avoid_abs_confusion | Avoid compiler confusion on overloaded abs | Bastian Germann <bage@debian.org> | no | 2024-11-01 | ||
| gcc-12 | GCC 12+ fixes Similar to https://github.com/vgteam/vg/commit/fa824c1f5500a71ee215311e18049c46c50712b5 |
"Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2024-09-11 | ||
| use_packaged_libdeflate | Use the Debian package for libdeflate | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| use_packaged_jemalloc | Use the Debian packaged version of jemalloc | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| use_packaged_libbackward-cpp | Use the Debian version of cpp-backward | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| use_packaged_elfutils | Use the Debian packages for elfutils | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| use_packaged_raptor2 | Use the Debian package for raptor/rapper | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| no_need_for_snappy | Due to other patches, snappy is no longer a dependency | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| use_packaged_sparsehash | Use the Debian package for sparsehash | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| use_packaged_fermi-lite | Use the Debian package of fermi-lite Adjust for the renamed bseq1_t→fml_seq1_t See https://github.com/lh3/fermi-lite/issues/5 |
"Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| no_rpath | don't use rpath | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| no_pg | Ensure that we don't accidentally include profile mode | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 | ||
| use_packaged_fastahack | Use the Debian version of fastahack; not working due to vg needing modifications to the upstream sourcecode | "Michael R. Crusoe" <crusoe@debian.org> | not-needed | 2019-09-06 |