| Patch | Description | Author | Forwarded | Bugs | Origin | Last update |
|---|---|---|---|---|---|---|
| samreader.patch | Implement new htsjdk API See https://github.com/samtools/htsjdk/issues/767#issuecomment-264864910 | Sascha Steinbiss <sascha@steinbiss.name> | yes | debian | 2016-12-07 | |
| use-lang3.patch | use lang3 | Sascha Steinbiss | not-needed | 2016-12-07 | ||
| using_system_jars_in_pom.patch | specifying paths on Debian system for some dependencies For those dependencies, no maven-repo tree is available, we are therefore giving their path with system scope. |
Pierre Gruet <pgtdebian@free.fr> | not-needed | 2020-09-04 | ||
| missing_htsjdk_dependency_in_pom.patch | adding missing dependency on htsjdk in pom | Pierre Gruet <pgtdebian@free.fr> | yes | 2020-09-04 | ||
| no_install_of_provided_jars.patch | avoid installing embedded jars as we removed them Author relies on jars that are embedded in their source archive. Instead, we use the ones that are packaged in Debian. |
Pierre Gruet <pgtdebian@free.fr> | not-needed | 2020-09-04 | ||
| running_build_tests.patch | changes in pom and in test definitions when they cannot be run In pom.xml, we remove the part relative to Evosuite as, as mentioned in pom, provided build tests are not compatible with Evosuite. We also remove the lines allowing to skip tests or to ignore failures. In the definitions of the tests, we add @Ignore for the ones that require a X11 instance to run. |
Pierre Gruet <pgtdebian@free.fr> | not-needed | 2020-09-05 | ||
| debianize_launcher_scripts.patch | Simplifying the provided launchers Many options or tricks are useless on a Debian system. The paths are also adapted to the Debian install. |
Pierre Gruet <pgtdebian@free.fr> | not-needed | 2020-09-06 |