| Patch | Description | Author | Forwarded | Bugs | Origin | Last update |
|---|---|---|---|---|---|---|
| remove_mathml-qname.patch | Remove non DFSG free DTD | Andreas Tille <tille@debian.org> | yes | 2014-04-30 | ||
| privacy_breach.patch | Do not use privacy-breach-logo | Andreas Tille <tille@debian.org> | not-needed | 2015-05-12 | ||
| privacy_breach_ie9.patch | fix privacy breach with html5shiv Actually the script called is commented out, except when reading the page with Internet Explorer 9. This patch makes sure the script is not called at all, even if it is very unlikely that HTML document installed in Debian will ever be read with this browser. |
Étienne Mollier <etienne.mollier@mailoo.org> | not-needed | 2020-09-11 | ||
| blastdbv4-impl.patch | Implement BLAST database version 4 switch This patch adds support for the -blastdb_version switch of the makeblastdb wrapper of the library. This originates from a workaround to fix a build test failure on 32 bit architecture, but the option might be interesting upstream as well, hence a separation of the implementation and test. |
Étienne Mollier <etienne.mollier@mailoo.org> | yes | 2020-09-08 | ||
| fix-use-of-unversioned-python.patch | fix use of unversioned 'python' interpreter The Doc/Makefile uses python to evaluate the current version of the library in order to build the documentation, but the unversioned "python" interpreter is not available anymore, at least not in the build context. |
Étienne Mollier <etienne.mollier@mailoo.org> | not-needed | 2020-09-09 | ||
| stabilize-phyml-test.patch | stabilize the test involving phyml On multicore systems, the MPI variant is invoked, which for some reason attempts to connect to a running X server, which may not be available on build environments. Forcing to use a single threaded variant, by the means of the environment variable PHYMLCPUS, allows one to avoid the message "No protocol specified" in the error output, which interferes with the version test. |
Étienne Mollier <etienne.mollier@mailoo.org> | yes | 2020-09-11 | ||
| spelling-error-in-binaries.patch | fix lintian message spelling-error-in-binary As a side note, lintian reports another spelling error "algorith" in another binary, but the matching source code does not show any such issue in strings, so it might have been a string sliced at a bad place by the compiler. |
Étienne Mollier <etienne.mollier@mailoo.org> | yes | 2020-09-11 | ||
| reproduciblebuild.patch | make the build reproducible This patch removes the last update date, which would correspond to the moment when the package was build, and wouldn't be too relevant in the document. Focusing on the version number would be a better approach here. This patch is not needed upstream, as it would interfere with development releases, marked only with the version "dev", so would benefit of the date here. |
Étienne Mollier <etienne.mollier@mailoo.org> | not-needed | 2020-09-12 | ||
| mkdssp4.path | port PDB DSSP module to use dssp version 4 | Étienne Mollier <etienne.mollier@mailoo.org> | yes | debian upstream | 2020-12-05 |