[med-svn] [beast-mcmc] branch master created (now 5608a9c)

[Andreas Tille]

This is an automated email from the git hooks/post-receive script.

tille pushed a change to branch master
in repository beast-mcmc.

        at  5608a9c   Moved from SVN to Git

This branch includes the following new commits:

       new  6001084    * Iniial release of beast-mcmc
       new  4e4fe6e   Compilation and package generation completed
       new  58d3c93   New upstream release. Added man page.
       new  126752e   Fix changelog
       new  60b1885   beauti man page updated patches
       new  92fd6a0   New upstream release
       new  e3b0fc9   Fix rules
       new  9f2fc32   Update man pages and add menu item.
       new  24eef87    * New upstream release
       new  b8d3735   Fixed build-depends for target testing/unstable; Bumped Standards-Version; Added myself to uploaders
       new  77f3dc9   Added quilt Build-Depends, removed series of unreleased versions which would hide ITP bug close and do not give any extra information.
       new  7308d46   Make sure gcc will be called with valid options and correct include path
       new  75be0f6   Split up into three binary packages: Main beast-mcmc (arch=all), beast-doc and beast-mcmc-lib (arch=any) to keep thy byte-load of arch-any packages low; moved to non-free because there are several JAR files without source and we can not sort this out for the moment; debian/rules with short dh statement; make use of debian/<pkg>.{install,manpages} files
       new  b9351a8   Add more docs which are available as pdf; fix lintian issues in menu
       new  819fb98   Do not compress pdf files
       new  0d26ce8   Better clean target, add soname to libraries and proper links, more generic installation of docs, some cleanups
       new  4a251c6   Remove some binarie jars which are just packaged for Debian, adapt CLASSPATH, use separate shell script get-orig-source (which might be usable for watch later)
       new  9ad5167   Added README.source
       new  b7c9889   Get rid of more binary jars, rebuild prebuilded pdf files instead of shipping them in tarball (Build-Depends from texlive needs to be added!)
       new  fdd861a   Remove further docs from orig.tar.gz, rebuild them in build target and care for proper cleaning in clean target
       new  abea7c1   Build separate example package
       new  e5eb8a3   Fix typo in CLASSPATH; do not create useless empty dirs.
       new  ed2b51b   Use global CLASSPATH
       new  435ec55   Use export CLASSPATH to make sure it will be really found by applications
       new  2509941   Leave only those jars in CLASSPATH which are actually needed.
       new  eae8d34   Use Debian packaged itext library
       new  99abdaa   Try also building tracer which does not work that way - any help is welcome
       new  0f2bec9   Added remark of beagle.jar author about future licensing plan
       new  dc7ba02   Fixed Build Depends
       new  3dd0297   get-orig-source needs to be executable - work around weak svn and commit it from scratch
       new  7af5eaf   adapted get-orig-source and watch file
       new  bb7ea2c   New upstream version, we now fetch only tagged release versions instead of current SVN
       new  2152a64   Adapted patches to new version
       new  4f4a2c8   Some adaptations to build new version
       new  c2c5611   Set explicit CLASSPATH in some scripts to make them run successfully
       new  6855964   Forgot to commit manifest; ensure that libraries are really shared libs; needs writing manpages
       new  0abe054   Do not try to patch singular upstream wrappers if we need to do massive changes to work around stupid manifest problems anyway it makes sense to provide them directly in debian/bin
       new  740f205   Enhanced copyright
       new  0821128   Fixed Vcs fields, drop quilt from build-depends
       new  4c25b54   Use now available Debian packaged libraries
       new  d1d2f27   One of the last two remaining dependencyies for beast-mcmc, package is not finished
       new  7bbc129   Unintentionally removed new dependencies from control file - reverting latest change
       new  f273d37   Ironed out two further binary JAR files in the source tarball; so only one binary is left which should be kicked as well by creating a libmtj-java package (which does require some more work unfortunately)
       new  0f460fc   Copyright until 2011
       new  5466df6   Take over citation information from task file
       new  f83ebd6   DEP5 to enable reading with machine-readable gatherer
       new  12307ff   Some cleaning up to make more sense in machine-readable gatherer
       new  b6aa8ba   New upstream version; libmtj-java now available in Debian
       new  5ef8b9b   Some more files (reliably) to remove; use xz instead of gz compression to save some MB of space
       new  33d25fa   Update patches to new upstream version (build untested)
       new  f8307a4   Debhelper 9; More adaptions to now Debian packaged JAR files
       new  545d0c0   Restore old patches from version 1.6.2 (with updates regarding the now available mtj.jar)
       new  75b741e   Revert changes for version 1.7.2; additional build-depends needed
       new  8ce6f61   There are no lib/*.jar files to install any more
       new  3ba508f   Finally we can target contrib rather than non-free
       new  8049712   Final fixes for lib package; upload to unstable
       new  8038cd8   Prepare for new upstream version
       new  400f2c0   Commit uploaded version with renamed doc and example package
       new  815b680   Fix another name space conflict with beast package
       new  17ebce0   There is no point in keeping a separate branch because beast-mcmc did not made it into wheezy anyway - (manually) merge back
       new  88c3fe0   rename beast-mcmc-lib to libnucleotidelikelihoodcore0
       new  0ed2d82   Fix install and links of renamed package
       new  b346219   create soname for library
       new  76a1ca6   silence pdflatex for better readable build logs
       new  b77e36a   Versioned Depends from libhmsbeagle-java
       new  6051df3   Upload to experimental
       new  201b7cd   Initial kickstart for flexbar
       new  fe2b861   add copyright info to fix 698497
       new  875880d   set to experimental
       new  0f59ddf   revert to unstable
       new  79a2099   adapt patch to new release
       new  ea5515b   set to experiment as needed libhsmbeagle is in experiemental
       new  7fe4cab   New upstream version with majpr internal changes
       new  08ef1d4   New upstream version, adapted patches; explain why we do not yet package latest and greatest upstream
       new  59e1032   Move debian/upstream to debian/upstream/metadata
       new  919344d   libnucleotidelikelihoodcore0: Architecture: amd64
       new  20d7bc4   New upstream version, Stick to 1.x series of beast-mcmc
       new  15f0f2f    cme fix dpkg-control
       new  4680c5f   Update quilt patches
       new  8bdd490   Add Files-Excluded just for documentation purpose since we are draining from SVN anyway.
       new  1bc6db9   Fix encoding issue
       new  0299620   Fix encoding issue
       new  89d1e8f   Help finding libhmsbeagle-jni
       new  1ae3d20   DEP5 does not allow spaces in license names
       new  e1de982   Explicitly add multiarch library PATH to wrapper script to make sure libhmsbeagle-jni will be found, add test without autopkgtest control file (contrib is not tested anyway)
       new  2cabf82   Fix package description and upload to unstable
       new  883ca7d   New upstream version from Github; commit old changes using libcolt-free; amd64 only
       new  bff1b8c   drop debian/get-orig-source since uscan can deal with all issues
       new  a54e180   Adapt new upstream location
       new  905344f   Revert restricting arch from all to amd64 for package beast since reporter of #780428 did not responded
       new  90d68fe   More Files-Excluded
       new  6bc8148   Adapt patches
       new  f41502e   Bumped version in versioned Build-Depends: libhmsbeagle-dev
       new  a93f237   Imported Upstream version 1.8.0
       new  f0d5aaf   Imported Upstream version 1.8.0
       new  dd40f0b   Imported Upstream version 1.8.0
       new  e00b2e1   Merge tag 'upstream/1.8.0'
       new  83b9f4a   Re-add debian/ dir that vanished after importing original source
       new  1dcfe2f   Imported Upstream version 1.8.2~754b844
       new  1b1357b   Merge tag 'upstream/1.8.2_754b844'
       new  5608a9c   Moved from SVN to Git

The 101 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


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