[med-svn] [minia] branch upstream updated (103e348 -> ff0272f)

[Andreas Tille]

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

tille pushed a change to branch upstream
in repository minia.

      from  103e348   New upstream version 1.6906
       new  ff0272f   New upstream version 2.0.7

The 1 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.


Summary of changes:
 .gitignore                     |     1 +
 .gitmodules                    |     3 +
 Bank.cpp                       |  1087 -----
 Bank.h                         |   200 -
 Bloom.cpp                      |   474 --
 Bloom.h                        |   248 -
 CMakeLists.txt                 |   119 +
 Debloom.cpp                    |   466 --
 Debloom.h                      |    45 -
 GraphOutput.cpp                |   380 --
 GraphOutput.h                  |   204 -
 Hash16.cpp                     |   404 --
 Hash16.h                       |    95 -
 Hashing.cpp                    |    42 -
 Hashing.h                      |    31 -
 INSTALL                        |    20 +
 Kmer.cpp                       |   373 --
 Kmer.h                         |    84 -
 LICENSE                        |  1175 +++--
 LargeInt.cpp                   |   277 --
 LargeInt.h                     |    48 -
 LinearCounter.cpp              |    47 -
 LinearCounter.h                |    29 -
 Minia.cpp                      |   351 --
 MultiConsumer.cpp              |   144 -
 MultiConsumer.h                |    86 -
 OAHash.cpp                     |   212 -
 OAHash.h                       |    77 -
 Pool.cpp                       |   156 -
 Pool.h                         |    92 -
 README                         |    18 -
 README.md                      |    38 +
 Set.cpp                        |   305 --
 Set.h                          |   158 -
 SortingCount.cpp               |   847 ----
 SortingCount.h                 |    27 -
 Terminator.cpp                 |   410 --
 Terminator.h                   |    79 -
 Traversal.cpp                  |   955 ----
 Traversal.h                    |   168 -
 Utils.cpp                      |   647 ---
 Utils.h                        |   103 -
 doc/CMakeLists.txt             |    13 +
 doc/manual.tex                 |   142 +
 lut.h                          |   272 --
 makefile                       |    76 -
 manual/manual.pdf              |   Bin 1155669 -> 0 bytes
 manual/manual.tex              |   124 -
 rvalues.h                      |   131 -
 simple_test.sh                 |    20 -
 src/Minia.cpp                  |   296 ++
 src/Minia.hpp                  |    61 +
 src/NodeSelector.cpp           |   244 +
 src/NodeSelector.hpp           |   125 +
 src/main.cpp                   |    50 +
 test/read50x_ref10K_e001.fasta | 10000 ---------------------------------------
 test/result10K.fasta           |     2 -
 ttmath/ttmath.h                |  2849 -----------
 ttmath/ttmathbig.h             |  6061 ------------------------
 ttmath/ttmathint.h             |  1924 --------
 ttmath/ttmathmisc.h            |   250 -
 ttmath/ttmathobjects.h         |   809 ----
 ttmath/ttmathparser.h          |  2765 -----------
 ttmath/ttmaththreads.h         |   250 -
 ttmath/ttmathtypes.h           |   667 ---
 ttmath/ttmathuint.h            |  4062 ----------------
 ttmath/ttmathuint_noasm.h      |  1017 ----
 ttmath/ttmathuint_x86.h        |  1602 -------
 ttmath/ttmathuint_x86_64.h     |  1146 -----
 69 files changed, 1773 insertions(+), 43910 deletions(-)
 create mode 100644 .gitignore
 create mode 100644 .gitmodules
 delete mode 100644 Bank.cpp
 delete mode 100644 Bank.h
 delete mode 100644 Bloom.cpp
 delete mode 100644 Bloom.h
 create mode 100644 CMakeLists.txt
 delete mode 100644 Debloom.cpp
 delete mode 100644 Debloom.h
 delete mode 100644 GraphOutput.cpp
 delete mode 100644 GraphOutput.h
 delete mode 100644 Hash16.cpp
 delete mode 100644 Hash16.h
 delete mode 100644 Hashing.cpp
 delete mode 100644 Hashing.h
 create mode 100644 INSTALL
 delete mode 100644 Kmer.cpp
 delete mode 100644 Kmer.h
 delete mode 100644 LargeInt.cpp
 delete mode 100644 LargeInt.h
 delete mode 100644 LinearCounter.cpp
 delete mode 100644 LinearCounter.h
 delete mode 100644 Minia.cpp
 delete mode 100644 MultiConsumer.cpp
 delete mode 100644 MultiConsumer.h
 delete mode 100644 OAHash.cpp
 delete mode 100644 OAHash.h
 delete mode 100644 Pool.cpp
 delete mode 100644 Pool.h
 delete mode 100644 README
 create mode 100644 README.md
 delete mode 100644 Set.cpp
 delete mode 100644 Set.h
 delete mode 100644 SortingCount.cpp
 delete mode 100644 SortingCount.h
 delete mode 100644 Terminator.cpp
 delete mode 100644 Terminator.h
 delete mode 100644 Traversal.cpp
 delete mode 100644 Traversal.h
 delete mode 100644 Utils.cpp
 delete mode 100644 Utils.h
 create mode 100644 doc/CMakeLists.txt
 create mode 100644 doc/manual.tex
 delete mode 100644 lut.h
 delete mode 100644 makefile
 delete mode 100644 manual/manual.pdf
 delete mode 100644 manual/manual.tex
 delete mode 100644 rvalues.h
 delete mode 100644 simple_test.sh
 create mode 100644 src/Minia.cpp
 create mode 100644 src/Minia.hpp
 create mode 100644 src/NodeSelector.cpp
 create mode 100644 src/NodeSelector.hpp
 create mode 100644 src/main.cpp
 delete mode 100644 test/read50x_ref10K_e001.fasta
 delete mode 100644 test/result10K.fasta
 delete mode 100644 ttmath/ttmath.h
 delete mode 100644 ttmath/ttmathbig.h
 delete mode 100644 ttmath/ttmathint.h
 delete mode 100644 ttmath/ttmathmisc.h
 delete mode 100644 ttmath/ttmathobjects.h
 delete mode 100644 ttmath/ttmathparser.h
 delete mode 100644 ttmath/ttmaththreads.h
 delete mode 100644 ttmath/ttmathtypes.h
 delete mode 100644 ttmath/ttmathuint.h
 delete mode 100644 ttmath/ttmathuint_noasm.h
 delete mode 100644 ttmath/ttmathuint_x86.h
 delete mode 100644 ttmath/ttmathuint_x86_64.h

-- 
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/minia.git