[med-svn] [rapmap] branch upstream updated (5fb69ea -> b8057c0)

[Steffen Möller]

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

moeller pushed a change to branch upstream
in repository rapmap.

      from  5fb69ea   New upstream version 0.4.0+dfsg
       new  b8057c0   New upstream version 0.5.0+dfsg

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:
 .drone.yml                             |    26 +
 .drone.yml.sig                         |     1 +
 .drone/build.sh                        |    20 +
 .drone/copy_build.sh                   |    10 +
 .drone/test_map.sh                     |    27 +
 CMakeLists.txt                         |    41 +-
 README.md                              |    24 +-
 cmake/TestQuasiMap.cmake               |    24 +
 cmake/TestQuasiMapPerfectHash.cmake    |    24 +
 include/IndexHeader.hpp                |    13 +
 include/RapMapConfig.hpp               |     4 +-
 include/RapMapSAIndex.hpp              |     1 +
 include/RapMapUtils.hpp                |     5 +-
 include/SACollector.hpp                |     2 +-
 include/SparseHashSerializer.hpp       |     2 +-
 include/concurrentqueue.h              |     2 +-
 include/kseq.h                         |   218 +-
 include/picosha2.h                     |   359 +
 include/{sparsepp.h => sparsepp/spp.h} |  2787 +--
 include/sparsepp/spp_alloc.h           |   830 +
 include/sparsepp/spp_bitset.h          |   700 +
 include/sparsepp/spp_btree.h           |  2211 ++
 include/sparsepp/spp_config.h          |   760 +
 include/sparsepp/spp_memory.h          |   121 +
 include/sparsepp/spp_smartptr.h        |    56 +
 include/sparsepp/spp_stdint.h          |    16 +
 include/sparsepp/spp_timer.h           |    58 +
 include/sparsepp/spp_traits.h          |   122 +
 include/sparsepp/spp_utils.h           |   441 +
 sample_data/reads_1.fastq              | 40000 +++++++++++++++++++++++++++++++
 sample_data/reads_2.fastq              | 40000 +++++++++++++++++++++++++++++++
 sample_data/transcripts.fasta          |   498 +
 scripts/Dockerfile                     |    22 +
 scripts/make-release.sh                |    22 +-
 src/CMakeLists.txt                     |    12 +-
 src/RapMapSAIndex.cpp                  |     3 +-
 src/RapMapSAIndexer.cpp                |    65 +-
 src/RapMapSAMapper.cpp                 |     6 +-
 38 files changed, 87378 insertions(+), 2155 deletions(-)
 create mode 100644 .drone.yml
 create mode 100644 .drone.yml.sig
 create mode 100755 .drone/build.sh
 create mode 100755 .drone/copy_build.sh
 create mode 100755 .drone/test_map.sh
 create mode 100644 cmake/TestQuasiMap.cmake
 create mode 100644 cmake/TestQuasiMapPerfectHash.cmake
 create mode 100644 include/picosha2.h
 rename include/{sparsepp.h => sparsepp/spp.h} (67%)
 mode change 100644 => 100755
 create mode 100755 include/sparsepp/spp_alloc.h
 create mode 100755 include/sparsepp/spp_bitset.h
 create mode 100755 include/sparsepp/spp_btree.h
 create mode 100755 include/sparsepp/spp_config.h
 create mode 100755 include/sparsepp/spp_memory.h
 create mode 100755 include/sparsepp/spp_smartptr.h
 create mode 100755 include/sparsepp/spp_stdint.h
 create mode 100755 include/sparsepp/spp_timer.h
 create mode 100755 include/sparsepp/spp_traits.h
 create mode 100755 include/sparsepp/spp_utils.h
 create mode 100644 sample_data/reads_1.fastq
 create mode 100644 sample_data/reads_2.fastq
 create mode 100644 sample_data/transcripts.fasta
 create mode 100644 scripts/Dockerfile

-- 
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