[med-svn] [ariba] branch upstream updated (f56815e -> 5ee95ba)

[Sascha Steinbiss]

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satta pushed a change to branch upstream
in repository ariba.

      from  f56815e   New upstream version 2.6.1+ds
       new  5ee95ba   New upstream version 2.7.0+ds

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:
 ariba/__init__.py                                  |   2 +
 ariba/common.py                                    |  25 +++++
 ariba/megares_data_finder.py                       |  68 ++++++++++++
 ariba/megares_zip_parser.py                        | 119 +++++++++++++++++++++
 ariba/ref_genes_getter.py                          |  38 +++----
 .../data/megares_zip_parse_extract_files_ok.zip    | Bin 0 -> 1328 bytes
 ...megares_zip_parse_extract_files_one_missing.zip | Bin 0 -> 1116 bytes
 .../data/megares_zip_parser_load_annotations.csv   |   3 +
 .../megares_zip_parser_load_header_mappings.tsv    |   3 +
 .../data/megares_zip_parser_write_files.expect.fa  |   6 ++
 .../data/megares_zip_parser_write_files.expect.tsv |   3 +
 .../megares_annotations_v1.01.csv                  |   4 +
 .../megares_database_v1.01.fasta                   |   6 ++
 .../megares_to_external_header_mappings_v1.01.tsv  |   4 +
 ariba/tests/megares_data_finder_test.py            |  36 +++++++
 ariba/tests/megares_zip_parser_test.py             |  84 +++++++++++++++
 scripts/ariba                                      |   2 +-
 setup.py                                           |   3 +-
 18 files changed, 385 insertions(+), 21 deletions(-)
 create mode 100644 ariba/megares_data_finder.py
 create mode 100644 ariba/megares_zip_parser.py
 create mode 100644 ariba/tests/data/megares_zip_parse_extract_files_ok.zip
 create mode 100644 ariba/tests/data/megares_zip_parse_extract_files_one_missing.zip
 create mode 100644 ariba/tests/data/megares_zip_parser_load_annotations.csv
 create mode 100644 ariba/tests/data/megares_zip_parser_load_header_mappings.tsv
 create mode 100644 ariba/tests/data/megares_zip_parser_write_files.expect.fa
 create mode 100644 ariba/tests/data/megares_zip_parser_write_files.expect.tsv
 create mode 100644 ariba/tests/data/megares_zip_parser_write_files/megares_annotations_v1.01.csv
 create mode 100644 ariba/tests/data/megares_zip_parser_write_files/megares_database_v1.01.fasta
 create mode 100644 ariba/tests/data/megares_zip_parser_write_files/megares_to_external_header_mappings_v1.01.tsv
 create mode 100644 ariba/tests/megares_data_finder_test.py
 create mode 100644 ariba/tests/megares_zip_parser_test.py

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