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satta pushed a change to branch master
in repository ariba.
from ed402d0 new Debian version
new f663204 new upstream version
new 5ee95ba New upstream version 2.7.0+ds
new fac2e5a Merge tag 'upstream/2.7.0+ds'
The 3 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 +++++++++++++++
debian/changelog | 7 ++
debian/control | 1 +
scripts/ariba | 2 +-
setup.py | 3 +-
20 files changed, 393 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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