[med-svn] [python-screed] branch master updated (e1fe381 -> 3db4de0)

[Michael Crusoe]

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

misterc-guest pushed a change to branch master
in repository python-screed.

      from  e1fe381   update URLs
       new  2d03733   New upstream version 1.0
       new  1220e87   Updated version 1.0 from 'upstream/1.0'
       new  46e71c7   new upstream release
       new  a787de1   drop Python 3
       new  3db4de0   adjust post-install test runner & release

The 5 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:
 .coveragerc                                 |    2 +
 .github/CONTRIBUTING.md                     |    3 +
 .github/PULL_REQUEST_TEMPLATE.md            |    9 +
 .travis.yml                                 |    3 +-
 CHANGELOG.md                                |   15 +
 Makefile                                    |   21 +-
 README.md                                   |    2 +-
 TODO                                        |   16 -
 benchmarks/faGen.py                         |    1 +
 benchmarks/fqGen.py                         |    1 +
 benchmarks/fqToFaConvert.py                 |    1 +
 benchmarks/screedCreateTimeit.py            |    1 +
 benchmarks/screedTimeit.py                  |    1 +
 benchmarks/screedTimeit1M.py                |    1 +
 bigtests/__init__.py                        |  269 ++--
 debian/changelog                            |    6 +
 debian/control                              |   26 +-
 debian/copyright                            |    4 +-
 debian/rules                                |    6 +-
 debian/tests/run-unit-test                  |    2 +-
 doc/LICENSE.rst                             |   28 +-
 doc/conf.py                                 |  158 ++-
 doc/dev/coding-guidelines-and-review.rst    |   12 +-
 doc/dev/index.rst                           |    3 +-
 doc/dev/parsers.rst                         |  167 +++
 doc/dev/release-checklist.rst               |   36 +-
 doc/index.rst                               |   10 +-
 doc/release-notes/RELEASE-1.0.md            |   52 +
 doc/release-notes/index.rst                 |    4 +-
 doc/requirements.txt                        |    1 +
 doc/screed.rst                              |  473 ++-----
 get_version.py                              |    1 +
 ChangeLog => legacy/ChangeLog               |   56 +-
 jenkins-build.sh => legacy/jenkins-build.sh |    2 +-
 screed/DBConstants.py                       |    2 +-
 screed/__init__.py                          |   12 +-
 screed/__main__.py                          |   52 +
 screed/_version.py                          |  489 +++++--
 screed/conversion.py                        |   12 +-
 screed/createscreed.py                      |   51 +-
 screed/dna.py                               |    9 +-
 screed/dump_fasta.py                        |   33 +
 screed/dump_fastq.py                        |   31 +
 screed/dump_to_fasta.py                     |   25 -
 screed/dump_to_fastq.py                     |   25 -
 screed/fadbm.py                             |   19 -
 screed/fasta.py                             |   17 +-
 screed/fastq.py                             |   17 +-
 screed/fqdbm.py                             |   22 -
 screed/hava.py                              |    3 +-
 screed/openscreed.py                        |   42 +-
 screed/pygr_api.py                          |    2 +-
 screed/screedRecord.py                      |  118 +-
 screed/seqparse.py                          |    6 +-
 screed/tests/__main__.py                    |   17 +-
 screed/tests/havaGen.py                     |    2 +-
 screed/tests/screed_tst_utils.py            |    1 -
 screed/tests/test_attriberror.py            |   63 +
 screed/tests/test_db.py                     |   76 ++
 screed/tests/test_fasta.py                  |   46 +-
 screed/tests/test_fastq.py                  |   55 +-
 screed/tests/test_nodb.py                   |   33 -
 screed/tests/test_open.py                   |   13 +-
 screed/tests/test_open_cm.py                |   13 +-
 screed/tests/test_pygr_api.py               |   25 +-
 screed/tests/test_record.py                 |   34 +
 screed/tests/test_shell.py                  |  108 +-
 screed/tests/test_streaming.py              |    6 +-
 screed/utils.py                             |    3 +
 setup.cfg                                   |   16 +
 setup.py                                    |   37 +-
 tox.ini                                     |   16 +-
 versioneer.py                               | 1904 +++++++++++++++++++--------
 73 files changed, 3180 insertions(+), 1668 deletions(-)
 create mode 100644 .coveragerc
 create mode 100644 .github/CONTRIBUTING.md
 create mode 100644 .github/PULL_REQUEST_TEMPLATE.md
 create mode 100644 CHANGELOG.md
 delete mode 100644 TODO
 create mode 100644 doc/dev/parsers.rst
 create mode 100644 doc/release-notes/RELEASE-1.0.md
 create mode 100644 doc/requirements.txt
 rename ChangeLog => legacy/ChangeLog (70%)
 rename jenkins-build.sh => legacy/jenkins-build.sh (96%)
 create mode 100644 screed/__main__.py
 create mode 100644 screed/dump_fasta.py
 create mode 100644 screed/dump_fastq.py
 delete mode 100644 screed/dump_to_fasta.py
 delete mode 100644 screed/dump_to_fastq.py
 delete mode 100755 screed/fadbm.py
 delete mode 100755 screed/fqdbm.py
 create mode 100644 screed/tests/test_attriberror.py
 create mode 100644 screed/tests/test_db.py
 delete mode 100644 screed/tests/test_nodb.py
 create mode 100644 screed/tests/test_record.py
 create mode 100644 setup.cfg

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