Ncbimeta

Commits

* [44805c70](https://github.com/ktmeaton/NCBImeta/commit/44805c70) remove exp code
* [717431a8](https://github.com/ktmeaton/NCBImeta/commit/717431a8) license badge update [skip ci]
* [05b3aeaa](https://github.com/ktmeaton/NCBImeta/commit/05b3aeaa) Merge branch 'dev'
* [cb575aea](https://github.com/ktmeaton/NCBImeta/commit/cb575aea) conflict resolve
* [b489ca62](https://github.com/ktmeaton/NCBImeta/commit/b489ca62) v0.6.0 updates [skip ci]
* [778ab45f](https://github.com/ktmeaton/NCBImeta/commit/778ab45f) ignore test database and log files [skip ci]
* [b3a310c5](https://github.com/ktmeaton/NCBImeta/commit/b3a310c5) Single quote sql query fix
* [0e0be9cb](https://github.com/ktmeaton/NCBImeta/commit/0e0be9cb) XML overhaul test update
* [b0dc3bcc](https://github.com/ktmeaton/NCBImeta/commit/b0dc3bcc) successful run
* [848cb532](https://github.com/ktmeaton/NCBImeta/commit/848cb532) quotation fix
* [e03597af](https://github.com/ktmeaton/NCBImeta/commit/e03597af) bugfixes for xml_search
* [e0ff551a](https://github.com/ktmeaton/NCBImeta/commit/e0ff551a) remove old search and flatten functions
* [546c368e](https://github.com/ktmeaton/NCBImeta/commit/546c368e) Before function move
* [9d97bbe0](https://github.com/ktmeaton/NCBImeta/commit/9d97bbe0) efetch part functional for sra
* [ab88a2c4](https://github.com/ktmeaton/NCBImeta/commit/ab88a2c4) before nucleotide switch to efetch
* [393466d3](https://github.com/ktmeaton/NCBImeta/commit/393466d3) bioproject with efetch
* [be00272b](https://github.com/ktmeaton/NCBImeta/commit/be00272b) efetch switch
* [ee6cf173](https://github.com/ktmeaton/NCBImeta/commit/ee6cf173) lxml overhaul
* [31de27e9](https://github.com/ktmeaton/NCBImeta/commit/31de27e9) before efetch switch
* [1b720a82](https://github.com/ktmeaton/NCBImeta/commit/1b720a82) xml in xml parsing
* [d33d58e5](https://github.com/ktmeaton/NCBImeta/commit/d33d58e5) cdata testing
* [940ba360](https://github.com/ktmeaton/NCBImeta/commit/940ba360) lxml experiment
* [88b7c0de](https://github.com/ktmeaton/NCBImeta/commit/88b7c0de) Config and Schema README as full path [skip ci]
* [0b1030dd](https://github.com/ktmeaton/NCBImeta/commit/0b1030dd) ignore build dir [skip ci]
* [e4be83d4](https://github.com/ktmeaton/NCBImeta/commit/e4be83d4) change codecov to branch master [skip ci]
* [f3b30de3](https://github.com/ktmeaton/NCBImeta/commit/f3b30de3) v0.5.0 version update [skip ci]

Commits

* [046f68be](https://github.com/ktmeaton/NCBImeta/commit/046f68be) travis-ci only master
* [cecb1aae](https://github.com/ktmeaton/NCBImeta/commit/cecb1aae) Merge branch 'dev'
* [0d844574](https://github.com/ktmeaton/NCBImeta/commit/0d844574) v0.5.0 updates [skip ci]
* [849f7335](https://github.com/ktmeaton/NCBImeta/commit/849f7335) Explain default slow download [skip ci]
* [b810c2ad](https://github.com/ktmeaton/NCBImeta/commit/b810c2ad) Fix codecov badge link [skip ci]
* [5d4c83bc](https://github.com/ktmeaton/NCBImeta/commit/5d4c83bc) Switch release badge to PyPI [skip ci]
* [4112027b](https://github.com/ktmeaton/NCBImeta/commit/4112027b) codecov url fix [skip ci]
* [29a80f52](https://github.com/ktmeaton/NCBImeta/commit/29a80f52) try codecov badge with dev [skip ci]
* [1488da73](https://github.com/ktmeaton/NCBImeta/commit/1488da73) Clear debugging output
* [199559b5](https://github.com/ktmeaton/NCBImeta/commit/199559b5) formatting [skip ci]
* [e6bd3b70](https://github.com/ktmeaton/NCBImeta/commit/e6bd3b70) document column_index bugfix [skip ci]
* [f560dfe5](https://github.com/ktmeaton/NCBImeta/commit/f560dfe5) Correct bioproject accession
* [10e1d2ae](https://github.com/ktmeaton/NCBImeta/commit/10e1d2ae) column_index reposition
* [75edf10e](https://github.com/ktmeaton/NCBImeta/commit/75edf10e) http error catching for esearch
* [1bc53175](https://github.com/ktmeaton/NCBImeta/commit/1bc53175) strpath for tmpdir [skip ci]
* [fd509f42](https://github.com/ktmeaton/NCBImeta/commit/fd509f42) Fix sys path and list comparison
* [3eb83673](https://github.com/ktmeaton/NCBImeta/commit/3eb83673) Remove Python 3.4 linux build [skip ci]
* [6bd4d8d8](https://github.com/ktmeaton/NCBImeta/commit/6bd4d8d8) require time module
* [8df42459](https://github.com/ktmeaton/NCBImeta/commit/8df42459) test db path fix [skip ci]
* [1488745a](https://github.com/ktmeaton/NCBImeta/commit/1488745a) Python 3.5+ required (no more 3.4) [skip ci]
* [d5624e19](https://github.com/ktmeaton/NCBImeta/commit/d5624e19) travis troubleshooting
* [763c54f8](https://github.com/ktmeaton/NCBImeta/commit/763c54f8) bash uploader for codecov
* [b807bb02](https://github.com/ktmeaton/NCBImeta/commit/b807bb02) example config reset
* [595959b9](https://github.com/ktmeaton/NCBImeta/commit/595959b9) Merge branch 'dev' of https://github.com/ktmeaton/NCBImeta into dev
* [4c9b15bc](https://github.com/ktmeaton/NCBImeta/commit/4c9b15bc) full travis-ci test build
* [8f5f38b2](https://github.com/ktmeaton/NCBImeta/commit/8f5f38b2) full travis-ci test build
* [e2ede2c0](https://github.com/ktmeaton/NCBImeta/commit/e2ede2c0) pytest for non-flat mode
* [7d4ec415](https://github.com/ktmeaton/NCBImeta/commit/7d4ec415) prototype master table check
* [ea642b8c](https://github.com/ktmeaton/NCBImeta/commit/ea642b8c) Move the HTTPErrorCatch method to utilities [skip ci]
* [dd55698e](https://github.com/ktmeaton/NCBImeta/commit/dd55698e) pytest db verify SRA
* [8de4febd](https://github.com/ktmeaton/NCBImeta/commit/8de4febd) pytesting and db verification [skip ci]
* [bc7f6b29](https://github.com/ktmeaton/NCBImeta/commit/bc7f6b29) Update test biosample metadata
* [6771d87a](https://github.com/ktmeaton/NCBImeta/commit/6771d87a) Exclude temporary test files [skip ci]
* [b2df525d](https://github.com/ktmeaton/NCBImeta/commit/b2df525d) pytest pubmed [skip ci]
* [a88ba92d](https://github.com/ktmeaton/NCBImeta/commit/a88ba92d) pytest export nucleotide table values
* [a21df9eb](https://github.com/ktmeaton/NCBImeta/commit/a21df9eb) pytest conftest assembly and bioproject
* [fe28e8b3](https://github.com/ktmeaton/NCBImeta/commit/fe28e8b3) pytest export assembly and bioproject
* [918f1e3c](https://github.com/ktmeaton/NCBImeta/commit/918f1e3c) remove annot file [skip ci]
* [26b8d15f](https://github.com/ktmeaton/NCBImeta/commit/26b8d15f) pytest join
* [87ca364a](https://github.com/ktmeaton/NCBImeta/commit/87ca364a) Comment clarification [skip ci]
* [e84af09b](https://github.com/ktmeaton/NCBImeta/commit/e84af09b) pytest annotatereplace
* [90da7506](https://github.com/ktmeaton/NCBImeta/commit/90da7506) annotateconcat 90% cov
* [34725c9e](https://github.com/ktmeaton/NCBImeta/commit/34725c9e) fix indentation
* [4eea6b32](https://github.com/ktmeaton/NCBImeta/commit/4eea6b32) annotation file for pytest [skip ci]
* [1a4f0682](https://github.com/ktmeaton/NCBImeta/commit/1a4f0682) specify pytest files in order
* [98a4221f](https://github.com/ktmeaton/NCBImeta/commit/98a4221f) module import in test dir [skip ci]
* [88279923](https://github.com/ktmeaton/NCBImeta/commit/88279923) sra table metadata re-fix [skip ci]
* [debd22ab](https://github.com/ktmeaton/NCBImeta/commit/debd22ab) debug help points [skip ci]
* [7150dc32](https://github.com/ktmeaton/NCBImeta/commit/7150dc32) generic test db name [skip ci]
* [cac8a129](https://github.com/ktmeaton/NCBImeta/commit/cac8a129) pytest annotateconcatenate [skip ci]
* [e16d6e8c](https://github.com/ktmeaton/NCBImeta/commit/e16d6e8c) formatting [skip ci]
* [469bb6a6](https://github.com/ktmeaton/NCBImeta/commit/469bb6a6) proper support for SRA [skip ci]
* [b5e57539](https://github.com/ktmeaton/NCBImeta/commit/b5e57539) codecov badge [skip ci]
* [26221240](https://github.com/ktmeaton/NCBImeta/commit/26221240) remove extra script
* [081a76e3](https://github.com/ktmeaton/NCBImeta/commit/081a76e3) execute permissions [skip ci]
* [ef5b084c](https://github.com/ktmeaton/NCBImeta/commit/ef5b084c) remove the test1 ref
* [14133ba0](https://github.com/ktmeaton/NCBImeta/commit/14133ba0) update execute permissions again
* [90d9bfbc](https://github.com/ktmeaton/NCBImeta/commit/90d9bfbc) test for output dir
* [9a1533e3](https://github.com/ktmeaton/NCBImeta/commit/9a1533e3) config data yaml test [skip ci]
* [12b67361](https://github.com/ktmeaton/NCBImeta/commit/12b67361) old cov [skip ci]
* [14ce1bf7](https://github.com/ktmeaton/NCBImeta/commit/14ce1bf7) remove extraneous [skip ci]
* [7d8037b6](https://github.com/ktmeaton/NCBImeta/commit/7d8037b6) simplify name [skip ci]
* [f7b4502e](https://github.com/ktmeaton/NCBImeta/commit/f7b4502e) yaml file error test [skip ci]
* [727e547b](https://github.com/ktmeaton/NCBImeta/commit/727e547b) main test [skip ci]
* [1efd2793](https://github.com/ktmeaton/NCBImeta/commit/1efd2793) give unique names [skip ci]
* [dac651b8](https://github.com/ktmeaton/NCBImeta/commit/dac651b8) print config file path [skip ci]
* [e2de1968](https://github.com/ktmeaton/NCBImeta/commit/e2de1968) yaml file test [skip ci]
* [0eb16810](https://github.com/ktmeaton/NCBImeta/commit/0eb16810) yaml files for testing [skip ci]
* [805efa69](https://github.com/ktmeaton/NCBImeta/commit/805efa69) super simple config [skip ci]
* [de49481a](https://github.com/ktmeaton/NCBImeta/commit/de49481a) Proper os join
* [7a9be44c](https://github.com/ktmeaton/NCBImeta/commit/7a9be44c) pytest Errors complete
* [8afd1ce9](https://github.com/ktmeaton/NCBImeta/commit/8afd1ce9) pytest errors
* [ebfc8af1](https://github.com/ktmeaton/NCBImeta/commit/ebfc8af1) duplicate column debugging [skip ci]
* [b663a974](https://github.com/ktmeaton/NCBImeta/commit/b663a974) str repr of errors proper return [skip ci]
* [c51cd55b](https://github.com/ktmeaton/NCBImeta/commit/c51cd55b) check for duplicate column names
* [1725bc6b](https://github.com/ktmeaton/NCBImeta/commit/1725bc6b) pytest and coverage [skip ci]
* [35ffd83b](https://github.com/ktmeaton/NCBImeta/commit/35ffd83b) cleanup docstring [skip ci]
* [640ed49e](https://github.com/ktmeaton/NCBImeta/commit/640ed49e) use tmp dir and files
* [13b0edb6](https://github.com/ktmeaton/NCBImeta/commit/13b0edb6) remove unnecessary code [skip ci]
* [fb3bff1d](https://github.com/ktmeaton/NCBImeta/commit/fb3bff1d) Re-enable full travis-ci [skip ci]
* [ac82f6b3](https://github.com/ktmeaton/NCBImeta/commit/ac82f6b3) remove unnecessary type checking
* [1a801bc2](https://github.com/ktmeaton/NCBImeta/commit/1a801bc2) codecov take 2
* [e6b8977f](https://github.com/ktmeaton/NCBImeta/commit/e6b8977f) codecov coverage test upload [skip ci]
* [40a601f1](https://github.com/ktmeaton/NCBImeta/commit/40a601f1) remove testing modules to travis requirements
* [60213802](https://github.com/ktmeaton/NCBImeta/commit/60213802) codecov require and test
* [a35e2513](https://github.com/ktmeaton/NCBImeta/commit/a35e2513) pytest-cov requirement
* [ef914477](https://github.com/ktmeaton/NCBImeta/commit/ef914477) pytest troubleshooting
* [34850960](https://github.com/ktmeaton/NCBImeta/commit/34850960) --cov-report= proper parameter
* [2bbd4258](https://github.com/ktmeaton/NCBImeta/commit/2bbd4258) pytest and codecov
* [ba90d3f2](https://github.com/ktmeaton/NCBImeta/commit/ba90d3f2) Longer description [skip ci]
* [971a6335](https://github.com/ktmeaton/NCBImeta/commit/971a6335) Comment out debugging [skip ci]
* [eb75e654](https://github.com/ktmeaton/NCBImeta/commit/eb75e654) v0.4.3 changelog updates [skip ci]
* [3fd7cec2](https://github.com/ktmeaton/NCBImeta/commit/3fd7cec2) Remove unicode ref
* [e9086255](https://github.com/ktmeaton/NCBImeta/commit/e9086255) Remove XmlXXXConfig Functions
* [120cfa5e](https://github.com/ktmeaton/NCBImeta/commit/120cfa5e) Extended description, remove troubleshooting printout [skip ci]
* [a462b23d](https://github.com/ktmeaton/NCBImeta/commit/a462b23d) Namespace clarify
* [6bde5f20](https://github.com/ktmeaton/NCBImeta/commit/6bde5f20) Expanded type checking
* [1c7bd73a](https://github.com/ktmeaton/NCBImeta/commit/1c7bd73a) StringElement items troubleshooting
* [62aceba4](https://github.com/ktmeaton/NCBImeta/commit/62aceba4) Extra type checking
* [30423509](https://github.com/ktmeaton/NCBImeta/commit/30423509) Fix internal recursion function name
* [5b4de6b2](https://github.com/ktmeaton/NCBImeta/commit/5b4de6b2) Correct and document flatten_dict implementation
* [4bdedf32](https://github.com/ktmeaton/NCBImeta/commit/4bdedf32) More testing
* [efb3b86f](https://github.com/ktmeaton/NCBImeta/commit/efb3b86f) Utilities testing
* [269ca821](https://github.com/ktmeaton/NCBImeta/commit/269ca821) Recode unicode and remove sys
* [a20daf6a](https://github.com/ktmeaton/NCBImeta/commit/a20daf6a) Description in header [skip ci]
* [05f693ec](https://github.com/ktmeaton/NCBImeta/commit/05f693ec) Remove sys module and flushprint [skip ci]
* [e9efc279](https://github.com/ktmeaton/NCBImeta/commit/e9efc279) cleanup [skip ci]
* [d92dc091](https://github.com/ktmeaton/NCBImeta/commit/d92dc091) NCBImetaErrors namespace
* [fc983047](https://github.com/ktmeaton/NCBImeta/commit/fc983047) Remove io module
* [78032d93](https://github.com/ktmeaton/NCBImeta/commit/78032d93) Remove sys module [skip ci]
* [f76c6dc1](https://github.com/ktmeaton/NCBImeta/commit/f76c6dc1) Error classes documented
* [45ddc1bb](https://github.com/ktmeaton/NCBImeta/commit/45ddc1bb) Description in header [skip ci]
* [1f86ec3d](https://github.com/ktmeaton/NCBImeta/commit/1f86ec3d) Remove sys module and flushprint
* [b1b668a0](https://github.com/ktmeaton/NCBImeta/commit/b1b668a0) Remove sys module
* [8400f5f2](https://github.com/ktmeaton/NCBImeta/commit/8400f5f2) Code doc first pass [skip ci]
* [b681b08d](https://github.com/ktmeaton/NCBImeta/commit/b681b08d) Reduce code redundancy
* [86be6028](https://github.com/ktmeaton/NCBImeta/commit/86be6028) Document UpdateDB [skip CI]
* [d7a22f2e](https://github.com/ktmeaton/NCBImeta/commit/d7a22f2e) Force unicode str recode
* [691111ab](https://github.com/ktmeaton/NCBImeta/commit/691111ab) Cleanup, document HTTPErrorCatch
* [778817bf](https://github.com/ktmeaton/NCBImeta/commit/778817bf) import slim down
* [470e3422](https://github.com/ktmeaton/NCBImeta/commit/470e3422) flush print true case sensitive
* [4addaaa3](https://github.com/ktmeaton/NCBImeta/commit/4addaaa3) Travis CI for dev
* [5ae1c7af](https://github.com/ktmeaton/NCBImeta/commit/5ae1c7af) Replace flushprint method python3
* [90bedfba](https://github.com/ktmeaton/NCBImeta/commit/90bedfba) Merge branch 'master' into dev
* [5f3548e1](https://github.com/ktmeaton/NCBImeta/commit/5f3548e1) Header change
* [12722915](https://github.com/ktmeaton/NCBImeta/commit/12722915) Gif reupload and typo fix
* [359b0ee6](https://github.com/ktmeaton/NCBImeta/commit/359b0ee6) Nucleotidet typo fix
* [5e56fee8](https://github.com/ktmeaton/NCBImeta/commit/5e56fee8) gif reupload
* [6f6d74c5](https://github.com/ktmeaton/NCBImeta/commit/6f6d74c5) Delete broken DB gif
* [4e53ed01](https://github.com/ktmeaton/NCBImeta/commit/4e53ed01) Delete broken CLI gif
* [546edd68](https://github.com/ktmeaton/NCBImeta/commit/546edd68) Move requirements higher [skip ci]

Commits

* [37adf6ec](https://github.com/ktmeaton/NCBImeta/commit/37adf6ec) v0.4.2 finish
* [296f34fa](https://github.com/ktmeaton/NCBImeta/commit/296f34fa) Require cloning github [skip ci]
* [2847a272](https://github.com/ktmeaton/NCBImeta/commit/2847a272) section break [skip ci]
* [b1cb2ce3](https://github.com/ktmeaton/NCBImeta/commit/b1cb2ce3) Remove test warning [skip ci]
* [994f4b1e](https://github.com/ktmeaton/NCBImeta/commit/994f4b1e) Web portal links, src dir fix [skip ci]
* [359f572f](https://github.com/ktmeaton/NCBImeta/commit/359f572f) Extra quotes remove [skip ci]
* [8edd0a2a](https://github.com/ktmeaton/NCBImeta/commit/8edd0a2a) Fix module import and author credit
* [01f45929](https://github.com/ktmeaton/NCBImeta/commit/01f45929) fix quote
* [b477b425](https://github.com/ktmeaton/NCBImeta/commit/b477b425) missing comma
* [02f81dcf](https://github.com/ktmeaton/NCBImeta/commit/02f81dcf) pip install match PyPI Repo [skip ci]
* [2c856e20](https://github.com/ktmeaton/NCBImeta/commit/2c856e20) Remove underscores
* [c6cd147b](https://github.com/ktmeaton/NCBImeta/commit/c6cd147b) Remove src dir links [skip ci]
* [6c5ba1e4](https://github.com/ktmeaton/NCBImeta/commit/6c5ba1e4) Install update [skip ci]
* [473ca4c1](https://github.com/ktmeaton/NCBImeta/commit/473ca4c1) Home url and markdown desc [skip ci]
* [b8b71bd9](https://github.com/ktmeaton/NCBImeta/commit/b8b71bd9) Short description [skip CI]
* [82a05e65](https://github.com/ktmeaton/NCBImeta/commit/82a05e65) pip install included
* [05cb9a0e](https://github.com/ktmeaton/NCBImeta/commit/05cb9a0e) branch restrict rearrange
* [f3510328](https://github.com/ktmeaton/NCBImeta/commit/f3510328) travis troubleshooting part 2
* [d9f58431](https://github.com/ktmeaton/NCBImeta/commit/d9f58431) travis troubleshooting
* [f574720d](https://github.com/ktmeaton/NCBImeta/commit/f574720d) requirements note
* [a411aea1](https://github.com/ktmeaton/NCBImeta/commit/a411aea1) v0.4.2 starts, PyPI
* [bc572124](https://github.com/ktmeaton/NCBImeta/commit/bc572124) Merge branch 'dev'
* [9909a130](https://github.com/ktmeaton/NCBImeta/commit/9909a130) PyPI Preparation
* [27568510](https://github.com/ktmeaton/NCBImeta/commit/27568510) setup.py install works!
* [b549268d](https://github.com/ktmeaton/NCBImeta/commit/b549268d) Rename src dir to ncbimeta
* [d25112a9](https://github.com/ktmeaton/NCBImeta/commit/d25112a9) More setup.py config
* [4236ceca](https://github.com/ktmeaton/NCBImeta/commit/4236ceca) requirements.txt control for setup
* [0978441e](https://github.com/ktmeaton/NCBImeta/commit/0978441e) Added setup.py
* [ff158f0e](https://github.com/ktmeaton/NCBImeta/commit/ff158f0e) Remove underscores in program
* [f074685b](https://github.com/ktmeaton/NCBImeta/commit/f074685b) Merge branch 'master' into dev
* [0f33450f](https://github.com/ktmeaton/NCBImeta/commit/0f33450f) Run Travis CI only on master
* [a7d90383](https://github.com/ktmeaton/NCBImeta/commit/a7d90383) v0.4.1 version update

Commits

* [69941ada](https://github.com/ktmeaton/NCBImeta/commit/69941ada) v0.4.1 release
* [abf1e032](https://github.com/ktmeaton/NCBImeta/commit/abf1e032) Rearrange and simplify [skip ci]
* [92c7b601](https://github.com/ktmeaton/NCBImeta/commit/92c7b601) Update CLI gif to v0.4.0 [skip ci]
* [86b5eb58](https://github.com/ktmeaton/NCBImeta/commit/86b5eb58) relative path change gif [skip ci]
* [1479a5ac](https://github.com/ktmeaton/NCBImeta/commit/1479a5ac) Merge branch 'dev'
* [f8112bd1](https://github.com/ktmeaton/NCBImeta/commit/f8112bd1) url update [skip ci]
* [770f7e5b](https://github.com/ktmeaton/NCBImeta/commit/770f7e5b) gh pages url [skip ci]
* [00c72f40](https://github.com/ktmeaton/NCBImeta/commit/00c72f40) Merge branch 'master' into dev
* [46931e02](https://github.com/ktmeaton/NCBImeta/commit/46931e02) Dependency clarification
* [83ceb7fb](https://github.com/ktmeaton/NCBImeta/commit/83ceb7fb) Merge branch 'dev'
* [ac09f722](https://github.com/ktmeaton/NCBImeta/commit/ac09f722) Multi-python linux
* [6731c998](https://github.com/ktmeaton/NCBImeta/commit/6731c998) Remove accessory program section [skip ci]
* [50121e98](https://github.com/ktmeaton/NCBImeta/commit/50121e98) Spacing [skip ci]
* [409dfcc9](https://github.com/ktmeaton/NCBImeta/commit/409dfcc9) Describe OS support [skip ci]
* [6defc7b7](https://github.com/ktmeaton/NCBImeta/commit/6defc7b7) Description simplify [skip ci]
* [790dd776](https://github.com/ktmeaton/NCBImeta/commit/790dd776) Links and issues doc
* [9c2de04e](https://github.com/ktmeaton/NCBImeta/commit/9c2de04e) Update program description
* [da2c18c3](https://github.com/ktmeaton/NCBImeta/commit/da2c18c3) Simple Linux and MacOS Build
* [04151edb](https://github.com/ktmeaton/NCBImeta/commit/04151edb) Remove URL Error code print
* [c67c9d5f](https://github.com/ktmeaton/NCBImeta/commit/c67c9d5f) Travis-CI MacOS Supported!
* [f22cedcb](https://github.com/ktmeaton/NCBImeta/commit/f22cedcb) esearch cmd rearrange
* [c3b34440](https://github.com/ktmeaton/NCBImeta/commit/c3b34440) kwargs typo
* [df09ab4b](https://github.com/ktmeaton/NCBImeta/commit/df09ab4b) Typo http_metthod
* [4e38e926](https://github.com/ktmeaton/NCBImeta/commit/4e38e926) Try to catch URL Error
* [e8b43d98](https://github.com/ktmeaton/NCBImeta/commit/e8b43d98) Retry macos testing
* [fb9c1e77](https://github.com/ktmeaton/NCBImeta/commit/fb9c1e77) Macos test first
* [20762ef8](https://github.com/ktmeaton/NCBImeta/commit/20762ef8) Pip3 change and multi-python test
* [19eb7e98](https://github.com/ktmeaton/NCBImeta/commit/19eb7e98) Bugfix plus exclude windwos from travis
* [8571960e](https://github.com/ktmeaton/NCBImeta/commit/8571960e) Test with python3 prefix
* [d4a1b519](https://github.com/ktmeaton/NCBImeta/commit/d4a1b519) Windows travis-ci test
* [5e8e305c](https://github.com/ktmeaton/NCBImeta/commit/5e8e305c) Py 3.7.4 multi-dist test
* [65be703b](https://github.com/ktmeaton/NCBImeta/commit/65be703b) Add Travis-CI Badge [skip ci]
* [0f8c65f3](https://github.com/ktmeaton/NCBImeta/commit/0f8c65f3) Just test python 3.6 on dev
* [be9fc9b0](https://github.com/ktmeaton/NCBImeta/commit/be9fc9b0) v0.4.1 preparation [skip ci]
* [53006214](https://github.com/ktmeaton/NCBImeta/commit/53006214) Annotation script bugfixes [skip ci]
* [c0218440](https://github.com/ktmeaton/NCBImeta/commit/c0218440) Updated biopython requirement to 1.74 [skip ci]
* [535aa7fc](https://github.com/ktmeaton/NCBImeta/commit/535aa7fc) Add numpy to requirements although packaged with biopython
* [b837b59f](https://github.com/ktmeaton/NCBImeta/commit/b837b59f) Only dev branches for travis-ci
* [56105f96](https://github.com/ktmeaton/NCBImeta/commit/56105f96) Add execute permissions to scripts
* [d4f8c295](https://github.com/ktmeaton/NCBImeta/commit/d4f8c295) Remove --user flag from travis-ci pip
* [9a436e42](https://github.com/ktmeaton/NCBImeta/commit/9a436e42) Travis CI Integration
* [df2ddfd0](https://github.com/ktmeaton/NCBImeta/commit/df2ddfd0) Merge branch 'master' into dev
* [3b6276d7](https://github.com/ktmeaton/NCBImeta/commit/3b6276d7) Simplify dependency written desc

Commits

* [c7b320df](https://github.com/ktmeaton/NCBImeta/commit/c7b320df) v0.4.0 release changes
* [5a4a799c](https://github.com/ktmeaton/NCBImeta/commit/5a4a799c) Merge branch 'dev'
* [17527168](https://github.com/ktmeaton/NCBImeta/commit/17527168) Variable formatting
* [3a910cb9](https://github.com/ktmeaton/NCBImeta/commit/3a910cb9) Formatting test
* [70ee5cb3](https://github.com/ktmeaton/NCBImeta/commit/70ee5cb3) Improved parameter description
* [882140af](https://github.com/ktmeaton/NCBImeta/commit/882140af) annot file updates
* [3c257cd6](https://github.com/ktmeaton/NCBImeta/commit/3c257cd6) Fixed program description.
* [92bee130](https://github.com/ktmeaton/NCBImeta/commit/92bee130) Improved description
* [6471de76](https://github.com/ktmeaton/NCBImeta/commit/6471de76) Additional explanation for join and export
* [9a0e1957](https://github.com/ktmeaton/NCBImeta/commit/9a0e1957) Section rearrange
* [0ccfe8a9](https://github.com/ktmeaton/NCBImeta/commit/0ccfe8a9) Fix incorrect release version links
* [8ae3a9c5](https://github.com/ktmeaton/NCBImeta/commit/8ae3a9c5) more typos
* [d1df6f8c](https://github.com/ktmeaton/NCBImeta/commit/d1df6f8c) Typos etc
* [87802934](https://github.com/ktmeaton/NCBImeta/commit/87802934) Release links
* [82eacccb](https://github.com/ktmeaton/NCBImeta/commit/82eacccb) Main README simplify
* [28c28d74](https://github.com/ktmeaton/NCBImeta/commit/28c28d74) Force metadata concatenation even if same value
* [acb33f82](https://github.com/ktmeaton/NCBImeta/commit/acb33f82) Simply annotation file name
* [32de6625](https://github.com/ktmeaton/NCBImeta/commit/32de6625) Print msg upon successful match
* [edca4c0d](https://github.com/ktmeaton/NCBImeta/commit/edca4c0d) Rmv records outside time boundary
* [f42d0a61](https://github.com/ktmeaton/NCBImeta/commit/f42d0a61) Rmv annot file outside time boundary
* [792d683b](https://github.com/ktmeaton/NCBImeta/commit/792d683b) Output msg for succesful match
* [047124b1](https://github.com/ktmeaton/NCBImeta/commit/047124b1) Schema updates
* [a33cc251](https://github.com/ktmeaton/NCBImeta/commit/a33cc251) Removed scripts folder with R code
* [930f2e52](https://github.com/ktmeaton/NCBImeta/commit/930f2e52) Clarify whitespace importance
* [bb86c43d](https://github.com/ktmeaton/NCBImeta/commit/bb86c43d) Remove unsupported schema txt files
* [5e2a608a](https://github.com/ktmeaton/NCBImeta/commit/5e2a608a) Doc formatting
* [7008c663](https://github.com/ktmeaton/NCBImeta/commit/7008c663) Doc formatting and spacing
* [a1c5bed5](https://github.com/ktmeaton/NCBImeta/commit/a1c5bed5) Schema documentation update for yaml
* [b7edcea2](https://github.com/ktmeaton/NCBImeta/commit/b7edcea2) schema files in yaml format
* [4762bb94](https://github.com/ktmeaton/NCBImeta/commit/4762bb94) Added comment field to Pubmed table
* [e431a2b0](https://github.com/ktmeaton/NCBImeta/commit/e431a2b0) badge typo and gif to be updated
* [52ad0019](https://github.com/ktmeaton/NCBImeta/commit/52ad0019) Sanity commit
* [23005247](https://github.com/ktmeaton/NCBImeta/commit/23005247) update, MWE back to plague
* [0014b8c5](https://github.com/ktmeaton/NCBImeta/commit/0014b8c5) MWE organism change and direct execution without python3 call
* [4ebc22b9](https://github.com/ktmeaton/NCBImeta/commit/4ebc22b9) Shebang updates for source files
* [e81f17e0](https://github.com/ktmeaton/NCBImeta/commit/e81f17e0) Annotation file rename
* [a883af4f](https://github.com/ktmeaton/NCBImeta/commit/a883af4f) Switch MWE back to plague for shorter time
* [7dc0cb4a](https://github.com/ktmeaton/NCBImeta/commit/7dc0cb4a) Remove old py config file
* [5320f671](https://github.com/ktmeaton/NCBImeta/commit/5320f671) Slowdown fetch as default
* [c8973be6](https://github.com/ktmeaton/NCBImeta/commit/c8973be6) Shebang typo
* [58829cce](https://github.com/ktmeaton/NCBImeta/commit/58829cce) Implement read handle error checking
* [035d0fdb](https://github.com/ktmeaton/NCBImeta/commit/035d0fdb) Error class for read errors
* [1df91ae4](https://github.com/ktmeaton/NCBImeta/commit/1df91ae4) add db name
* [25aff7c9](https://github.com/ktmeaton/NCBImeta/commit/25aff7c9) Switch example config file to P. aeruginosa to match paper
* [d50e012d](https://github.com/ktmeaton/NCBImeta/commit/d50e012d) v0.4.0 update rename
* [91b3d626](https://github.com/ktmeaton/NCBImeta/commit/91b3d626) HTTP 429 error checking for efetch
* [906b10ce](https://github.com/ktmeaton/NCBImeta/commit/906b10ce) Example command now references config.yaml
* [99ed046b](https://github.com/ktmeaton/NCBImeta/commit/99ed046b) Updates for v0.3.4 and v0.3.5
* [d6483289](https://github.com/ktmeaton/NCBImeta/commit/d6483289) Implement hiearchical fields
* [36639a2d](https://github.com/ktmeaton/NCBImeta/commit/36639a2d) Update hierarchical docs
* [66ab5c06](https://github.com/ktmeaton/NCBImeta/commit/66ab5c06) comma space sep hierarchical fields
* [6da14858](https://github.com/ktmeaton/NCBImeta/commit/6da14858) Removed extra config files
* [e4f36d3d](https://github.com/ktmeaton/NCBImeta/commit/e4f36d3d) Add requirements file
* [d772064e](https://github.com/ktmeaton/NCBImeta/commit/d772064e) Implement config file as yaml
* [91cd02da](https://github.com/ktmeaton/NCBImeta/commit/91cd02da) Error for incorrect config parameters
* [b6966d80](https://github.com/ktmeaton/NCBImeta/commit/b6966d80) config file in yaml format
* [a16f9699](https://github.com/ktmeaton/NCBImeta/commit/a16f9699) Merge branch 'master' into dev

Commits

* [da80053d](https://github.com/ktmeaton/NCBImeta/commit/da80053d) Update
* [f53bdac5](https://github.com/ktmeaton/NCBImeta/commit/f53bdac5) Merge branch 'dev'
* [297f12fe](https://github.com/ktmeaton/NCBImeta/commit/297f12fe) Document AnnotateReplace and AnnotateConcatenate
* [18cf30ab](https://github.com/ktmeaton/NCBImeta/commit/18cf30ab) Document FORCE_PAUSE_SECONDS parameter
* [8bf17376](https://github.com/ktmeaton/NCBImeta/commit/8bf17376) Include all 6 tables in config files
* [424e4a63](https://github.com/ktmeaton/NCBImeta/commit/424e4a63) Create a parameter to allow force pausing in seconds
* [09425f43](https://github.com/ktmeaton/NCBImeta/commit/09425f43) Implemented NCBI API key acceptance
* [9927043a](https://github.com/ktmeaton/NCBImeta/commit/9927043a) Add P. aeruginosa config file
* [3bc04b38](https://github.com/ktmeaton/NCBImeta/commit/3bc04b38) Added error when max fetch records is exceeded
* [5464bc40](https://github.com/ktmeaton/NCBImeta/commit/5464bc40) Bugfix for HTTPError 429 checking
* [8bb603e9](https://github.com/ktmeaton/NCBImeta/commit/8bb603e9) HTTP Error catching for Entrez esummary
* [aad5f391](https://github.com/ktmeaton/NCBImeta/commit/aad5f391) shebang change to python3
* [3ebd8e0c](https://github.com/ktmeaton/NCBImeta/commit/3ebd8e0c) Set theme jekyll-theme-slate
* [578e473b](https://github.com/ktmeaton/NCBImeta/commit/578e473b) Set theme jekyll-theme-minimal
* [b1981633](https://github.com/ktmeaton/NCBImeta/commit/b1981633) Goal: Config file as yaml format.