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Ran 30 Sep 2019 01:44AM UTC

Files 13

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Committed 30 Sep 2019 01:31AM UTC coverage: 89.55% (+2.7%) from 86.876%

Job # PYTHONHASHSEED=0

Build Type

push

travis-ci

Committed by

web-flow

Commit Message

Clean up matching logic (#75)

* Empty commit

* To create WIP pr

* Made full and non-full output more similar

* Replaced ``Final_Refined_Terms_with_Resource_IDs`` in full format with
  ``Matched_Components``

* Modified tests accordingly

* Clean up ``pipeline.run``, and other things

* ``pipeline.run``

  * Removed a lot of unneccessary variables

  * Output columns now stored in clearly named variables, and all
    columns are populated at the same time

  * Removed reporting of matches when there are no matches

  * General clean-up

* Other things

  * Renamed ``punctuationTreatment`` to ``punctuation_treatment``

  * Modified tests accordingly

* Increased robustness of full term matching

* Now calls new function ``map_term``

* Cleaner

* Attempts suffix addition on synonyms as well, so more robust

* Empty commit

* To test modification of coveralls setting

* Increased robustness of component matching

* Component matching now relies on the more robust ``map_term``

* Removed duplicates in ``micro_status``

* Removed unneccessary variables

* Fixed bug in ``_map_term_helper``

* Modified tests accordingly

* Cleaned up ``genomeTrackerMaster.csv``

* Removed stale code

* Docstrings

* ``match_term``

* ``_match_term_helper``

* Modify matching logic

* We want to consider suffixes last

* Also modifies some code to make adhere to PEP 8

Run Details

994 of 1110 relevant lines covered (89.55%)

0.9 hits per line

Public-Health-Bioinformatics / LexMapr / 411 / 1
86%
master: 80%

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Source Files on job 411.1 (PYTHONHASHSEED=0)

Public-Health-Bioinformatics / LexMapr / 411 / 1 86% master: 80%

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Markdown

Textile

RDoc

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Source Files on job 411.1 (PYTHONHASHSEED=0)

Public-Health-Bioinformatics / LexMapr / 411 / 1
86%
master: 80%

README BADGES
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