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vinisalazar / BioProv / 86
88%

Build:
DEFAULT BRANCH: master
Ran 22 Oct 2020 12:42AM UTC
Jobs 3
Files 23
Run time 35s
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Merge v0.1.11 (#17)

* Encapsulate BioProvDocument constructor actions into functions.

* Bump version number

* Add serializer_filter options to remove keys from serializer out

* Reformatting with Black after update

* Fixing Program.found error by adding another check to Program._getoutput()

* Adding envs on Project JSON reader

* Creating instance of EnvProv on Project JSON reader

* Added error handling for SeqFile loading

* Improve pretty printing of commands

* Improve Env constructor in Project deserializer

* Update CHANGELOG

* Bump version number

* Clearing notebook state

* Refactoring hashes with hashlib.
    - Added utils.dict_to_sha1() function
    - Removed EnvProv.env_set attribute
    - Refactored tests

* Remove unused import

* Add file_to_sha1() function

* Add sha1 attribute to File class

* Improve EnvProv JSON deserializer

* Refactor tests. Testing BioProvDocument with add_attributes=True

* Update CHANGELOG

* Improve pretty printing of commands.

* Improve default parameters of bioprov.programs.prodigal PresetProgram

* Update introduction tutorial

* Add serializer_filter method to File class

* Improve EnvProv namespace constructor

* Update introduction tutorial

* Update changelog

* Bump version number

* Add assertion to PresetProgram tests

Now tests use assertions based on the flags of the serialized program,
instead of only testing if the class can be initiated.

* Update changelog

* Fix test_Run datetime problem. Tests are more stable

* Update changelog

* Add env attribute to Run. Improve command printing

* Attribute Runs to Environments and Environments with users

* Fix test warning for literal comparison

* Improve Namespace organization for provn output

* Improve Namespace organization for provn output: adding .namespace attributes to bioprov classes

* Update changelog

Co-authored-by: jvfe <jvfecav@gmail.com>

80 of 80 new or added lines in 23 files covered. (100.0%)

1405 of 1587 relevant lines covered (88.53%)

2.66 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
100.0
bioprov/src/prov.py
2
100.0
bioprov/src/main.py
Jobs
ID Job ID Ran Files Coverage
1 86.1 22 Oct 2020 12:42AM UTC 0
88.53
Travis Job 86.1
2 86.2 22 Oct 2020 12:42AM UTC 0
88.53
Travis Job 86.2
3 86.3 22 Oct 2020 12:42AM UTC 0
88.74
Travis Job 86.3
Source Files on build 86
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  • Changed 23
  • Source Changed 23
  • Coverage Changed 6
Coverage ∆ File Lines Relevant Covered Missed Hits/Line
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