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Point release for peppy #301

Merged
merged 58 commits into from
May 2, 2019
Merged

Point release for peppy #301

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4e9ef1c
safer messaging
vreuter Apr 18, 2019
27ee885
udpate based on attmap dev
vreuter Apr 19, 2019
4939659
use more divvy
vreuter Apr 23, 2019
9e237d8
Merge branch 'master' of github.com:pepkit/peppy into dev
vreuter Apr 23, 2019
1a0c877
autodoc
nsheff Apr 23, 2019
ef4c8d9
split missing/empty errors to be more precise
nsheff Apr 23, 2019
7f75213
bump reqs
vreuter Apr 23, 2019
8f95514
adjust deps versions
vreuter Apr 24, 2019
179f97c
whitespacing
vreuter Apr 25, 2019
8655236
hook for CLI optsargs precedence; improve docstring; https://github.c…
vreuter Apr 25, 2019
9696d47
export pipe args key
vreuter Apr 25, 2019
9eef796
refine signature
vreuter Apr 26, 2019
56d4bba
first pass at SnakeProject; #286
vreuter Apr 26, 2019
d1198ae
export snakemake stuff
vreuter Apr 26, 2019
ca15d9e
update tests for snakemake export
vreuter Apr 26, 2019
ab3c40d
safe check for subannotations; readability
vreuter Apr 26, 2019
fd596b2
amid Snakemake compat; all tests back to passing on py2 and py3
vreuter Apr 26, 2019
70c1271
better messaging
vreuter Apr 29, 2019
012a499
better messaging
vreuter Apr 29, 2019
c6b6200
avoid deprecation warning
vreuter Apr 29, 2019
ef1367d
bring in augmented logger util from looper
vreuter Apr 29, 2019
599c100
try updated sample construction; all tests passing
vreuter Apr 29, 2019
c59b67f
handling sample merger for both peppy and Snakemake
vreuter Apr 29, 2019
8700336
ensure that units are text, not numeric
vreuter Apr 29, 2019
d9a0a97
Update build ignores
nsheff Apr 29, 2019
b526447
ensure indexing
vreuter Apr 29, 2019
c51be41
better modularity; regard empty strings as null; improve messaging
vreuter Apr 29, 2019
1780840
update tests for better DataFrame comparison
vreuter Apr 29, 2019
cfc14e7
Merge branch 'dev' of github.com:pepkit/peppy into sm_prj
vreuter Apr 29, 2019
a506f95
cleanup and comment
vreuter Apr 29, 2019
3f638cf
ensure index type; close #297
vreuter Apr 30, 2019
aea20b5
depend on ubiquerg
vreuter Apr 30, 2019
f230abd
test shell for snake project
vreuter Apr 30, 2019
3181bad
moving utils
vreuter May 1, 2019
4a625c7
remove outdated error attr ref; acct for inheritance in py3
vreuter May 1, 2019
32aa45b
move to dev
vreuter May 2, 2019
6c97ef1
Merge pull request #289 from vreuter/sm_prj
vreuter May 2, 2019
448ee0d
no longer track docs
vreuter May 2, 2019
cba4174
update import path
vreuter May 2, 2019
b133e55
safer sample selection; #298; fix docstring
vreuter May 2, 2019
afbc47f
Merge pull request #300 from vreuter/select-cli
vreuter May 2, 2019
07d4ad6
use ubiquerg powerset
vreuter May 2, 2019
7439175
Update _version.py
nsheff May 2, 2019
bfba892
Update changelog.md
nsheff May 2, 2019
4c2ed59
Update README.md
nsheff May 2, 2019
f70b417
standardize changelog
nsheff May 2, 2019
85aad9b
Update changelog.md
nsheff May 2, 2019
3590182
Snakemake casing
vreuter May 2, 2019
65aff23
reignore build
vreuter May 2, 2019
6d493ea
Merge branch 'dev' of github.com:pepkit/peppy into dev
vreuter May 2, 2019
1ee0025
update changelog for 0.21 release
vreuter May 2, 2019
0732105
trigger rtd rebuild of peppy
vreuter May 2, 2019
2c86962
Revert "trigger rtd rebuild of peppy"
vreuter May 2, 2019
274ce5d
fool RTD
vreuter May 2, 2019
d235253
fool RTD
vreuter May 2, 2019
2988b17
RTD knows about deps now
vreuter May 2, 2019
8d38a2d
better changelog itemization
vreuter May 2, 2019
8eddb27
probably need to maintain new reqs in docs until new peppy is on pypi
vreuter May 2, 2019
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3 changes: 0 additions & 3 deletions .gitignore
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Expand Up @@ -9,9 +9,6 @@ tests/test/*
# ignore eggs
.eggs/

# ignore built docs
doc/build/*

# generic ignore list:
*.lst

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2 changes: 1 addition & 1 deletion README.md
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Expand Up @@ -8,6 +8,6 @@

Links to complete documentation:

* Complete documentation and API for the `peppy` python package is at [code.databio.org/peppy](http://code.databio.org/peppy/).
* Complete documentation and API for the `peppy` python package is at [peppy.databio.org](http://peppy.databio.org).
* Reference documentation for standard **PEP** format is at [pepkit.github.io](https://pepkit.github.io/).
* Example PEPs for testing `peppy` are in the [example_peps repository](https://github.com/pepkit/example_peps).
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