Python 3 compatibility (using python-modernize.py to get started) #26

phantomas1234 · 2015-03-30T09:25:05Z

No description provided.

…s (still a few unit tests failing).

coveralls · 2015-03-30T09:36:23Z

Coverage increased (+0.77%) to 51.1% when pulling 5da00d0 on python3_through_modernize into 974abf7 on devel.

…rk with '3.4'

coveralls · 2015-03-30T09:41:49Z

Coverage increased (+0.77%) to 51.1% when pulling 5da00d0 on python3_through_modernize into 974abf7 on devel.

coveralls · 2015-03-30T09:55:02Z

Coverage increased (+0.77%) to 51.1% when pulling 374f0c6 on python3_through_modernize into 974abf7 on devel.

…ays.

coveralls · 2015-03-30T10:14:13Z

Coverage increased (+0.77%) to 51.1% when pulling b8f05e1 on python3_through_modernize into 974abf7 on devel.

coveralls · 2015-03-30T10:21:14Z

Coverage increased (+0.77%) to 51.1% when pulling b8f05e1 on python3_through_modernize into 974abf7 on devel.

coveralls · 2015-03-30T10:28:39Z

Coverage increased (+0.77%) to 51.1% when pulling b8f05e1 on python3_through_modernize into 974abf7 on devel.

coveralls · 2015-03-30T11:39:11Z

Coverage increased (+0.77%) to 51.1% when pulling 8c899a9 on python3_through_modernize into 974abf7 on devel.

…ments.txt

coveralls · 2015-03-30T14:29:38Z

Coverage increased (+0.77%) to 51.1% when pulling e478500 on python3_through_modernize into 974abf7 on devel.

…ments in requirements.txt

…s in requirements.txt. So, I removed the python 3 incompatible progressbar-ipython

coveralls · 2015-03-30T19:42:26Z

Coverage increased (+0.77%) to 51.1% when pulling f3cd432 on python3_through_modernize into 974abf7 on devel.

… doesn't work for py3)

coveralls · 2015-03-31T08:24:32Z

Coverage increased (+0.77%) to 51.1% when pulling 976327d on python3_through_modernize into 974abf7 on devel.

coveralls · 2015-03-31T08:57:13Z

Coverage increased (+0.77%) to 51.1% when pulling 7132ddc on python3_through_modernize into 974abf7 on devel.

…eo into python3_through_modernize Conflicts: .travis.yml

coveralls · 2015-03-31T19:10:13Z

Coverage increased (+0.81%) to 50.67% when pulling 9f9c81c on python3_through_modernize into a366975 on devel.

…king/escher#94).

…3 issue fixed). Also, install glpk with apt-get to provide cobrapy with glpk.h (hopefully).

coveralls · 2015-04-01T08:24:00Z

Coverage increased (+0.78%) to 50.64% when pulling 519d35f on python3_through_modernize into a366975 on devel.

coveralls · 2015-04-01T10:06:29Z

Coverage increased (+0.94%) to 50.8% when pulling 6ef7d07 on python3_through_modernize into a366975 on devel.

…eo into python3_through_modernize

coveralls · 2015-04-01T13:41:29Z

Coverage increased (+0.9%) to 50.791% when pulling 7cc03bd on python3_through_modernize into a366975 on devel.

coveralls · 2015-04-07T07:06:25Z

Coverage increased (+0.92%) to 50.78% when pulling 96e6b38 on python3_through_modernize into a366975 on devel.

More testing to assert correct types.

…eo into python3_through_modernize

Conflicts: cameo/flux_analysis/distance.py

coveralls · 2015-04-07T11:20:53Z

Coverage increased (+2.7%) to 51.92% when pulling 9da85d9 on python3_through_modernize into ec0f80c on devel.

Python 3 compatibility (using python-modernize.py to get started)

Big messy commit after applying python-modernize.py and a lot of fixe…

20d03e7

…s (still a few unit tests failing).

phantomas1234 mentioned this pull request Mar 30, 2015

Make cameo python 3.4 compatible #24

Closed

Added 3.4 to .travis.yml (also added six to requirements).

5da00d0

in .travis.yml, it looks like 'system_site_packages: true' doesn't wo…

374f0c6

…rk with '3.4'

phantomas1234 added 3 commits March 30, 2015 12:02

python-glpk is no longer needed and doesn't work with python 3.4 anyw…

397c842

…ays.

updated cobra requirement from 0.3.1 to 0.3.2

cb82d1b

install pyzmq from scratch (no wheel for 3.4).

b8f05e1

phantomas1234 added 2 commits March 30, 2015 12:51

install pandas and bokeh from scratch as well (no wheel for 3.4).

55b572a

install pandas and bokeh from scratch as well (no wheel for 3.4).

8c899a9

install python 3 compatible progressbar before pip install -r require…

e478500

…ments.txt

phantomas1234 added 3 commits March 30, 2015 20:41

in .travis.yml, maybe we can get away with not installing the require…

8ba2b7b

…ments in requirements.txt

in .travis.yml, we can't get away with not installing the requirement…

cee5fb1

…s in requirements.txt. So, I removed the python 3 incompatible progressbar-ipython

conditional progressbar installation ...

f3cd432

Install inspyred from universal wheel (pip install inspyred currently…

976327d

… doesn't work for py3)

Add missing solver dependencies for cobrapy under python3.4

7132ddc

phantomas1234 added 3 commits March 31, 2015 20:11

Merge devel (with a few adjustments)

c65ef9a

Merge branch 'python3_through_modernize' of github.com:biosustain/cam…

4aef7c6

…eo into python3_through_modernize Conflicts: .travis.yml

no more bokeh

9f9c81c

phantomas1234 added 2 commits April 1, 2015 09:56

Install escher from patched wheel while py3 issue persists (zakandrew…

3337b20

…king/escher#94).

Put escher import (temporarily) inside draw_knockout_result (until py…

519d35f

…3 issue fixed). Also, install glpk with apt-get to provide cobrapy with glpk.h (hopefully).

phantomas1234 and others added 3 commits April 1, 2015 10:38

Removed py3 incompatible 'from Queue import Empty'

f794f34

Make solution tuple comparators py3 compatible.

304ca46

Extend tests to validate the new comparator

6ef7d07

Merge branch 'python3_through_modernize' of github.com:biosustain/cam…

7cc03bd

…eo into python3_through_modernize

phantomas1234 added 2 commits April 4, 2015 15:19

Install development version of cobrapy (until 0.4 is released).

5907a18

Install cython>=0.21 for cobra>=0.4

96e6b38

the-code-magician and others added 3 commits April 7, 2015 10:05

Fix retrieve objects from queue.

45c78df

More testing to assert correct types.

Merge branch 'python3_through_modernize' of github.com:biosustain/cam…

d8c8b9b

…eo into python3_through_modernize

Merge branch 'devel' into python3_through_modernize

9da85d9

Conflicts: cameo/flux_analysis/distance.py

phantomas1234 added a commit that referenced this pull request Apr 7, 2015

Merge pull request #26 from biosustain/python3_through_modernize

5aabcc4

Python 3 compatibility (using python-modernize.py to get started)

phantomas1234 merged commit 5aabcc4 into devel Apr 7, 2015

phantomas1234 deleted the python3_through_modernize branch July 28, 2015 11:05

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Python 3 compatibility (using python-modernize.py to get started) #26

Python 3 compatibility (using python-modernize.py to get started) #26

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Python 3 compatibility (using python-modernize.py to get started) #26

Python 3 compatibility (using python-modernize.py to get started) #26

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