choderalab / assaytools

Modeling and Bayesian analysis of fluorescence and absorbance assays.
http://assaytools.readthedocs.org
GNU Lesser General Public License v2.1
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xml2png python 3.6 travis tests are failing #135

Closed jchodera closed 5 years ago

jchodera commented 5 years ago

The python 3.6 travis tests are failing for xml2png:

2.49s$ pushd . && cd examples/direct-fluorescence-assay/data && xml2png --type singlet_384 p38*.xml && popd
~/build/choderalab/assaytools ~/build/choderalab/assaytools
['p38_singlet1_20160420_153238.xml', 'p38_singlet2_20160420_154750.xml']
*** --type: analyzing singlet_384 file(s) ***
****This script is about to make png files for 2 xml files. ****
****The xml file p38_singlet1_20160420_153238.xml has 10 data sections:****
dict_keys(['280_480_TOP_100', '280_480_BOT_100', '280_480_TOP_120', '280_480_BOT_120', '340_480_TOP_100', '340_480_BOT_100', '340_480_TOP_120', '340_480_BOT_120', '280_340_TOP_100', '280_340_BOT_100'])
Traceback (most recent call last):
  File "/Users/travis/miniconda3/envs/test/bin/xml2png", line 11, in <module>
    sys.exit(entry_point())
  File "/Users/travis/miniconda3/envs/test/lib/python3.6/site-packages/assaytools/scripts/xml2png.py", line 489, in entry_point
    process_files_singlet(xml_files)
  File "/Users/travis/miniconda3/envs/test/lib/python3.6/site-packages/assaytools/scripts/xml2png.py", line 476, in process_files_singlet
    plot_singlet_one_section(data,key)
  File "/Users/travis/miniconda3/envs/test/lib/python3.6/site-packages/assaytools/scripts/xml2png.py", line 427, in plot_singlet_one_section
    axes[int(i/2)].set_color_cycle(['black','red'])
AttributeError: 'AxesSubplot' object has no attribute 'set_color_cycle'

This is easy to fix, and the python 3.5 tests give a deprecation warning that contains the solution:

/Users/travis/miniconda3/envs/test/lib/python3.5/site-packages/assaytools/scripts/xml2png.py:427: MatplotlibDeprecationWarning: 
The set_color_cycle function was deprecated in version 1.5. Use `.set_prop_cycle` instead.
sonyahanson commented 5 years ago

Think this was fixed here: https://github.com/choderalab/assaytools/pull/133/commits/9fdb55fb15562a6dc5b4b5ca8d49be89e05f7979