DeprecationWarning and AttributeError in markerMiner.py

[bslgrg00]

Hello there,
I encountered the following warnings and error while running markerMiner:

##########################################################
/public/home/bishal/soft/markerminer/./markerMiner.py:115: DeprecationWarning: 'U' mode is deprecated
in_file = open(SINGLE_COPY_IDS_FILE, 'rU')
/public/home/bishal/soft/markerminer/./markerMiner.py:135: DeprecationWarning: 'U' mode is deprecated
in_file = open(transcriptFilePaths, 'rU')

Warning: [Query 10108-10164] Query_7 AT3G08520: Could not calculate ungapped Karlin-Altschul parameters due to an invalid query sequence or its translation. Please verify the query sequence(s) and/or filtering options
...
Warning: [Query 24445-24492] Query_45 AT2G40205: Could not calculate ungapped Karlin-Altschul parameters due to an invalid query sequence or its translation. Please verify the query sequence(s) and/or filtering options

Traceback (most recent call last):
File "/public/home/bishal/soft/markerminer/./markerMiner.py", line 205, in
if ct.has_key("NA"):
AttributeError: 'Counter' object has no attribute 'has_key'
##################################################################

Thank you in advance!

Bishal

[lishuhanin]

You could try running in the Python 2.7 environment.