Odd behavior from script_usage_tests.py

[wasade]

See below. To recreate, just call script_usage_tests.py twice without arguments

$ script_usage_tests.py

This script has been deprecated in favor of the more general add_metadata.py script. add_metadata.py is part of the biom-format package, a dependency of QIIME. For more details, call:

add_metadata.py -h

Traceback (most recent call last):
File "./script_usage_tests.py", line 105, in
main()
File "./script_usage_tests.py", line 99, in main
failure_log_fp=failure_log_fp)
File "/Users/mcdonald/ResearchWork/software/qiime/qiime/test.py", line 109, in run_script_usage_tests
usage_examples = script.script_info['script_usage']
AttributeError: 'module' object has no attribute 'script_info'
16:33:04 qiime_test_data@print_metadata_stats$ script_usage_tests.py
Traceback (most recent call last):
File "./script_usage_tests.py", line 105, in
main()
File "./script_usage_tests.py", line 99, in main
failure_log_fp=failure_log_fp)
File "/Users/mcdonald/ResearchWork/software/qiime/qiime/test.py", line 117, in run_script_usage_tests
copytree(test_input_dir,test_working_dir)
File "/Users/mcdonald/lib/python2.7/shutil.py", line 174, in copytree
os.makedirs(dst)
File "/Users/mcdonald/lib/python2.7/os.py", line 157, in makedirs
mkdir(name, mode)
OSError: [Errno 17] File exists: '/tmp/script_usage_tests/add_qiime_labels'

[gregcaporaso]

I think you have two things going on here. First, you need to update your qiime_test_data repo as the add_taxa directory needs to be removed (since that script is deprecated and thus no longer implements the script_info dictionary. Then, since the run failed, the working directory '/tmp/script_usage_tests exists, so the tests fail. Both of these should result in more informative error messages, so I'll add issues for those specifically and close this one.

[gregcaporaso]

See issues #78 and #77.

[wasade]

I had done a fresh pull on qiime_test_data, but can recheck

On Thu, Dec 20, 2012 at 7:21 AM, Greg Caporaso [email protected]:

See issues #78 #78 and
#77 #77.

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