Fixes https://sentry.galaxyproject.org/sentry/main/issues/501741/:
```
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xd7 in position 77: invalid continuation byte
File "galaxy/web/framework/middleware/sentry.py", line 43, in __call__
iterable = self.application(environ, start_response)
File "/cvmfs/main.galaxyproject.org/venv/lib/python3.6/site-packages/paste/recursive.py", line 85, in __call__
return self.application(environ, start_response)
File "galaxy/web/framework/middleware/statsd.py", line 34, in __call__
req = self.application(environ, start_response)
File "/cvmfs/main.galaxyproject.org/venv/lib/python3.6/site-packages/paste/httpexceptions.py", line 640, in __call__
return self.application(environ, start_response)
File "galaxy/web/framework/base.py", line 143, in __call__
return self.handle_request(environ, start_response)
File "galaxy/web/framework/base.py", line 222, in handle_request
body = method(trans, **kwargs)
File "galaxy/web/framework/decorators.py", line 57, in call_and_format
rval = func(self, trans, *args, **kwargs)
File "galaxy/webapps/galaxy/api/genomes.py", line 41, in show
region = self.app.genomes.reference(trans, dbkey=id, chrom=chrom, low=low, high=high)
File "galaxy/visualization/genomes.py", line 395, in reference
twobit = TwoBitFile(open(twobit_file_name))
File "bx/seq/twobit.py", line 56, in __init__
strng = file.read(TWOBIT_MAGIC_SIZE)
File "python3.6/codecs.py", line 321, in decode
(result, consumed) = self._buffer_decode(data, self.errors, final)
```
Also:
- dos2unix test/functional/tools/for_workflows/head.xml
- Single-quote text and data params in `<command/>`
- Remove deprecated `interpreter` attribute of `<command />`
liftOver loc file handling is problematic (https://trello.com/c/A6I6zQvF). If it weren't this wouldn't be a problem. I could fix the API functional test framework to mimic the older form driven approach but it would take a week and would be rendered moot by fixing liftOver. Unfortunately, fixing liftOver would likely break a lot of existing workflows and tool reruns so I am not fixing that either.
Only option left, admittedly a crappy one, is to comment out the tests.
Cannot delete or modify previous output file - it is used as input for another tool. Use assertion testing to weaken test case. As this tool is migrated to the tool shed the hg17 test cases should probably be eliminated completely.
Dannon Baker