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fix for microbial import tool

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There seems to be no UnvalidatedValue class anymore. So I removed these
checks which seems to make the tool functional again.

Note that there is one more instance of such a check in the Galaxy
sources (in tools/parameters/basic.py). I guess this can also be
removed?
This commit is contained in:
Matthias Bernt
2018-01-17 15:55:10 +00:00
committed by Nicola Soranzo
parent b91d8e1398
commit 4b2bf122b6
1 changed files with 0 additions and 5 deletions
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tools/data_source/microbial_import_code.py
-5
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@@ -101,11 +101,6 @@ def exec_after_process(app, inp_data, out_data, param_dict, tool, stdout, stderr
# if not (kingdom or group or org):
if not (kingdom or org):
print("Parameters are not available.")
# workflow passes galaxy.tools.parameters.basic.UnvalidatedValue instead of values
if isinstance(kingdom, tools.parameters.basic.UnvalidatedValue):
kingdom = kingdom.value
if isinstance(org, tools.parameters.basic.UnvalidatedValue):
org = org.value
GALAXY_DATA_INDEX_DIR = app.config.tool_data_path
microbe_info = load_microbial_data(GALAXY_DATA_INDEX_DIR, sep='\t')