Mercurial > repos > fubar > tool_factory_2
diff toolfactory/rgToolFactory2.py @ 127:98c8a76b3638 draft
Uploaded
author | fubar |
---|---|
date | Tue, 30 Mar 2021 00:17:55 +0000 |
parents | def0f754ee1b |
children | c35ff02652bf |
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--- a/toolfactory/rgToolFactory2.py Fri Mar 26 09:29:58 2021 +0000 +++ b/toolfactory/rgToolFactory2.py Tue Mar 30 00:17:55 2021 +0000 @@ -27,15 +27,13 @@ import tempfile import time -from bioblend import ConnectionError -from bioblend import toolshed import galaxyxml.tool as gxt import galaxyxml.tool.parameters as gxtp - import lxml - import yaml +from bioblend import ConnectionError +from bioblend import toolshed myversion = "V2.2 February 2021" @@ -490,11 +488,11 @@ aninput.positional = self.is_positional if self.is_positional: if p["origCL"].upper() == "STDIN": - aparm.positional = 9999998 - aparm.command_line_override = "> $%s" % newname + aninput.positional = 9999998 + aninput.command_line_override = "> $%s" % newname else: - aparm.positional = int(p["origCL"]) - aparm.command_line_override = "$%s" % newname + aninput.positional = int(p["origCL"]) + aninput.command_line_override = "$%s" % newname self.tinputs.append(aninput) tparm = gxtp.TestParam(name=newname, value="%s_sample" % newname) self.testparam.append(tparm) @@ -990,7 +988,6 @@ src = os.path.join(self.testdir, entry.name) shutil.copyfile(src, dest) - def planemo_test_once(self): """planemo is a requirement so is available for testing but needs a different call if in the biocontainer - see above