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Error: Start tag expected, '<' not found

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Error: Start tag expected, '<' not found

Hi everyone,

The program reported error after I typed in ~/rosetta/source/bin/rosetta_scripts.linuxgccrelease @options


[FILE]: src/protocols/rosetta_scripts/
[LINE]: 1203
Input rosetta scripts XML file "dock.xml" failed to validate against the rosetta scripts schema. Use the option -parser::output_schema <output filename> to output the schema to a file to see all valid options.

Error messages were:
Error: Start tag expected, '<' not found

1: This protocol will simply do low-resolution followed by high-resolution docking.
2: It will also report the binding energy (ddg) and buried-surface area (sasa) in the score file.
4:     <SCOREFXNS>
5:         <ligand_soft_rep weights=ligand_soft_rep>
6:                 <Reweight scoretype=hack_elec weight=0.42/>
Warning messages were:

However, the XML file is a copy of ~/rosetta/demos/protocol_capture/rosetta_scripts/ligand_docking/rosetta-3.2.xml, I just changed the value of coordinates.  I've examined the XML file, and I didn't find anything wrong. What's the problem? Thank you for your help!

Post Situation: 
Wed, 2022-04-06 19:45

You're attempting to use an XML of the old RosettaScripts format. (Protocol captures represent the state of the protocol at the time of the publication. They won't necessarily work exactly as-is for more recent versions of Rosetta.) There's a script to convert old scripts to the new format.

python2 Rosetta/tools/xsd_xrw/ --input dock.xml --output dock.xml

(This will rewrite it in-place.)

Thu, 2022-04-07 07:51