That would definitely cause it.
I run that command from the TimeQuest GUI. Launch TimeQuest and then double-click on the task Report All Summaries. I recommend this as a good getting started because it runs all the major analysis for a design(once you know you only care about setup, for example, then just run Report Setup Summaries). If you want to change the timing model, go to Netlists -> Operating Conditions and change it, then re-click on Report All Summaries. For anything failing, you then right-click on the domain and do Report Timing. It will bring up the report timing dialogue box, with the clock you selected in the To Clock selection. You can modify other parameters here, which will look like the report_timing command I sent you. You can also access this command directly from the pull-down Reports -> Custom Reports -> Report Timing. This is the most important command in TimeQuest for analyzing your design, and I would recommend studying it a bit and playing with it. It's not too difficult, but worth knowing the main options.
If you do
-file "./tq/timing_report.txt" it should write out a text report in the /TQ directory. Feel free to get rid of the leading ./TQ/ but I find it helps organize the reports. You're past this so may not matter, but I use it all the time. Good luck.