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The phrase "apply penalty for" is correct and usable in written English.
It can be used in contexts where a punishment or consequence is being enforced for a specific action or violation.
Example: "The committee decided to apply a penalty for late submissions of the report."
Alternatives: "impose a penalty for" or "levy a penalty for".
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Next, we applied penalties for response errors by recoding response latencies on trials when participants responded incorrectly as the mean reaction time (RT) for the relevant task sub-block plus 2 standard deviations.
Check with your school before applying penalties for cheating.
There are systems for applying penalties and for sharing information with the scientific community about which of its members have committed misconduct and about how they have been sanctioned.
Some come with a curfew, and apply a penalty for driving after 11pm.
Because of this risk of circular reasoning, ideally, it is, necessary to adjust the required information size by applying a penalty for the weight of data from former systematic reviews (or trials) [ 51, 78].
In submitting term grades, the instructor is expected to apply appropriate penalties for missed or incomplete work unless the late submission of the work has been authorized by the student's residential college dean or by the Committee on Honors and Academic Standing.
Once a grade is released to a student it is more difficult (but not impossible) to apply the penalties for academic misconduct and change a pass to a fail for a paper, subject or degree.
Germany's justice minister has written to Facebook calling for the platform to implement an internal "control and sanction mechanism" to ensure third-party developers and other external providers are not able to misuse Facebook data — calling for it to both monitor third party compliance with its platform policies and apply "harsh penalties" for any violations.
How can the United States provide any assistance, bearing in mind that in Spain our ethical principles do not allow us to apply the solution that you apply, the death penalty, for terrorists.... PRESIDENT BUSH -- Freedom-loving people are going to be faced with terrorism, and countries such as ours must not yield, must not waiver in the face of terrorist activity.
The federal Criminal Justice Act allows lawyers for indigent defendants facing the death penalty to apply for money for "investigative, expert or other services" that are "reasonably necessary" to assemble the kind of mitigating evidence that might persuade the jury to forgo a recommendation of death.
First, umpires need to be more stringent in applying existing penalties for slow over rates.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com