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Zoho Payroll

Pay Run

A pay run in Zoho Payroll is the execution of payroll for a specific pay period, calculating salaries, applying deductions, generating payslips, and preparing bank transfer and statutory payment data.

A pay run in Zoho Payroll is the end-to-end process of computing salaries for all employees in a pay schedule for a defined period. It applies salary components, processes LOP, calculates statutory deductions (PF, ESI, PT, TDS), accounts for arrears and one-time payments, generates payslips, and produces the bank transfer file and statutory challan data.

Steps in a Zoho Payroll Pay Run

A typical pay run follows these steps: review and update employee attendance and LOP, add any one-time earnings or deductions (bonus, arrears), initiate the pay run for the selected schedule, review computed salaries in the draft stage, make corrections if needed, finalise the pay run to lock salaries, download the bank transfer file, and submit statutory challans. Zoho Payroll guides you through each step.

Draft vs Finalised Pay Run

Zoho Payroll separates pay runs into Draft and Finalised states. In Draft, you can review and edit individual employee salaries, add one-time components, and reverse LOP adjustments. Once finalised, the pay run is locked and payslips are published to the employee self-service portal. Reversing a finalised pay run requires admin-level access.

Pay Run and Statutory Compliance

When a pay run is finalised, Zoho Payroll generates the statutory computation: EPF contribution summary (employer and employee shares), ESI challan data, Professional Tax totals by state, and TDS computation for the month. These figures feed into the monthly challan payments and quarterly TDS returns.

Example: A payroll manager initiates the April pay run on April 28. The system shows 42 employees. She reviews 3 employees with LOP days, adds a performance bonus for 5 employees, verifies TDS computations, and finalises the run. Zoho Payroll publishes payslips, generates the NEFT file, and produces the PF and ESI challan data.
What is a Pay Run in Zoho Payroll?

A pay run is the payroll execution process in Zoho Payroll for a specific period and schedule. It calculates all employee salaries, applies deductions, generates payslips, and produces bank transfer and statutory challan data. Pay runs go through a Draft stage before being finalised.

Can a finalised pay run in Zoho Payroll be reversed?

Yes, Zoho Payroll allows admins to revert a finalised pay run if an error is found. Reverting unlocks the pay run, returns it to Draft, and unpublishes payslips. After corrections, the run can be refinalised. This capability should be used before bank transfer files are submitted.

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