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Paychex Flex Export Guide

Instructions on how to set up the Paychex Flex export so you can easily import the file into your Paychex software

Dennis avatar
Written by Dennis
Updated over 2 months ago

Setting up the Paychex Flex export begins with the Payroll Snapshot as it creates the Paychex Flex export. The Payroll Snapshot is a powerful feature that calculates regular and overtime hours for any pay period (including overtime with semi-monthly payroll, over 8 hours in a day, and 7th consecutive day—California overtime).

Easy One-time Payroll Snapshot Setup

Go to Snapshot Settings>Payroll Settings> Default Pay Types

Default Pay Types

For regular and overtime1 and overtime2, all required fields. The names of the Pay Types must match Paychex’s names for pay codes.

  • Regular Pay Type Description

If you do not pay overtime, check the Overtime Exempt box

  • Overtime 1 and Overtime2

Work Week Settings

  • Set which day of the week and time of day the work week starts (12:00am is the default time.) (required)

  • Check the box for weekly overtime if applicable

  • Select the Expanded Overtime Settings that apply to your state’s laws.

  • If timecards are to be split at the work week start time, check the Timecard Settings box to enable splitting time cards.

Export Settings

Payroll Export Type>Manual >Save

Paychex Setup

Client ID

Enter your Paychex Client ID at My Account, Company Setup, External Code 1.

Employee Identifier Codes

  • Paychex has assigned employee identifiers for each employee (this number should be different than the Chronotek employee access codes). If these unique IDs are not set in your Paychex processor, populate them there and copy/paste them into your Chronotek account.

  • Go to List Maintenance>Employees >Employee Name >Advanced Tab>Enter Payroll Employee Identifier in the External Code 1 field >Save

Paychex Org/Dept. Code

Enter the Paychex Org/Dept. Code in Chronotek. Go to List Maintenance > Jobs > click on the job name > Advanced tab > enter the job’s Paycom code in the External Code 3 field > Save.

Each Pay Period

Prepare Chronotek Timecards and Create Payroll Snapshot

  1. Go to Payroll Functions >Change Payroll Period > Change date to reflect current payroll processing

  2. Payroll Functions > Edit Time Cards and make necessary corrections to time cards

  3. Payroll Functions > Payroll Snapshot > New Snapshot

  4. Payroll Functions > Payroll Snapshot > Select the generated Snapshot> Exports Tab

  5. Select Paychex Flex from the dropdown list > click the green .csv button to download it. Then, import it into your Paychex software.

Contact your Paychex representative for instructions on importing the Paychex Flex export file into their software.

Other Payroll Snapshot information Tabs

Payroll Functions > Payroll Snapshot > Select the generated Snapshot>

General Tab

If you edit your time cards, delete the Snapshot and run it again. The General tab also shows the snapshot information – status, number of timecards, hours calculated, creation date, and user that created the snapshot.

Summary Tab

Employee Summary of Pay Type hours, Overtime hours, and total hours worked.

Exports Tab

Go here to review the payroll calculations before sending to payroll. Select the Paychex export and download it.

Settings Tab

Shows which Payroll Settings were set at the time the snapshot was created.

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