Your configuration and test program look fine. I tested your Main.java and log4j2.xml configuration and it works as expected: every minute the rollover is triggered, the Delete action scans the base directory and deletes only files older than 3 minutes.
I did not create a standalone app, but tested in my IDE instead. (Looks like you are shading the log4j jar files and your class and config into a single jar. Could that cause the issue?)
After enabling log4j internal logging by changing the config to <Configuration status="TRACE" ...
, I get the following output:
- Iteration 3: no files are deleted yet: oldest file is 173 seconds old.
- Iteration 4: the oldest file is deleted.
... (startup log omitted)...
log iteration: 3
2016-01-16 14:26:23,192 main TRACE PatternProcessor.getNextTime returning 2016/01/16-14:27:00.000, nextFileTime=2016/01/16-14:26:59.000, prevFileTime=2016/01/16-14:25:59.000, current=2016/01/16-14:26:23.192, freq=EVERY_SECOND
2016-01-16 14:26:23,193 main TRACE DefaultRolloverStrategy.purge() took 0.0 milliseconds
2016-01-16 14:26:23,194 main DEBUG RollingFileManager executing synchronous FileRenameAction[c:emplogapp.log to c:emplogapp-2016-01-16-14-25-59.log, renameEmptyFiles=false]
2016-01-16 14:26:23,198 main DEBUG RollingFileManager executing async CompositeAction[DeleteAction[basePath=c:emplog, options=[], maxDepth=1, conditions=[IfFileName(glob:app-*.log), IfLastModified(age=PT3M)]]]
2016-01-16 14:26:23,199 Log4j2-2 DEBUG Starting DeleteAction[basePath=c:emplog, options=[], maxDepth=1, conditions=[IfFileName(glob:app-*.log), IfLastModified(age=PT3M)]]
2016-01-16 14:26:23,200 Log4j2-2 DEBUG DeleteAction complete in 0.001186309 seconds
2016-01-16 14:26:23,201 Log4j2-2 TRACE Sorted paths:
2016-01-16 14:26:23,201 Log4j2-2 TRACE c:emplogapp.log (modified: 2016-01-16T05:26:23.199631Z)
2016-01-16 14:26:23,201 Log4j2-2 TRACE c:emplogapp-2016-01-16-14-25-59.log (modified: 2016-01-16T05:25:30.832634Z)
2016-01-16 14:26:23,203 Log4j2-2 TRACE c:emplogapp-2016-01-16-14-24-59.log (modified: 2016-01-16T05:25:23.188525Z)
2016-01-16 14:26:23,203 Log4j2-2 TRACE c:emplogapp-2016-01-16-14-23-59.log (modified: 2016-01-16T05:23:29.466887Z)
2016-01-16 14:26:23,204 Log4j2-2 TRACE IfFileName REJECTED: 'glob:app-*.log' does not match relative path 'app.log'
2016-01-16 14:26:23,204 Log4j2-2 TRACE Not deleting base=c:emplog, relative=app.log
2016-01-16 14:26:23,205 Log4j2-2 TRACE IfFileName ACCEPTED: 'glob:app-*.log' matches relative path 'app-2016-01-16-14-25-59.log'
2016-01-16 14:26:23,205 Log4j2-2 TRACE IfLastModified REJECTED: app-2016-01-16-14-25-59.log ageMillis '52373' < 'PT3M'
2016-01-16 14:26:23,205 Log4j2-2 TRACE Not deleting base=c:emplog, relative=app-2016-01-16-14-25-59.log
2016-01-16 14:26:23,206 Log4j2-2 TRACE IfFileName ACCEPTED: 'glob:app-*.log' matches relative path 'app-2016-01-16-14-24-59.log'
2016-01-16 14:26:23,206 Log4j2-2 TRACE IfLastModified REJECTED: app-2016-01-16-14-24-59.log ageMillis '60018' < 'PT3M'
2016-01-16 14:26:23,206 Log4j2-2 TRACE Not deleting base=c:emplog, relative=app-2016-01-16-14-24-59.log
2016-01-16 14:26:23,206 Log4j2-2 TRACE IfFileName ACCEPTED: 'glob:app-*.log' matches relative path 'app-2016-01-16-14-23-59.log'
2016-01-16 14:26:23,207 Log4j2-2 TRACE IfLastModified REJECTED: app-2016-01-16-14-23-59.log ageMillis '173740' < 'PT3M'
2016-01-16 14:26:23,207 Log4j2-2 TRACE Not deleting base=c:emplog, relative=app-2016-01-16-14-23-59.log
log iteration: 4
2016-01-16 14:27:23,200 main TRACE PatternProcessor.getNextTime returning 2016/01/16-14:28:00.000, nextFileTime=2016/01/16-14:27:59.000, prevFileTime=2016/01/16-14:26:59.000, current=2016/01/16-14:27:23.200, freq=EVERY_SECOND
2016-01-16 14:27:23,201 main TRACE DefaultRolloverStrategy.purge() took 0.0 milliseconds
2016-01-16 14:27:23,202 main DEBUG RollingFileManager executing synchronous FileRenameAction[c:emplogapp.log to c:emplogapp-2016-01-16-14-26-59.log, renameEmptyFiles=false]
2016-01-16 14:27:23,204 main DEBUG RollingFileManager executing async CompositeAction[DeleteAction[basePath=c:emplog, options=[], maxDepth=1, conditions=[IfFileName(glob:app-*.log), IfLastModified(age=PT3M)]]]
2016-01-16 14:27:23,205 Log4j2-3 DEBUG Starting DeleteAction[basePath=c:emplog, options=[], maxDepth=1, conditions=[IfFileName(glob:app-*.log), IfLastModified(age=PT3M)]]
2016-01-16 14:27:23,207 Log4j2-3 DEBUG DeleteAction complete in 0.001230382 seconds
2016-01-16 14:27:23,207 Log4j2-3 TRACE Sorted paths:
2016-01-16 14:27:23,207 Log4j2-3 TRACE c:emplogapp.log (modified: 2016-01-16T05:27:23.20571Z)
2016-01-16 14:27:23,208 Log4j2-3 TRACE c:emplogapp-2016-01-16-14-26-59.log (modified: 2016-01-16T05:26:23.946671Z)
2016-01-16 14:27:23,208 Log4j2-3 TRACE c:emplogapp-2016-01-16-14-25-59.log (modified: 2016-01-16T05:25:30.832634Z)
2016-01-16 14:27:23,209 Log4j2-3 TRACE c:emplogapp-2016-01-16-14-24-59.log (modified: 2016-01-16T05:25:23.188525Z)
2016-01-16 14:27:23,209 Log4j2-3 TRACE c:emplogapp-2016-01-16-14-23-59.log (modified: 2016-01-16T05:23:29.466887Z)
2016-01-16 14:27:23,210 Log4j2-3 TRACE IfFileName REJECTED: 'glob:app-*.log' does not match relative path 'app.log'
2016-01-16 14:27:23,210 Log4j2-3 TRACE Not deleting base=c:emplog, relative=app.log
2016-01-16 14:27:23,211 Log4j2-3 TRACE IfFileName ACCEPTED: 'glob:app-*.log' matches relative path 'app-2016-01-16-14-26-59.log'
2016-01-16 14:27:23,211 Log4j2-3 TRACE IfLastModified REJECTED: app-2016-01-16-14-26-59.log ageMillis '59265' < 'PT3M'
2016-01-16 14:27:23,211 Log4j2-3 TRACE Not deleting base=c:emplog, relative=app-2016-01-16-14-26-59.log
2016-01-16 14:27:23,212 Log4j2-3 TRACE IfFileName ACCEPTED: 'glob:app-*.log' matches relative path 'app-2016-01-16-14-25-59.log'
2016-01-16 14:27:23,212 Log4j2-3 TRACE IfLastModified REJECTED: app-2016-01-16-14-25-59.log ageMillis '112380' < 'PT3M'
2016-01-16 14:27:23,212 Log4j2-3 TRACE Not deleting base=c:emplog, relative=app-2016-01-16-14-25-59.log
2016-01-16 14:27:23,213 Log4j2-3 TRACE IfFileName ACCEPTED: 'glob:app-*.log' matches relative path 'app-2016-01-16-14-24-59.log'
2016-01-16 14:27:23,213 Log4j2-3 TRACE IfLastModified REJECTED: app-2016-01-16-14-24-59.log ageMillis '120025' < 'PT3M'
2016-01-16 14:27:23,213 Log4j2-3 TRACE Not deleting base=c:emplog, relative=app-2016-01-16-14-24-59.log
2016-01-16 14:27:23,214 Log4j2-3 TRACE IfFileName ACCEPTED: 'glob:app-*.log' matches relative path 'app-2016-01-16-14-23-59.log'
2016-01-16 14:27:23,214 Log4j2-3 TRACE IfLastModified ACCEPTED: app-2016-01-16-14-23-59.log ageMillis '233748' >= 'PT3M'
2016-01-16 14:27:23,214 Log4j2-3 TRACE Deleting c:emplogapp-2016-01-16-14-23-59.log
Can you enable status logging and show your output?