Error "java.util.zip.ZipException: duplicate entry: stamp-cert-sha256" when rebuilding APK

[biggestsonicfan]

Greetings. I am extracting and rebuilding an APK without modification and I get the following error:
java.util.zip.ZipException: duplicate entry: stamp-cert-sha256

java -jar apktool.jar d -r -s base.apk is used to extract the APK
java -jar apktool.jar b -c -o base-mod.apk base is used to rebuild it as base-mod.apk

Flags -r -s are used as an example to indicate I am not modifying either, but the result is the same if I omit these flags.

[iBotPeaches]

Can I get an output of zip -l {apk} | grep 'stamp-cert'?

[biggestsonicfan]

Ah, I'm lacking some important info in the OP that I'm attempting this on Windows but I use Linux a lot via WSL.
zip -l base.apk | grep 'stamp-cert' returned nothing, as the -l flag for zip is the compress faster option.
unzip -l base.apk | grep 'stamp-cert' returned one result:
32 1981-01-01 01:01 stamp-cert-sha256

[iBotPeaches]

My guess is -c (copy original) is keeping the stamp-cert, while getting generated by something (?). Leading to that error.

[biggestsonicfan]

Just tested java -jar apktool.jar b -o base-mod.apk base, same error.

[iBotPeaches]

Okay, not sure then. If you can share it and fill out the bug report template. I can add it to my backlog :)

[biggestsonicfan]

Ah, actually manually searching the extracted files instead of listing the apk, stamp-cert-sha256 is in both the original and unknown directories!