Error during MIGEC CDR BLAST

[RaviDandekar]

Currently, we are running MIGEC on our data, which has already been demultiplexed. To account for this we modified the barcode input (in barcodes.txt) as shown bellow.

[sample ID] CAGTGgtatcaacgcagagtNNNNtNNNNtNNNNtct ATTGggcagccctgatt

This scheme has worked for all of our samples so far. There is only one sample that is giving us an issue.

I believe the error, displayed in the image attached, occurred during the CDR BLAST. It was able to run through MIGEC's Checkout, Histogram and AssembleBatch commands.

Please let me know how I can best deal with this issue. Thank you.

[mikessh]

Hello, it looks like there is insufficient memory for the JVM. You can fix it by increasing the available memory with, say, -Xmx40G option as follows:

java -jar -Xmx40G migec.jar ...

or if you're running with the shell wrapper

migec -Xmx40G ...

[RaviDandekar]

Thank you for your help! That fixed everything.