What needs to be done:
Samtools mpileup may softcrash and provide incorrect consensus data
GMS-artic needs to detect this, interupt the run and throw an error.
Suggestions on how to get it done:
Check the mpileup log for crash information?
Otherwise evaluate the consensus file for poly-nucleotide tails
What are the arguments for getting it done:
The error breaks results and is currently undetectable.
If we don't solve this, we may never trim down the amount of resources allocated
Task is considered finished when:
Run the self-test with minimal resources on the testdata. This should cause the error, trigger the interupt and throw the error
What needs to be done: Samtools mpileup may softcrash and provide incorrect consensus data GMS-artic needs to detect this, interupt the run and throw an error.
Suggestions on how to get it done: Check the mpileup log for crash information? Otherwise evaluate the consensus file for poly-nucleotide tails
What are the arguments for getting it done: The error breaks results and is currently undetectable. If we don't solve this, we may never trim down the amount of resources allocated
Task is considered finished when: Run the self-test with minimal resources on the testdata. This should cause the error, trigger the interupt and throw the error