I am running HTseq-count on galaxy cloud on some BAM files generated from galaxy Tophat. But I got some error in several files (9-10G BAM), 2-5G BAM seems OK. Does HTseq need a lot of space to run?
I am not sure what I should do next, your advice are appreciated.
Fatal error: Unknown error occured 100000 GFF lines processed. 200000 GFF lines processed. .. ..
37100000 SAM alignment record pairs processed. Error occured when processing SAM input (record #77273454 in file /mnt/galaxy/files/000/dataset_420.dat): Maximum alignment buffer size exceeded while pairing SAM alignments. [Exception type: ValueError, raised in __init__.py:671]