Dear Galaxy Community,
I have a local instance and installed 0.5.9-r16 BWA and the toolshed
wrapper. The mapping is successful. I then use the Filter Sam Tool on the
sam file from the alignment, but it spits out this error:
*Dataset 26: Filter SAM on data 24*
Tool execution generated the
to add on this :
we have similar issues (sam-to-bam conversion fails with similar
errors). it seems to be related to the BWA output getting messed up,
with (part of) columns missing or duplicated on some lines.
I have not found a systematic pattern in the errors, they seem to happen
rather
