GapRecords error
Issue #42
resolved
~/workspace/changeo/GapRecords.py align -d RQ2410_SR_Norm_CHAIN\=heavy_clone-pass_parse-rename_germ-pass.tab --sf SEQUENCE --exec ~/apps/muscle3.8.31_i86linux64
Amidst a lot of sibling process errors, I think the actual error is:
TypeError: not all arguments converted during string formatting sys.stderr.write('Error processing sequence with ID: %s.\n' % data.id)
Comments (2)
-
reporter -
- changed status to resolved
The issue was that sequence fields specified by
--sf
that were not defined in IgRecord as official sequence fields were being extracted as strings instead of Seq objects.Added
IgRecord.getSeqField()
to return a field as a Seq object, regardless of column, and changed the behavior ofIgRecord.getField()
to always return a string. - Log in to comment
Same error in package branch