Hi,
I'm experiencing some strange problems with the fastq groomer.
Trying to groom my files I get the following error:
"Traceback (most recent call last):
File "/galaxy/home/g2main/galaxy_main/tools/fastq/fastq_groomer.py", line 37,
in
if __name__ == "__main__": main()
File "/galaxy/home/g2main/galaxy_main/tools/fastq/fastq_groomer.py", line 18,
in main
for read_count, fastq_read in enumerate( fastqReader( open( input_filename
), format = input_type ) ):
File "/galaxy/home/g2main/galaxy_main/lib/galaxy_utils/sequence/fastq.py",
line 452, in __iter__
yield self.next()
File "/galaxy/home/g2main/galaxy_main/lib/galaxy_utils/sequence/fastq.py",
line 448, in next
rval.assert_sequence_quality_lengths()
File "/galaxy/home/g2main/galaxy_main/lib/galaxy_utils/sequence/fastq.py",
line 142, in assert_sequence_quality_lengths
assert qual_len == seq_len, "Invalid FASTQ file: quality score length (%i) does
not match sequence length (%i)" % ( qual_len, seq_len )
AssertionError: Invalid FASTQ file: quality score length (63) does not match
sequence length (36)"
I've double checked the file and it should be ok.
Any ideas?
thx,
Felix
_______________________________________________
The Galaxy User list should be used for the discussion of Galaxy analysis and
other features on the public server at usegalaxy.org. For discussion of local
Galaxy instances and the Galaxy source code, please use the Galaxy Development
list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the
interface at:
http://lists.bx.psu.edu/
