I am running tophat on a test reads and got the following error,
Thu Apr 29 16:48:07 2010] Beginning TopHat run (v1.0.13)
-----------------------------------------------
[Thu Apr 29 16:48:07 2010] Preparing output location ./tophat_out/
[Thu Apr 29 16:48:07 2010] Checking for Bowtie index files
[Thu Apr 29 16:48:07 2010] Checking for reference FASTA file
[Thu Apr 29 16:48:07 2010] Checking for Bowtie
Bowtie version: 0.12.5.0
[Thu Apr 29 16:48:07 2010] Checking reads
seed length: 101bp
format: fastq
quality scale: phred33 (default)
[FAILED]
Error: could not execute prep_reads
The prep_reads.log file has this information,
rep_reads v1.0.13
---------------------------
Saw ASCII character 10 but expected 33-based Phred qual.
terminate called after throwing an instance of 'int'
I looked through data and the only ASCII character 10s I could find are the newlines at the end of each line. The test data is attached. Can someone help?
Thu Apr 29 16:48:07 2010] Beginning TopHat run (v1.0.13)
-----------------------------------------------
[Thu Apr 29 16:48:07 2010] Preparing output location ./tophat_out/
[Thu Apr 29 16:48:07 2010] Checking for Bowtie index files
[Thu Apr 29 16:48:07 2010] Checking for reference FASTA file
[Thu Apr 29 16:48:07 2010] Checking for Bowtie
Bowtie version: 0.12.5.0
[Thu Apr 29 16:48:07 2010] Checking reads
seed length: 101bp
format: fastq
quality scale: phred33 (default)
[FAILED]
Error: could not execute prep_reads
The prep_reads.log file has this information,
rep_reads v1.0.13
---------------------------
Saw ASCII character 10 but expected 33-based Phred qual.
terminate called after throwing an instance of 'int'
I looked through data and the only ASCII character 10s I could find are the newlines at the end of each line. The test data is attached. Can someone help?
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