Hi ,all
I have used tophat-fusion to find the fusion mRNAs with six libs of paired end solexa fastq data, five of them worked well, and one have some errors, bellow is the error information:
[Mon Jul 25 11:36:56 2011] Checking for Bowtie index files
[Mon Jul 25 11:36:57 2011] Checking for reference FASTA file
[Mon Jul 25 11:36:57 2011] Checking for Bowtie
Bowtie version: 0.12.7.0
[Mon Jul 25 11:36:57 2011] Checking for Samtools
Samtools Version: 0.1.16
[Mon Jul 25 11:36:58 2011] Checking reads
min read length: 100bp, max read length: 100bp
format: fastq
quality scale: phred64 (reads generated with GA pipeline version >= 1.3)
...
[Mon Jul 25 15:24:09 2011] Searching for junctions via segment mapping
[Mon Jul 25 15:35:34 2011] Retrieving sequences for splices
[Mon Jul 25 15:35:47 2011] Indexing splices
[Mon Jul 25 15:37:04 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 15:49:21 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 16:02:00 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 16:15:30 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 16:28:41 2011] Joining segment hits
[Mon Jul 25 16:36:34 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 16:51:05 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 17:06:34 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 17:21:41 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 17:36:42 2011] Joining segment hits
[Mon Jul 25 17:45:24 2011] Reporting output tracks
[FAILED]
Error: Report generation failed with err =-6
How I can fix this problem?
I have used tophat-fusion to find the fusion mRNAs with six libs of paired end solexa fastq data, five of them worked well, and one have some errors, bellow is the error information:
[Mon Jul 25 11:36:56 2011] Checking for Bowtie index files
[Mon Jul 25 11:36:57 2011] Checking for reference FASTA file
[Mon Jul 25 11:36:57 2011] Checking for Bowtie
Bowtie version: 0.12.7.0
[Mon Jul 25 11:36:57 2011] Checking for Samtools
Samtools Version: 0.1.16
[Mon Jul 25 11:36:58 2011] Checking reads
min read length: 100bp, max read length: 100bp
format: fastq
quality scale: phred64 (reads generated with GA pipeline version >= 1.3)
...
[Mon Jul 25 15:24:09 2011] Searching for junctions via segment mapping
[Mon Jul 25 15:35:34 2011] Retrieving sequences for splices
[Mon Jul 25 15:35:47 2011] Indexing splices
[Mon Jul 25 15:37:04 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 15:49:21 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 16:02:00 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 16:15:30 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 16:28:41 2011] Joining segment hits
[Mon Jul 25 16:36:34 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 16:51:05 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 17:06:34 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 17:21:41 2011] Mapping reads against segment_juncs with Bowtie
[Mon Jul 25 17:36:42 2011] Joining segment hits
[Mon Jul 25 17:45:24 2011] Reporting output tracks
[FAILED]
Error: Report generation failed with err =-6
How I can fix this problem?
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