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Old 02-10-2010, 10:26 AM   #1
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Default Tophat - Error using Paired End

I tried using Tophat for paired end analysis.

[Tue Feb 9 23:26:32 2010] Mapping reads against m_musculus with Bowtie
[Tue Feb 9 23:46:06 2010] Joining segment hits
[Tue Feb 9 23:53:48 2010] Mapping reads against m_musculus with Bowtie
[Tue Feb 10 00:13:47 2010] Joining segment hits
[Tue Feb 10 00:20:47 2010] Searching for junctions via segment mapping
Warning: junction database is empty!
[Tue Feb 10 01:40:00 2010] Joining segment hits
IOError: [Errno 28] No space left on drive

Are these two separate errors? I'm going to try repartitioning so my harddrive has more space but I would have thought that ~30Gb would have been more than sufficient. Does paired-end analysis require that much more space? I've run non paired end samples successfully with Tophat on the same machine.

If anyone can help, thanks!
jling is offline   Reply With Quote

database, empty, junction, paired end, tophat

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