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Old 02-04-2013, 01:47 PM   #1
mattanswers
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Location: Boston

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Default error in Cufflinks v2.0.2 when using Cuffmerge

When I run Cuffmerge, I receive the following error:
You are using Cufflinks v2.0.2, which is the most recent release.
Error creating output file tmp_meta_asm.stats!
[FAILED]
Error: could not execute cuffcompare

No merged.gtf file is being produced, but genes.fpkm_tracking, isoforms.fpkm_tracking, skipped.gtf and transcritps.gtf are all being produced.

I am running on SUSE Linxux, Linux version 2.6.32.59-0.3-default.
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Old 04-01-2013, 10:06 PM   #2
sbpo
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I had the same problem when I used the option -o to specify a path to the output folder.. If I changed to the wished directory before running cuffmerge it worked (i.e. I omitted the -o option)

Soren
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Old 07-11-2014, 02:40 PM   #3
mattanswers
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Thanks. I had the same problem again, and I just re-ran the cuffmerge command in the cuffmerge output folder it had created in the first try.
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