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Old 06-16-2011, 10:00 PM   #1
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Location: Pune, India

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Default makeblastdb error while using repeat masker locally

I installed a local copy of Repeat masker on my system . However when I tried to mask repeated sequences in my genome , I get an error invoking makeblast db- something like this:

./RepeatMasker apis2noempty.fa [11:31AM]
RepeatMasker version open-3.3.0
Search Engine: NCBI/RMBLAST
Master RepeatMasker Database: /home/chipseq/Naveen/repmasker/RepeatMasker/Libraries/RepeatMaskerLib.embl ( Complete Database: 20110419 )

Building general libraries in: /home/chipseq/Naveen/repmasker/RepeatMasker/Libraries/20110419/general
RepeatMasker::createLib(): Error invoking /home/chipseq/Naveen/repmasker/rmblast/bin/makeblastdb on file /home/chipseq/Naveen/repmasker/RepeatMasker/Libraries/20110419/general/at.lib.

Can anyone help me solve this issue
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Old 09-08-2011, 10:06 AM   #2
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Needed this question myself...answer was mostly found here:
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makeblastdb repeatmasker

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