User:Lindenb/Notebook/UMR915/2012/03/09

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(Autocreate 2012/03/09 Entry for User:Lindenb/Notebook/UMR915)
Current revision (09:02, 9 March 2012) (view source)
 
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==Daily==
==Daily==
* [[User:lindenb/Notebook/UMR915/20100607|20100607]]
* [[User:lindenb/Notebook/UMR915/20100607|20100607]]
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stackoverflow error in bwa aln.
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Is it a problem of version ? rebuilding the genome index:
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<pre>(...)[BWTIncConstructFromPacked] 670 iterations done. 6154206942 characters processed.
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[BWTIncConstructFromPacked] 680 iterations done. 6177547390 characters processed.
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[bwt_gen] Finished constructing BWT in 687 iterations.
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[bwa_index] 5783.06 seconds elapse.
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[bwa_index] Update BWT... 31.53 sec
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[bwa_index] Pack forward-only FASTA... 61.74 sec
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[bwa_index] Construct SA from BWT and Occ... 2587.15 sec
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[main] Version: 0.6.1-r104
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[main] CMD: /usr/local/package/bwa-0.6.1/bwa index -a bwtsw /GENOTYPAGE/data/pubdb/ucsc/hg19/chromosomes/hg19.fa
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[main] Real time: 8550.873 sec; CPU: 8535.225 sec</pre>

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stackoverflow error in bwa aln. Is it a problem of version ? rebuilding the genome index:

(...)[BWTIncConstructFromPacked] 670 iterations done. 6154206942 characters processed.
 [BWTIncConstructFromPacked] 680 iterations done. 6177547390 characters processed.
[bwt_gen] Finished constructing BWT in 687 iterations.
[bwa_index] 5783.06 seconds elapse.
[bwa_index] Update BWT... 31.53 sec
[bwa_index] Pack forward-only FASTA... 61.74 sec
[bwa_index] Construct SA from BWT and Occ... 2587.15 sec
[main] Version: 0.6.1-r104
[main] CMD: /usr/local/package/bwa-0.6.1/bwa index -a bwtsw /GENOTYPAGE/data/pubdb/ucsc/hg19/chromosomes/hg19.fa
[main] Real time: 8550.873 sec; CPU: 8535.225 sec



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