Question: (Closed) HELP with IDBA error & a5pipeline
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gravatar for ccelispuga
8 months ago by
ccelispuga0
ccelispuga0 wrote:

Hi All!

I have a question in regards to the a5pipeline I am running.

Once the a5pipeline runs the contigs with IDBA, I get this error msg.

[a5_s2] Building contigs from a5test.ec.fastq with IDBA
[a5_s2] Building contigs from a5test.ec.fastq with IDBA
[a5] a5test.s2/a5test.ec.fasta has 334197532 bytes of FastA sequence data
[a5] '/Users/christinacelispuga/Desktop/a5_miseq_macOS_20160825/bin'/idba_ud500 --num_threads 4 -r a5test.s2/a5test.ec.fasta  -o a5test.s2/a5test --mink 35 --maxk 150 --min_pairs 2 
sh: line 1:  4354 Killed: 9               '/Users/christinacelispuga/Desktop/a5_miseq_macOS_20160825/bin'/idba_ud500 --num_threads 4 -r a5test.s2/a5test.ec.fasta -o a5test.s2/a5test --mink 35 --maxk 150 --min_pairs 2 > a5test.s2/idba.out
[a5] Previous IDBA-UD run failed. Trying again single-threaded.
sh: line 1:  4359 Killed: 9               '/Users/christinacelispuga/Desktop/a5_miseq_macOS_20160825/bin'/idba_ud500 --num_threads 4 -r a5test.s2/a5test.ec.fasta -o a5test.s2/a5test --mink 35 --maxk 150 --min_pairs 2 --num_threads 1 > a5test.s2/idba.out
[a5] Error building contigs with IDBA

Does anyone know how to fix this?

a5pipeline error idba help • 194 views
ADD COMMENTlink modified 8 months ago by genomax89k • written 8 months ago by ccelispuga0

Hello ccelispuga!

Questions similar to yours can already be found at:

We have closed your question to allow us to keep similar content in the same thread.

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Cheers!

ADD REPLYlink written 8 months ago by genomax89k
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