Hello everyone,
I've installed bbmap throw 'sudo apt-get install bbmap' and also by downloading the package, untaring it and adding the...
26 results in 0.0029 seconds.
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bbduk memory error
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How to test average CPU and memory usage
Dear All,
I'm now testing some pipelines and want to compare their performance including usage of memory and CPU.
The code... -
Trimmomatic memory use
I assume that Trimmomatic processes the reads sequentially, so I don't understand why a run with paired-end fastq input could take >10GB of memory... -
Memory efficient MEM-finding with supporting unique MEM
Hello, everyone.
There are several tools (based on MUMmer) for finding MEM (Maximal Exact Matches) with RAM usage optimization (sparseMEM,... -
Rsamtools memory leak
Hi there,
I've just updated Rsamtools to the latest version ("1.22.0") and I've noticed a weird memory leak that is crashing... -
blast "returned non-zero exit status 137" error, memory problems
Hi everyone!
I'm having trouble while running blast locally for a big database, and I hope someone can help me with this.
... -
Pindel memory usage 30x whole genome
How much memory should Pindel be using on a 30x whole genome? With the smallest window size it is using a large amount of memory even when the log says... -
BWA index error in cygwin
Hi,
I'm using Cygwin (32 bit) on win 7) for analysis.
Bwa index on hg19 gave me this output:[bwt_gen] Finished constructing BWT... -
Reduce .fa reference file
I am using the "BWA for SOLiD" tool on Galaxy. It calls for two inputs:
1) "Reference Genome": I am using mrna.fa.gz... -
HGAP error caused by blasr memory limit
Hi,
I am using HGAP for a large genome pacbio data.
I do not have cluster and our server has 64 cores & 500G mem.
In the smrt... -
The Muscle alignment
Hi,
I am trying to use Muscle to do alignment of 12 bacterial genomes in Linux 64bit OS, which was installed by Virtual Box in Win 7. However,... -
Running errors showed by BRIG
Hi all,
I am trying to learn using BRIG for genome comparative study. I followed the manual step by step. However, after submitting my... -
cuffdiff memory usage
Hi,
I updated to the latest version of Cufflinks and could not rerun my analysis with cuffdiff because of lack of memory.
I tried in a computer... -
DEXSeq memory requirements
Dear all,
I am analyzing a RNA-seq experiment with DEXSeq. There are 73 samples (from 23 different conditions).
When trying to estimate... -
Keep BLASTdb in memory
As I am trying to set up a BLAST server I stumbled across a tiny "problem".
In the future I will do many tiny blasts of a few...
