Message-ID: <CAGxFJbRURyCPxsfKn=6ZQ2phjQ8usB4BpN06AoiAMzvpCZQp=A@mail.gmail.com>
Date: 2017-02-03T15:31:33Z
From: Bert Gunter
Subject: Error: long vectors (argument 1) are not supported in .Fortran
In-Reply-To: <CAALWEk3NVdWrOVyP1dC82wj4_N5VQwG3Z7riUVCc4ses4xs=rQ@mail.gmail.com>
Probably wrong list. Try the Bioconductor list instead.
Cheers,
Bert
Bert Gunter
"The trouble with having an open mind is that people keep coming along
and sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
On Fri, Feb 3, 2017 at 3:19 AM, Ankush Sharma <ankush.sak at gmail.com> wrote:
> Hi all ,
>
> I'm working on WGCNA on R-3.3.1 version to reconstruct gene -gene
> coexpression networks of 54000 probes in 230 samples on Load Sharing
> facility (Remote computing cluster). Despite memory at dispose, I'm
> encountering a error of allocation of memory at soft thresholding step or
> at TOM Similarity step. The problem of memory allocation at soft
> thresholding step was corrected by allocating the required memory using [bsub
> -R "rusage[mem=40000]".
>
> Error Message
> > # Turn adjacency into topological overlap
>
>> TOM = TOMsimilarity(adjacency);
>
> Error in TOMsimilarity(adjacency) :
>
> long vectors (argument 1) are not supported in .Fortran
>
> Calls: TOMsimilarity -> .C
>
> Execution halted
>
> Warning message:
>
> system call failed: Cannot allocate memory
>
>
> Is there a way to run build this TOMsimilarity matrix.
>
>
> Thanks
>
>
>
>
>
>
> Best Regards,
> Ankush Sharma,PhD
> Visiting CASyM Postdoctoral Research fellow (CASyM Consortium, EU-FP7)
> LISM, Institute of Clinical Physiology, Siena (Italy)
> Experimental Oncology Unit (UOS),
> I
> nstitute of Clinical Physiology
> - National Research Council,
> Siena (IT)
>
> [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.