Entering edit mode
Dear Xianyong,
Thanks for the feedback!
Regarding the error you got, it seems to be a memory issue. Could you
please take a look at the post at http://www.mail-
archive.com/r-help@stat.math.ethz.ch/msg91461.html? I am ccing the
list to get input from the experts in memory setting and management.
Best regards,
Julie
On 5/4/12 3:07 PM, "Ma, Xian-Yong" <xian-yong.ma@yale.edu> wrote:
Hi, Dear Dr.Zhu:
I got nice results by using your software, and I am still using this
soft ware to analyze other data, now I have the following problem and
tried two days, I
can't figured out, would you please help me to solve this problem, I
am really appreciate! since the file is bigger than 60 Mb (after
compressed), I can't send it
directly.
When I used the CHIPAnno software to analysis my data, as problem
always exist as following:
> test1.bed=read.table("/Users/xm5/Downloads/ChIPpeakAnno/data/CHIPJ3.
bed", sep="\t", skip=0, header=FALSE)
> CHIPJ3 = BED2RangedData(test1.bed, header=FALSE)
> data(TSS.human.GRCh37)
> annotatedPeak = annotatePeakInBatch(CHIPJ3,
AnnotationData=TSS.human.GRCh37)
Error: cannot allocate vector of size 14.4 Mb
R(365,0xa0416540) malloc: *** mmap(size=15118336) failed (error
code=12)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
I don't know what's reason, and I checked the file using other
program, it looks OK, would you please help me to figure out, I
appreciate your nice help please see the
attached file that I used for this analysis.
Best wishes,
Xianyong
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