I am trying to use Chicago for analysis of CaptureC data. However, when I am running chicagoPipeline, I am getting an error message (see below). Do you have any idea why this and how I can fix it? I have not found the source code for estimateTechnicalNoise, otherwise I guess that I could just make the suggested changes (i. e. allow.cartesian)?
Thanks a lot for your help Best wishes Angelika Feldmann
*** Running estimateTechnicalNoise...
Estimating technical noise based on trans-counts...
Binning baits based on observed trans-counts...
Defining interaction pools and gathering the observed numbers of trans-counts per pool...
Computing the total number of possible interactions per pool...
Preparing the data.....Error in vecseq(f__, len__, if (allow.cartesian || notjoin) NULL else as.integer(max(nrow(x), :
Join results in 52261470 rows; more than 27846218 = max(nrow(x),nrow(i)). Check for duplicate key values in i, each of which join to the same group in x over and over again. If that's ok, try including
j and dropping
by (by-without-by) so that j runs for each group to avoid the large allocation. If you are sure you wish to proceed, rerun with allow.cartesian=TRUE. Otherwise, please search for this error message in the FAQ, Wiki, Stack Overflow and datatable-help for advice.
sessionInfo() R version 3.2.1 (2015-06-18) Platform: x86_64-unknown-linux-gnu (64-bit) Running under: Red Hat Enterprise Linux Server release 6.6 (Santiago)
locale:  LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C  LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8  LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8  LC_PAPER=en_US.UTF-8 LC_NAME=C  LC_ADDRESS=C LC_TELEPHONE=C  LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:  stats graphics grDevices utils datasets methods base
other attached packages:  Chicago_0.2.9 data.table_1.9.4 argparser_0.3 devtools_1.8.0
loaded via a namespace (and not attached):  Rcpp_0.11.6 Formula_1.2-1 cluster_2.0.1  xml2_0.1.1 magrittr_1.5 MASS_7.3-40  splines_3.2.1 munsell_0.4.2 colorspace_1.2-6  lattice_0.20-31 stringr_1.0.0 plyr_1.8.3  tools_3.2.1 nnet_7.3-9 grid_3.2.1  gtable_0.1.2 Delaporte_2.2-3 latticeExtra_0.6-26  git2r_0.10.1 matrixStats_0.14.2 rversions_1.0.2  survival_2.38-1 digest_0.6.8 gridExtra_0.9.1  RColorBrewer_1.1-2 reshape2_1.4.1 ggplot2_1.0.1  acepack_1.3-3.3 rpart_4.1-9 curl_0.9.1  memoise_0.2.1 stringi_0.5-5 scales_0.2.5  Hmisc_3.16-0 foreign_0.8-63 chron_2.3-47  proto_0.3-10