Problem with import.twisst()

[weirdfanny]

Hi, Simon
Thanks for your code!
I tried to plot with plot.twisst without the topology file, while I got Error massage like this:

source("../plot_twisst.R")
data.table 1.14.2 using 2 threads (see ?getDTthreads). Latest news: r-datatable.com
weights_file <-'msms_4of10_l1Mb_r10k_sweep.seq_gen.SNP.w50sites.phyml_bionj.weights.tsv.gz'
window_data_file <- 'msms_4of10_l1Mb_r10k_sweep.seq_gen.SNP.w50sites.phyml_bionj.data.tsv.gz'
twisst_data <- import.twisst(weights_file, window_data_file)
[1] "Reading weights and window data"
[1] "Number of regions: 1"
[1] "Computing summaries"
[1] "Cleaning data"
[1] "Getting topologies"
Error in names(l$topos) <- sapply(names(l$topos), substring, 2) :
NULL是不能有属性的
此外: Warning message:
In read.tree(text = topos_text) : empty character string.

My R version is 3.6.2 (2019-12-12)

[luisamarins]

hi, I'm having the same issue with R version 4.2.2 (2022-10-31 ucrt).
The fastest workaround was providing a csv topos_file to the import.twisst function :)

[simonhmartin]

Sorry I missed the original message. If you send an example weights file I can try to diagnose the issue.
Simon

[dongyiyi]

R version 4.2.3 (2023-03-15 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 22621)

twisst_data <- import.twisst(weights_files=weights_file, window_data_files=window_data_file)
[1] "Reading weights and window data"
[1] "Number of regions: 1"
[1] "Computing summaries"
[1] "Cleaning data"
[1] "Getting topologies"
Error in names(l$topos) <- sapply(names(l$topos), substring, 2) :

I tried to run the example dataset from this package, but I can't import the data. The same issue.

[dongyiyi]

This issue can be solved by assigning the topo file, for example:

twisst_data <- import.twisst(weights_files=weights_file,topos_file=topos_file,
window_data_files=window_data_file)