'cnv' is not recognized as an internal or external command

[wayneliuq]

iCNV_detection(snp_lrr=snp_lrr, snp_baf = snp_baf, 
                             snp_lrr.pos = snp_lrr.pos,snp_baf.pos = snp_baf.pos,
                             projname="projectname",CN=1,mu=c(-3,0,2),cap=TRUE,visual = 2)

gives error:

'cnv' is not recognized as an internal or external command,
operable program or batch file.

command works if using example with ngs data from vignette.

R version 4.0.3 (2020-10-10)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19042)

Matrix products: default

locale:
[1] LC_COLLATE=English_Canada.1252  LC_CTYPE=English_Canada.1252    LC_MONETARY=English_Canada.1252 LC_NUMERIC=C                   
[5] LC_TIME=English_Canada.1252    

attached base packages:
[1] stats4    parallel  stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] iCNV_0.99.27                      CODEX_1.22.0                      BSgenome.Hsapiens.UCSC.hg19_1.4.3 BSgenome_1.58.0                  
 [5] rtracklayer_1.49.5                Rsamtools_2.6.0                   Biostrings_2.58.0                 XVector_0.30.0                   
 [9] GenomicRanges_1.42.0              GenomeInfoDb_1.26.2               IRanges_2.24.1                    S4Vectors_0.28.1                 
[13] BiocGenerics_0.36.0               magrittr_2.0.1                    readr_1.4.0                       devtools_2.3.2                   
[17] usethis_2.0.0                    

loaded via a namespace (and not attached):
 [1] lattice_0.20-41             prettyunits_1.1.1           ps_1.5.0                    assertthat_0.2.1            rprojroot_2.0.2            
 [6] digest_0.6.27               R6_2.5.0                    evaluate_0.14               pillar_1.4.7                zlibbioc_1.36.0            
[11] rlang_0.4.10                curl_4.3                    rstudioapi_0.13             callr_3.5.1                 Matrix_1.2-18              
[16] rmarkdown_2.6               desc_1.2.0                  BiocParallel_1.24.1         stringr_1.4.0               RCurl_1.98-1.2             
[21] DelayedArray_0.16.0         compiler_4.0.3              xfun_0.20                   pkgconfig_2.0.3             pkgbuild_1.2.0             
[26] htmltools_0.5.0             SummarizedExperiment_1.20.0 tibble_3.0.5                GenomeInfoDbData_1.2.4      matrixStats_0.57.0         
[31] XML_3.99-0.5                fansi_0.4.2                 crayon_1.3.4                withr_2.4.0                 GenomicAlignments_1.26.0   
[36] bitops_1.0-6                grid_4.0.3                  jsonlite_1.7.2              lifecycle_0.2.0             stringi_1.5.3              
[41] cli_2.2.0                   fs_1.5.0                    remotes_2.2.0               testthat_3.0.1              ellipsis_0.3.1             
[46] vctrs_0.3.6                 tools_4.0.3                 Biobase_2.50.0              glue_1.4.2                  purrr_0.3.4                
[51] hms_1.0.0                   MatrixGenerics_1.2.0        yaml_2.2.1                  processx_3.4.5              pkgload_1.1.0              
[56] sessioninfo_1.1.1           memoise_1.1.0               knitr_1.30