Last updated on 2020-09-07 10:15:23 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.4 | 5.12 | 42.25 | 47.37 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 1.0.4 | 4.01 | 35.17 | 39.18 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.4 | 80.72 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.4 | 61.00 | OK | |||
| r-devel-windows-ix86+x86_64 | 1.0.4 | 12.00 | 58.00 | 70.00 | OK | |
| r-patched-linux-x86_64 | 1.0.4 | 4.44 | 43.95 | 48.39 | OK | |
| r-patched-solaris-x86 | 1.0.4 | 85.40 | OK | |||
| r-release-linux-x86_64 | 1.0.4 | 4.33 | 44.89 | 49.22 | OK | |
| r-release-macos-x86_64 | 1.0.4 | OK | ||||
| r-release-windows-ix86+x86_64 | 1.0.4 | 12.00 | 58.00 | 70.00 | OK | |
| r-oldrel-macos-x86_64 | 1.0.4 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0.4 | 7.00 | 69.00 | 76.00 | OK |
Version: 1.0.4
Check: examples
Result: ERROR
Running examples in 'tidycwl-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: get_edges
> ### Title: Get edges in a CWL workflow into a data frame
> ### Aliases: get_edges
>
> ### ** Examples
>
> # edges represented by a dictionary
> flow <- system.file("cwl/sbg/workflow/rnaseq-salmon.json", package = "tidycwl") %>% read_cwl_json()
> get_edges(
+ flow %>% parse_outputs(),
+ flow %>% parse_steps()
+ ) %>% str()
'data.frame': 62 obs. of 5 variables:
$ from : chr "Salmon_Quant___Reads" "Salmon_Quant___Reads" "reads" "max_number_of_parallel_jobs" ...
$ to : chr "SBG_Create_Expression_Matrix___Transcripts" "SBG_Create_Expression_Matrix___Genes" "SBG_Pair_FASTQs_by_Metadata_1" "SBG_Pair_FASTQs_by_Metadata_1" ...
$ port_from: chr "quant_sf" "quant_genes_sf" NA NA ...
$ port_to : chr NA NA NA NA ...
$ type : chr "step_to_step" "step_to_step" "input_to_step" "input_to_step" ...
>
> # edges represented by a list
> flow <- system.file("cwl/sbg/workflow/rnaseq-salmon.cwl", package = "tidycwl") %>% read_cwl_yaml()
Warning in readLines(file) :
invalid input found on input connection '/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/tidycwl/cwl/sbg/workflow/rnaseq-salmon.cwl'
Warning in readLines(file) :
incomplete final line found on '/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/tidycwl/cwl/sbg/workflow/rnaseq-salmon.cwl'
> get_edges(
+ flow %>% parse_outputs(),
+ flow %>% parse_steps()
+ ) %>% str()
Error in obj[sapply(obj, is.null)] <- NA : invalid subscript type 'list'
Calls: %>% ... get_el_from_list -> sapply -> lapply -> get_el_from_list
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang