Added option in get_osw_query, to extract identifying transitions or extract only detecting transitions.
Default is to only extract detecting transitions, if identifying is set to true, both detecting and identifying transitions are extracted.
Adjusted tests to reflect changes.
==> Rcpp::compileAttributes()
* Updated R/RcppExports.R
==> devtools::check(document = FALSE)
── Building ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── DIAlignR ──
Setting env vars:
● CFLAGS : -Wall -pedantic -fdiagnostics-color=always
● CXXFLAGS : -Wall -pedantic -fdiagnostics-color=always
● CXX11FLAGS: -Wall -pedantic -fdiagnostics-color=always
─────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
✓ checking for file ‘/media/justincsing/ExtraDrive1/Documents2/Roest_Lab/Github/DIAlignR/DESCRIPTION’ ...
─ preparing ‘DIAlignR’:
✓ checking DESCRIPTION meta-information ...
─ cleaning src
─ installing the package to build vignettes
✓ creating vignettes (39.3s)
─ cleaning src
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
─ looking to see if a ‘data/datalist’ file should be added
─ building ‘DIAlignR_0.99.9.tar.gz’
── Checking ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── DIAlignR ──
Setting env vars:
● _R_CHECK_CRAN_INCOMING_USE_ASPELL_: TRUE
● _R_CHECK_CRAN_INCOMING_REMOTE_ : FALSE
● _R_CHECK_CRAN_INCOMING_ : FALSE
● _R_CHECK_FORCE_SUGGESTS_ : FALSE
── R CMD check ─────────────────────────────────────────────────────────────────
─ using log directory ‘/media/justincsing/ExtraDrive1/Documents2/Roest_Lab/Github/DIAlignR.Rcheck’
─ using R version 3.6.1 (2019-07-05)
─ using platform: x86_64-pc-linux-gnu (64-bit)
─ using session charset: UTF-8
─ using options ‘--no-manual --as-cran’
✓ checking for file ‘DIAlignR/DESCRIPTION’
─ checking extension type ... Package
─ this is package ‘DIAlignR’ version ‘0.99.9’
─ package encoding: UTF-8
✓ checking package namespace information
✓ checking package dependencies (3.9s)
✓ checking if this is a source package
✓ checking if there is a namespace
✓ checking for executable files (497ms)
✓ checking for hidden files and directories
✓ checking for portable file names ...
✓ checking for sufficient/correct file permissions
✓ checking serialization versions
✓ checking whether package ‘DIAlignR’ can be installed (32.8s)
N checking installed package size
installed size is 9.2Mb
sub-directories of 1Mb or more:
extdata 3.6Mb
libs 5.0Mb
✓ checking package directory ...
✓ checking for future file timestamps (738ms)
✓ checking ‘build’ directory
✓ checking DESCRIPTION meta-information ...
✓ checking top-level files
✓ checking for left-over files
✓ checking index information ...
✓ checking package subdirectories ...
✓ checking R files for non-ASCII characters ...
✓ checking R files for syntax errors ...
✓ checking whether the package can be loaded (713ms)
✓ checking whether the package can be loaded with stated dependencies (704ms)
✓ checking whether the package can be unloaded cleanly (705ms)
✓ checking whether the namespace can be loaded with stated dependencies (630ms)
✓ checking whether the namespace can be unloaded cleanly (701ms)
✓ checking loading without being on the library search path (772ms)
✓ checking dependencies in R code (1.9s)
✓ checking S3 generic/method consistency (1.7s)
✓ checking replacement functions (727ms)
✓ checking foreign function calls (806ms)
✓ checking R code for possible problems (5.1s)
✓ checking Rd files (376ms)
✓ checking Rd metadata ...
✓ checking Rd line widths ...
✓ checking Rd cross-references ...
✓ checking for missing documentation entries (746ms)
✓ checking for code/documentation mismatches (2.3s)
✓ checking Rd \usage sections (2.1s)
✓ checking Rd contents ...
✓ checking for unstated dependencies in examples ...
✓ checking contents of ‘data’ directory ...
✓ checking data for non-ASCII characters ...
✓ checking data for ASCII and uncompressed saves ...
✓ checking line endings in C/C++/Fortran sources/headers ...
✓ checking pragmas in C/C++ headers and code ...
✓ checking compilation flags used
✓ checking compiled code ...
✓ checking installed files from ‘inst/doc’ ...
✓ checking files in ‘vignettes’ ...
✓ checking examples (8.7s)
✓ checking for unstated dependencies in ‘tests’ ...
─ checking tests ...
✓ Running ‘testthat.R’ (4.6s)
✓ checking for unstated dependencies in vignettes (4.9s)
✓ checking package vignettes in ‘inst/doc’
✓ checking re-building of vignette outputs (7s)
See
‘/media/justincsing/ExtraDrive1/Documents2/Roest_Lab/Github/DIAlignR.Rcheck/00check.log’
for details.
── R CMD check results ──────────────────────────────────── DIAlignR 0.99.9 ────
Duration: 1m 22.4s
> checking installed package size ... NOTE
installed size is 9.2Mb
sub-directories of 1Mb or more:
extdata 3.6Mb
libs 5.0Mb
0 errors ✓ | 0 warnings ✓ | 1 note x
R CMD check succeeded
Added option in get_osw_query, to extract identifying transitions or extract only detecting transitions. Default is to only extract detecting transitions, if identifying is set to true, both detecting and identifying transitions are extracted.
Adjusted tests to reflect changes.