I am maintaining the R package SWATH2stats and I received an error after having added a new test and committed it to the devel branch. As I cannot reproduce the error on my own computer I wanted to have a look at the error log that exists from the CHECK report on Bioconductor devel branch. Can anyone tell me how I access the error log file on the subversion respository or similar?
If someone has an idea on how to troubleshoot such a problem most efficiently this is of course also highly appreciated.
Thank you very much.
part of the BioC 3.3: CHECK report for SWATH2stats:
Running ‘test-all.R’ [7s/7s]
Running the tests in ‘tests/test-all.R’ failed.
Last 13 lines of output:
7: with_sink(temp, withCallingHandlers(withVisible(code), warning = wHandler, message = mHandler))
8: withCallingHandlers(withVisible(code), warning = wHandler, message = mHandler)
11: stop(paste("The number of transitions annotated and measured do not match in the following transitions:\n",
paste(unlist(n.transitions[n.transitions2 != n.transitions4]), collapse = ", ")))
testthat results ================================================================
OK: 46 SKIPPED: 0 FAILED: 1
1. Error: data conversion
Error: testthat unit tests failed Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 ERROR, 1 NOTE See ‘/Users/biocbuild/bbs-3.3-bioc/meat/SWATH2stats.Rcheck/00check.log’ for details.