I am evidently not expert in this topic. However I was able to get past the warning/halt you identified by moving the importFrom(bnlearn,...) statements to the top of the NAMESPACE. I cannot see in the WRE manual how the order of namespace imports/exports should be controlled. Other minds will be needed to set this straight.
On Thu, Feb 25, 2016 at 6:06 AM, Luca De Sano <l.des...@campus.unimib.it> wrote: > This is my sessionInfo(), I've the current stable release of bnlearn (3.9). > > > sessionInfo() > R version 3.2.3 (2015-12-10) > Platform: x86_64-pc-linux-gnu (64-bit) > Running under: Ubuntu 14.04.3 LTS > > locale: > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > [3] LC_TIME=it_IT.UTF-8 LC_COLLATE=en_US.UTF-8 > [5] LC_MONETARY=it_IT.UTF-8 LC_MESSAGES=en_US.UTF-8 > [7] LC_PAPER=it_IT.UTF-8 LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=it_IT.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] parallel stats graphics grDevices utils datasets methods > [8] base > > other attached packages: > [1] TRONCO_2.4.0 bnlearn_3.9 doParallel_1.0.10 iterators_1.0.8 > [5] foreach_1.4.3 devtools_1.10.0 > > loaded via a namespace (and not attached): > [1] igraph_1.0.1 graph_1.44.1 Rcpp_0.12.3 > [4] magrittr_1.5 roxygen2_5.0.1 BiocGenerics_0.12.1 > [7] munsell_0.4.3 xtable_1.8-2 colorspace_1.2-6 > [10] stringr_1.0.0 plyr_1.8.3 tools_3.2.3 > [13] grid_3.2.3 gtable_0.1.2 R.oo_1.20.0 > [16] withr_1.0.1 digest_0.6.9 gridExtra_2.0.0 > [19] RColorBrewer_1.1-2 Rgraphviz_2.10.0 reshape2_1.4.1 > [22] ggplot2_2.0.0 cgdsr_1.2.5 codetools_0.2-14 > [25] memoise_1.0.0 stringi_1.0-1 R.methodsS3_1.7.1 > [28] scales_0.3.0 stats4_3.2.3 > > > -- > Luca De Sano > tel: +393337177338 > email: l.des...@campus.unimib.it > PEC: luca.des...@pec.it > > On 25 February 2016 at 12:03, Vincent Carey <st...@channing.harvard.edu> > wrote: > >> sessionInfo might help. my guess is that you have an outofdate bnlearn >> installed? >> >> On Thu, Feb 25, 2016 at 5:57 AM, Luca De Sano <l.des...@campus.unimib.it> >> wrote: >> >>> Hi all, >>> I'm working on a package named TRONCO ( >>> http://bioconductor.org/packages/devel/bioc/html/TRONCO.html ) which was >>> released last year on bioconductor. Everytime I run R CMD check I get >>> these >>> two warnings: >>> >>> * checking whether the namespace can be loaded with stated dependencies >>> ... >>> WARNING >>> Error: .onLoad failed in loadNamespace() for 'bnlearn', details: >>> call: setMethod("nodes", cl, function(object) .nodes(object)) >>> error: no existing definition for function ‘nodes’ >>> Execution halted >>> >>> * checking whether the namespace can be unloaded cleanly ... WARNING >>> Error: .onLoad failed in loadNamespace() for 'bnlearn', details: >>> call: setMethod("nodes", cl, function(object) .nodes(object)) >>> error: no existing definition for function ‘nodes’ >>> Execution halted >>> >>> I've searched informations about these errors and I've only found some >>> old >>> posts on StackOverflow which suggested to change the order of the import. >>> I've tried to do it with no result. At the moment I can't figure out what >>> those warnings mean! >>> >>> Any suggestions? >>> >>> Warnings can be reproduced with the code listed below: >>> >>> git clone https://github.com/BIMIB-DISCo/TRONCO.git >>> R CMD build TRONCO >>> R CMD check TRONCO_2.3.0.tar.gz >>> >>> Thank you >>> >>> -- >>> Luca De Sano >>> tel: +393337177338 >>> email: l.des...@campus.unimib.it >>> PEC: luca.des...@pec.it >>> >>> [[alternative HTML version deleted]] >>> >>> _______________________________________________ >>> Bioc-devel@r-project.org mailing list >>> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> >> >> > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
