############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/AlpsNMR_3.4.0.tar.gz && rm -rf AlpsNMR.buildbin-libdir && mkdir AlpsNMR.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=AlpsNMR.buildbin-libdir AlpsNMR_3.4.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL AlpsNMR_3.4.0.zip && rm AlpsNMR_3.4.0.tar.gz AlpsNMR_3.4.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 5769k 0 14659 0 0 122k 0 0:00:47 --:--:-- 0:00:47 122k 23 5769k 23 1381k 0 0 1235k 0 0:00:04 0:00:01 0:00:03 1235k 62 5769k 62 3620k 0 0 1723k 0 0:00:03 0:00:02 0:00:01 1723k 100 5769k 100 5769k 0 0 2056k 0 0:00:02 0:00:02 --:--:-- 2056k install for i386 * installing *source* package 'AlpsNMR' ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'AlpsNMR' finding HTML links ... done AUC_model html AlpsNMR-package html HMDB_blood html HMDB_cell html HMDB_urine html MUVR_model_plot html Parameters_blood html Parameters_cell html Parameters_urine html Peak_detection html Pipelines html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/AlpsNMR.buildbin-libdir/00LOCK-AlpsNMR/00new/AlpsNMR/help/pipe_normalization.html ROI_blood html ROI_cell html ROI_urine html SummarizedExperiment_to_nmr_data_1r html SummarizedExperiment_to_nmr_dataset_peak_table html bp_VIP_analysis html bp_kfold_VIP_analysis html computes_peak_width_ppm html confusion_matrix html file_lister html files_to_rDolphin html filter.nmr_dataset_family html finding level-2 HTML links ... done format.nmr_dataset html format.nmr_dataset_1D html format.nmr_dataset_peak_table html hmdb html is.nmr_dataset html is.nmr_dataset_1D html is.nmr_dataset_peak_table html load_and_save_functions html model_VIP html models_stability_plot_bootstrap html models_stability_plot_plsda html new_nmr_dataset html new_nmr_dataset_1D html new_nmr_dataset_peak_table html nmr_align_find_ref html nmr_baseline_removal html nmr_baseline_threshold html nmr_batman html nmr_batman_options html nmr_data html nmr_data_1r_to_SummarizedExperiment html nmr_data_analysis html nmr_data_analysis_method html nmr_dataset html nmr_dataset_1D html nmr_dataset_family html nmr_dataset_peak_table html nmr_dataset_peak_table_to_SummarizedExperiment html nmr_diagnose-defunct html nmr_exclude_region html nmr_export_data_1r html nmr_identify_regions_blood html nmr_identify_regions_cell html nmr_identify_regions_urine html nmr_integrate_regions html nmr_interpolate_1D html nmr_meta_add html nmr_meta_export html nmr_meta_get html nmr_meta_get_column html nmr_normalize html nmr_pca_build_model html nmr_pca_outliers html nmr_pca_outliers_filter html nmr_pca_outliers_plot html nmr_pca_outliers_robust html nmr_pca_plots html nmr_ppm_resolution html nmr_read_bruker_fid html nmr_read_samples html nmr_zip_bruker_samples html p_value_perm html permutation_test_model html permutation_test_plot html plot.nmr_dataset_1D html plot_bootstrap_multimodel html plot_interactive html plot_plsda_multimodel html plot_plsda_samples html plot_vip_scores html plot_webgl html plsda_auroc_vip_compare html plsda_auroc_vip_method html ppm_VIP_vector html ppm_resolution html print.nmr_dataset html print.nmr_dataset_1D html print.nmr_dataset_peak_table html random_subsampling html rdCV_PLS_RF html rdCV_PLS_RF_ML html read_bruker_sample html regions_from_peak_table html save_files_to_rDolphin html save_profiling_output html sub-.nmr_dataset html sub-.nmr_dataset_1D html sub-.nmr_dataset_peak_table html to_ChemoSpec html validate_nmr_dataset html validate_nmr_dataset_family html *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'AlpsNMR' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'AlpsNMR' as AlpsNMR_3.4.0.zip * DONE (AlpsNMR) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'AlpsNMR' successfully unpacked and MD5 sums checked