############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf gINTomics.buildbin-libdir && mkdir gINTomics.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=gINTomics.buildbin-libdir gINTomics_1.3.0.tar.gz ### ############################################################################## ############################################################################## * installing *source* package 'gINTomics' ... ** using staged installation ** R [2024-12-12 07:22:37] [TRACE] [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8). [2024-12-12 07:22:37] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:22:37] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:22:37] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2024-12-12 07:22:37] [TRACE] [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:22:37] [TRACE] [OmnipathR] Contains 6 files. [2024-12-12 07:22:37] [TRACE] [OmnipathR] Cache is locked: FALSE. [2024-12-12 07:22:37] [TRACE] [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8). [2024-12-12 07:22:37] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:22:37] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:22:37] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2024-12-12 07:22:37] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8). [2024-12-12 07:22:37] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:22:37] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8). [2024-12-12 07:22:37] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:22:38] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8). [2024-12-12 07:22:38] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:22:38] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8). [2024-12-12 07:22:38] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:22:38] [TRACE] [OmnipathR] Cache locked: FALSE ** data ** inst ** byte-compile and prepare package for lazy loading [2024-12-12 07:23:52] [TRACE] [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8). [2024-12-12 07:23:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:23:52] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:23:52] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2024-12-12 07:23:52] [TRACE] [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:23:52] [TRACE] [OmnipathR] Contains 1 files. [2024-12-12 07:23:52] [TRACE] [OmnipathR] Cache is locked: FALSE. [2024-12-12 07:23:52] [TRACE] [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8). [2024-12-12 07:23:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:23:52] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:23:52] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2024-12-12 07:23:52] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8). [2024-12-12 07:23:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:23:52] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8). [2024-12-12 07:23:53] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:23:53] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8). [2024-12-12 07:23:53] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:23:53] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8). [2024-12-12 07:23:53] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:23:53] [TRACE] [OmnipathR] Cache locked: FALSE ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location [2024-12-12 07:25:17] [TRACE] [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8). [2024-12-12 07:25:17] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:17] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:25:17] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2024-12-12 07:25:17] [TRACE] [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:25:17] [TRACE] [OmnipathR] Contains 1 files. [2024-12-12 07:25:17] [TRACE] [OmnipathR] Cache is locked: FALSE. [2024-12-12 07:25:17] [TRACE] [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8). [2024-12-12 07:25:17] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:17] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:25:17] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2024-12-12 07:25:17] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8). [2024-12-12 07:25:17] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:17] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8). [2024-12-12 07:25:17] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:17] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8). [2024-12-12 07:25:17] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:17] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8). [2024-12-12 07:25:18] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:18] [TRACE] [OmnipathR] Cache locked: FALSE ** testing if installed package can be loaded from final location [2024-12-12 07:25:52] [TRACE] [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8). [2024-12-12 07:25:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:52] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:25:52] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2024-12-12 07:25:52] [TRACE] [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:25:52] [TRACE] [OmnipathR] Contains 1 files. [2024-12-12 07:25:52] [TRACE] [OmnipathR] Cache is locked: FALSE. [2024-12-12 07:25:52] [TRACE] [OmnipathR] Reading JSON from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR/cache.json` (encoding: UTF-8). [2024-12-12 07:25:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:52] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2024-12-12 07:25:52] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2024-12-12 07:25:52] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/db/db_def.json` (encoding: UTF-8). [2024-12-12 07:25:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:52] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8). [2024-12-12 07:25:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:52] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/urls.json` (encoding: UTF-8). [2024-12-12 07:25:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:52] [TRACE] [OmnipathR] Reading JSON from `E:/biocbuild/bbs-3.21-bioc/R/library/OmnipathR/internal/id_types.json` (encoding: UTF-8). [2024-12-12 07:25:52] [TRACE] [OmnipathR] JSON validation successful: TRUE [2024-12-12 07:25:52] [TRACE] [OmnipathR] Cache locked: FALSE ** testing if installed package keeps a record of temporary installation path * MD5 sums packaged installation of 'gINTomics' as gINTomics_1.3.0.zip * DONE (gINTomics)