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###
### Running command:
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###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL gINTomics
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* installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’
* installing *source* package ‘gINTomics’ ...
** using staged installation
** R
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:15] [INFO]    [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Contains 1 files.
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:15] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:15] [TRACE]   [OmnipathR] Cache locked: FALSE



** data
** inst
** byte-compile and prepare package for lazy loading
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:30] [INFO]    [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] Contains 1 files.
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:30] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-12-19 15:41:30] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-12-19 15:41:31] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:31] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-12-19 15:41:31] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:31] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-12-19 15:41:31] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:31] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-12-19 15:41:31] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:31] [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
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:51] [INFO]    [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Contains 1 files.
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:51] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:41:51] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package can be loaded from final location
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:42:08] [INFO]    [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Running on a build server, wiping cache.
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Contains 1 files.
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Cache is locked: FALSE.
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/.cache/OmnipathR/cache.json` (encoding: UTF-8).
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:42:08] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`.
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Pandoc version: `2.7.3`.
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/db/db_def.json` (encoding: UTF-8).
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/magic_bytes.json` (encoding: UTF-8).
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/urls.json` (encoding: UTF-8).
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Reading JSON from `/home/biocbuild/bbs-3.20-bioc/R/site-library/OmnipathR/internal/id_types.json` (encoding: UTF-8).
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] JSON validation successful: TRUE
[2024-12-19 15:42:08] [TRACE]   [OmnipathR] Cache locked: FALSE
** testing if installed package keeps a record of temporary installation path
* DONE (gINTomics)