| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-10-19 13:21:38 -0400 (Wed, 19 Oct 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
To the developers/maintainers of the Herper package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Herper.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 887/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Herper 1.6.0 (landing page) Thomas Carroll
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | TIMEOUT | skipped | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | TIMEOUT | skipped | skipped | |||||||||
| Package: Herper |
| Version: 1.6.0 |
| Command: chmod a+r Herper -R && F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data Herper |
| StartedAt: 2022-10-18 19:02:25 -0400 (Tue, 18 Oct 2022) |
| EndedAt: 2022-10-18 19:04:11 -0400 (Tue, 18 Oct 2022) |
| EllapsedTime: 106.5 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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###
### Running command:
###
### chmod a+r Herper -R && F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data Herper
###
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* checking for file 'Herper/DESCRIPTION' ... OK
* preparing 'Herper':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'Herper.Rmd' using rmarkdown
Loading required package: reticulate
* Installing Miniconda -- please wait a moment ...
* Downloading "https://repo.anaconda.com/miniconda/Miniconda3-latest-Windows-x86_64.exe" ...
trying URL 'https://repo.anaconda.com/miniconda/Miniconda3-latest-Windows-x86_64.exe'
Content type 'application/octet-stream' length 74687656 bytes (71.2 MB)
==================================================
downloaded 71.2 MB
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: F:\biocbuild\bbs-3.15-bioc\tmpdir\RtmpKmAbAo\rr\Test
added / updated specs:
- conda
The following packages will be downloaded:
package | build
---------------------------|-----------------
ca-certificates-2022.07.19 | haa95532_0 123 KB
certifi-2022.9.24 | py39haa95532_0 154 KB
cffi-1.15.1 | py39h2bbff1b_0 218 KB
colorama-0.4.5 | py39haa95532_0 28 KB
conda-22.9.0 | py39haa95532_0 888 KB
conda-package-handling-1.9.0| py39h8cc25b3_0 726 KB
cryptography-37.0.1 | py39h21b164f_0 977 KB
idna-3.4 | py39haa95532_0 93 KB
openssl-1.1.1q | h2bbff1b_0 4.8 MB
pip-22.2.2 | py39haa95532_0 2.3 MB
requests-2.28.1 | py39haa95532_0 99 KB
setuptools-63.4.1 | py39haa95532_0 1.0 MB
sqlite-3.39.3 | h2bbff1b_0 804 KB
toolz-0.11.2 | pyhd3eb1b0_0 49 KB
tqdm-4.64.1 | py39haa95532_0 143 KB
tzdata-2022e | h04d1e81_0 107 KB
urllib3-1.26.11 | py39haa95532_0 184 KB
------------------------------------------------------------
Total: 12.7 MB
The following NEW packages will be INSTALLED:
toolz pkgs/main/noarch::toolz-0.11.2-pyhd3eb1b0_0
The following packages will be REMOVED:
conda-content-trust-0.1.1-pyhd3eb1b0_0
six-1.16.0-pyhd3eb1b0_1
The following packages will be UPDATED:
ca-certificates 2022.3.29-haa95532_1 --> 2022.07.19-haa95532_0
certifi 2021.10.8-py39haa95532_2 --> 2022.9.24-py39haa95532_0
cffi 1.15.0-py39h2bbff1b_1 --> 1.15.1-py39h2bbff1b_0
colorama pkgs/main/noarch::colorama-0.4.4-pyhd~ --> pkgs/main/win-64::colorama-0.4.5-py39haa95532_0
conda 4.12.0-py39haa95532_0 --> 22.9.0-py39haa95532_0
conda-package-han~ 1.8.1-py39h8cc25b3_0 --> 1.9.0-py39h8cc25b3_0
cryptography 36.0.0-py39h21b164f_0 --> 37.0.1-py39h21b164f_0
idna pkgs/main/noarch::idna-3.3-pyhd3eb1b0~ --> pkgs/main/win-64::idna-3.4-py39haa95532_0
openssl 1.1.1n-h2bbff1b_0 --> 1.1.1q-h2bbff1b_0
pip 21.2.4-py39haa95532_0 --> 22.2.2-py39haa95532_0
requests pkgs/main/noarch::requests-2.27.1-pyh~ --> pkgs/main/win-64::requests-2.28.1-py39haa95532_0
setuptools 61.2.0-py39haa95532_0 --> 63.4.1-py39haa95532_0
sqlite 3.38.2-h2bbff1b_0 --> 3.39.3-h2bbff1b_0
tqdm pkgs/main/noarch::tqdm-4.63.0-pyhd3eb~ --> pkgs/main/win-64::tqdm-4.64.1-py39haa95532_0
tzdata 2022a-hda174b7_0 --> 2022e-h04d1e81_0
urllib3 pkgs/main/noarch::urllib3-1.26.8-pyhd~ --> pkgs/main/win-64::urllib3-1.26.11-py39haa95532_0
Downloading and Extracting Packages
conda-22.9.0 | 888 KB | | 0%
conda-22.9.0 | 888 KB | ########## | 100%
conda-22.9.0 | 888 KB | ########## | 100%
conda-package-handli | 726 KB | | 0%
conda-package-handli | 726 KB | ########## | 100%
conda-package-handli | 726 KB | ########## | 100%
cryptography-37.0.1 | 977 KB | | 0%
cryptography-37.0.1 | 977 KB | ########## | 100%
cryptography-37.0.1 | 977 KB | ########## | 100%
cffi-1.15.1 | 218 KB | | 0%
cffi-1.15.1 | 218 KB | ########## | 100%
cffi-1.15.1 | 218 KB | ########## | 100%
urllib3-1.26.11 | 184 KB | | 0%
urllib3-1.26.11 | 184 KB | ########## | 100%
urllib3-1.26.11 | 184 KB | ########## | 100%
certifi-2022.9.24 | 154 KB | | 0%
certifi-2022.9.24 | 154 KB | ########## | 100%
certifi-2022.9.24 | 154 KB | ########## | 100%
pip-22.2.2 | 2.3 MB | | 0%
pip-22.2.2 | 2.3 MB | ########## | 100%
pip-22.2.2 | 2.3 MB | ########## | 100%
colorama-0.4.5 | 28 KB | | 0%
colorama-0.4.5 | 28 KB | ########## | 100%
colorama-0.4.5 | 28 KB | ########## | 100%
toolz-0.11.2 | 49 KB | | 0%
toolz-0.11.2 | 49 KB | ########## | 100%
toolz-0.11.2 | 49 KB | ########## | 100%
tqdm-4.64.1 | 143 KB | | 0%
tqdm-4.64.1 | 143 KB | ########## | 100%
tqdm-4.64.1 | 143 KB | ########## | 100%
ca-certificates-2022 | 123 KB | | 0%
ca-certificates-2022 | 123 KB | ########## | 100%
ca-certificates-2022 | 123 KB | ########## | 100%
openssl-1.1.1q | 4.8 MB | | 0%
openssl-1.1.1q | 4.8 MB | ########## | 100%
openssl-1.1.1q | 4.8 MB | ########## | 100%
tzdata-2022e | 107 KB | | 0%
tzdata-2022e | 107 KB | ########## | 100%
tzdata-2022e | 107 KB | ########## | 100%
idna-3.4 | 93 KB | | 0%
idna-3.4 | 93 KB | ########## | 100%
idna-3.4 | 93 KB | ########## | 100%
sqlite-3.39.3 | 804 KB | | 0%
sqlite-3.39.3 | 804 KB | ########## | 100%
sqlite-3.39.3 | 804 KB | ########## | 100%
requests-2.28.1 | 99 KB | | 0%
requests-2.28.1 | 99 KB | ########## | 100%
requests-2.28.1 | 99 KB | ########## | 100%
setuptools-63.4.1 | 1.0 MB | | 0%
setuptools-63.4.1 | 1.0 MB | ########## | 100%
setuptools-63.4.1 | 1.0 MB | ########## | 100%
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
+ "F:/biocbuild/bbs-3.15-bioc/tmpdir/RtmpKmAbAo/rr/Test/condabin/conda.bat" "create" "--yes" "--name" "r-reticulate" "python=3.8" "numpy" "--quiet" "-c" "conda-forge"
Collecting package metadata (current_repodata.json): ...working... failed
CondaSSLError: OpenSSL appears to be unavailable on this machine. OpenSSL is required to
download and install packages.
Exception: HTTPSConnectionPool(host='conda.anaconda.org', port=443): Max retries exceeded with url: /conda-forge/win-64/current_repodata.json (Caused by SSLError("Can't connect to HTTPS URL because the SSL module is not available."))
Quitting from lines 93-96 (Herper.Rmd)
Error: processing vignette 'Herper.Rmd' failed with diagnostics:
Error creating conda environment 'r-reticulate' [exit code 1]
--- failed re-building 'Herper.Rmd'
--- re-building 'QuickStart.Rmd' using rmarkdown
--- finished re-building 'QuickStart.Rmd'
SUMMARY: processing the following file failed:
'Herper.Rmd'
Error: Vignette re-building failed.
Execution halted