VJ Carey
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/erma |
| git_branch: RELEASE_3_13 |
| git_last_commit: 6958ee9 |
| git_last_commit_date: 2021-05-19 12:14:10 -0400 (Wed, 19 May 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:06:04 -0400 (Fri, 15 Oct 2021).
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To the developers/maintainers of the erma package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/erma.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 593/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| erma 1.8.0 (landing page) VJ Carey
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: erma |
| Version: 1.8.0 |
| Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:erma.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings erma_1.8.0.tar.gz |
| StartedAt: 2021-10-14 22:54:28 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 23:03:27 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 538.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: erma.Rcheck |
| Warnings: 0 |
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### Running command:
###
### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:erma.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings erma_1.8.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/erma.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'erma/DESCRIPTION' ... OK
* this is package 'erma' version '1.8.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'erma' can be installed ... OK
* checking installed package size ... NOTE
installed size is 199.3Mb
sub-directories of 1Mb or more:
bed_tabix 161.4Mb
data 37.1Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
geneTxRange: no visible global function definition for 'select'
genemodelOLD: no visible binding for global variable 'exonsBy'
stateProfile: no visible binding for global variable 'states_25'
stateProfile: no visible binding for global variable 'short_celltype'
stateProfile: no visible binding for global variable 'name'
statesByRange: no visible binding for global variable 'mod'
statesByRange: no visible binding for global variable 'upstream'
statesByRange: no visible binding for global variable 'downstream'
statesByRange : <anonymous>: no visible binding for global variable
'tss'
statesByRange: no visible binding for global variable 'states_25'
Undefined global functions or variables:
downstream exonsBy mod name select short_celltype states_25 tss
upstream
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
erma-package 10.17 0.85 29.24
stateProfile 3.60 0.17 20.69
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
erma-package 10.20 0.30 27.97
stateProfile 3.86 0.14 23.24
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.13-bioc/meat/erma.Rcheck/00check.log'
for details.
erma.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/erma_1.8.0.tar.gz && rm -rf erma.buildbin-libdir && mkdir erma.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=erma.buildbin-libdir erma_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL erma_1.8.0.zip && rm erma_1.8.0.tar.gz erma_1.8.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
1 197M 1 2059k 0 0 2082k 0 0:01:37 --:--:-- 0:01:37 2082k
2 197M 2 5492k 0 0 2761k 0 0:01:13 0:00:01 0:01:12 2761k
4 197M 4 9517k 0 0 3183k 0 0:01:03 0:00:02 0:01:01 3183k
7 197M 7 14.2M 0 0 3634k 0 0:00:55 0:00:04 0:00:51 3635k
10 197M 10 19.9M 0 0 4092k 0 0:00:49 0:00:04 0:00:45 4092k
13 197M 13 26.8M 0 0 4588k 0 0:00:44 0:00:05 0:00:39 5083k
17 197M 17 34.0M 0 0 4969k 0 0:00:40 0:00:07 0:00:33 5843k
21 197M 21 41.7M 0 0 5339k 0 0:00:37 0:00:08 0:00:29 6624k
25 197M 25 49.4M 0 0 5625k 0 0:00:35 0:00:08 0:00:27 7223k
30 197M 30 59.6M 0 0 6103k 0 0:00:33 0:00:09 0:00:24 8107k
34 197M 34 68.6M 0 0 6369k 0 0:00:31 0:00:11 0:00:20 8485k
40 197M 40 79.0M 0 0 6748k 0 0:00:29 0:00:11 0:00:18 9253k
43 197M 43 86.4M 0 0 6803k 0 0:00:29 0:00:13 0:00:16 9146k
43 197M 43 86.7M 0 0 6338k 0 0:00:31 0:00:14 0:00:17 7619k
47 197M 47 93.0M 0 0 6350k 0 0:00:31 0:00:15 0:00:16 6842k
47 197M 47 94.4M 0 0 6037k 0 0:00:33 0:00:16 0:00:17 5302k
51 197M 51 100M 0 0 6075k 0 0:00:33 0:00:17 0:00:16 4468k
54 197M 54 108M 0 0 6164k 0 0:00:32 0:00:17 0:00:15 4491k
58 197M 58 116M 0 0 6263k 0 0:00:32 0:00:18 0:00:14 6050k
63 197M 63 125M 0 0 6428k 0 0:00:31 0:00:19 0:00:12 6663k
69 197M 69 136M 0 0 6647k 0 0:00:30 0:00:20 0:00:10 8610k
75 197M 75 147M 0 0 6891k 0 0:00:29 0:00:21 0:00:08 9677k
81 197M 81 160M 0 0 7135k 0 0:00:28 0:00:22 0:00:06 10.3M
84 197M 84 166M 0 0 7083k 0 0:00:28 0:00:24 0:00:04 9.9M
84 197M 84 166M 0 0 6810k 0 0:00:29 0:00:24 0:00:05 8338k
84 197M 84 166M 0 0 6547k 0 0:00:30 0:00:25 0:00:05 6129k
84 197M 84 166M 0 0 6304k 0 0:00:32 0:00:27 0:00:05 3733k
84 197M 84 166M 0 0 6080k 0 0:00:33 0:00:28 0:00:05 1249k
84 197M 84 166M 0 0 5871k 0 0:00:34 0:00:29 0:00:05 34913
84 197M 84 167M 0 0 5719k 0 0:00:35 0:00:30 0:00:05 282k
88 197M 88 174M 0 0 5755k 0 0:00:35 0:00:30 0:00:05 1635k
91 197M 91 180M 0 0 5788k 0 0:00:34 0:00:32 0:00:02 3008k
93 197M 93 185M 0 0 5699k 0 0:00:35 0:00:33 0:00:02 3661k
98 197M 98 193M 0 0 5824k 0 0:00:34 0:00:34 --:--:-- 5550k
100 197M 100 197M 0 0 5848k 0 0:00:34 0:00:34 --:--:-- 6706k
install for i386
* installing *source* package 'erma' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'erma'
finding HTML links ... done
ErmaSet-class html
finding level-2 HTML links ... done
erma-package html
genemodel html
mapmeta html
stateProfile html
states_25 html
** 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 'erma' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'erma' as erma_1.8.0.zip
* DONE (erma)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'erma' successfully unpacked and MD5 sums checked
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erma.Rcheck/examples_i386/erma-Ex.timings
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erma.Rcheck/examples_x64/erma-Ex.timings
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