| Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:31:27 -0400 (Thu, 06 May 2021).
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To the developers/maintainers of the GenomeInfoDb package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 711/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GenomeInfoDb 1.26.7 (landing page) Bioconductor Package Maintainer
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: GenomeInfoDb |
| Version: 1.26.7 |
| Command: C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/GenomeInfoDb_1.26.7.tar.gz && rm -rf GenomeInfoDb.buildbin-libdir && mkdir GenomeInfoDb.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GenomeInfoDb.buildbin-libdir GenomeInfoDb_1.26.7.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL GenomeInfoDb_1.26.7.zip && rm GenomeInfoDb_1.26.7.tar.gz GenomeInfoDb_1.26.7.zip |
| StartedAt: 2021-05-05 17:01:06 -0400 (Wed, 05 May 2021) |
| EndedAt: 2021-05-05 17:02:12 -0400 (Wed, 05 May 2021) |
| EllapsedTime: 66.7 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/GenomeInfoDb_1.26.7.tar.gz && rm -rf GenomeInfoDb.buildbin-libdir && mkdir GenomeInfoDb.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GenomeInfoDb.buildbin-libdir GenomeInfoDb_1.26.7.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL GenomeInfoDb_1.26.7.zip && rm GenomeInfoDb_1.26.7.tar.gz GenomeInfoDb_1.26.7.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
100 3088k 100 3088k 0 0 22.2M 0 --:--:-- --:--:-- --:--:-- 22.3M
install for i386
* installing *source* package 'GenomeInfoDb' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'GenomeInfoDb'
finding HTML links ... done
GenomeDescription-class html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/GenomeDescription-class.Rd:44: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/GenomeDescription-class.Rd:85: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/GenomeDescription-class.Rd:94: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/GenomeDescription-class.Rd:133: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
GenomeInfoDb-internals html
Seqinfo-class html
fetchExtendedChromInfoFromUCSC html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/fetchExtendedChromInfoFromUCSC.Rd:145: file link 'getBSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
getChromInfoFromEnsembl html
getChromInfoFromNCBI html
getChromInfoFromUCSC html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/getChromInfoFromUCSC.Rd:170: file link 'getBSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/getChromInfoFromUCSC.Rd:171: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
loadTaxonomyDb html
mapGenomeBuilds html
rankSeqlevels html
seqinfo html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:82: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:105: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:106: file link 'GAlignmentPairs' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:107: file link 'GAlignmentsList' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:116: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:118: file link 'exonsBy' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:131: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:136: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:137: file link 'GAlignments' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:182: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:182: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:184: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:186: file link 'GAlignments' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:187: file link 'GAlignmentPairs' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:188: file link 'GAlignmentsList' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:190: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:192: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:226: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:226: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:229: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:232: file link 'GAlignments' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:233: file link 'GAlignmentPairs' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:234: file link 'GAlignmentsList' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:237: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmpu4xcFM/R.INSTALL9e015255529/GenomeInfoDb/man/seqinfo.Rd:240: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
seqlevels-wrappers html
seqlevelsStyle 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 'GenomeInfoDb' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GenomeInfoDb' as GenomeInfoDb_1.26.7.zip
* DONE (GenomeInfoDb)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'GenomeInfoDb' successfully unpacked and MD5 sums checked