| Back to Multiple platform build/check report for BioC 3.8 |
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This page was generated on 2019-04-13 11:23:31 -0400 (Sat, 13 Apr 2019).
| Package 620/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| GenomeInfoDb 1.18.2 Bioconductor Package Maintainer
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK |  | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: GenomeInfoDb |
| Version: 1.18.2 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/GenomeInfoDb_1.18.2.tar.gz && rm -rf GenomeInfoDb.buildbin-libdir && mkdir GenomeInfoDb.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GenomeInfoDb.buildbin-libdir GenomeInfoDb_1.18.2.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL GenomeInfoDb_1.18.2.zip && rm GenomeInfoDb_1.18.2.tar.gz GenomeInfoDb_1.18.2.zip |
| StartedAt: 2019-04-12 19:32:26 -0400 (Fri, 12 Apr 2019) |
| EndedAt: 2019-04-12 19:33:05 -0400 (Fri, 12 Apr 2019) |
| EllapsedTime: 38.8 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/GenomeInfoDb_1.18.2.tar.gz && rm -rf GenomeInfoDb.buildbin-libdir && mkdir GenomeInfoDb.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GenomeInfoDb.buildbin-libdir GenomeInfoDb_1.18.2.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL GenomeInfoDb_1.18.2.zip && rm GenomeInfoDb_1.18.2.tar.gz GenomeInfoDb_1.18.2.zip
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install for i386
* installing *source* package 'GenomeInfoDb' ...
** 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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/GenomeInfoDb/man/GenomeDescription-class.Rd:45: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/GenomeInfoDb/man/GenomeDescription-class.Rd:46: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/GenomeInfoDb/man/GenomeDescription-class.Rd:126: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Seqinfo-class html
fetchExtendedChromInfoFromUCSC html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/GenomeInfoDb/man/fetchExtendedChromInfoFromUCSC.Rd:130: file link 'getBSgenome' 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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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-3.8-bioc/tmpdir/RtmpKWXlKs/R.INSTALL1fb07bd88d4/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
In R CMD INSTALL
install for x64
* installing *source* package 'GenomeInfoDb' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GenomeInfoDb' as GenomeInfoDb_1.18.2.zip
* DONE (GenomeInfoDb)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'GenomeInfoDb' successfully unpacked and MD5 sums checked
In R CMD INSTALL