Julian Gehring
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/TSSi |
| Branch: RELEASE_3_7 |
| Last Commit: 45a1d1b |
| Last Changed Date: 2018-04-30 10:35:20 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:35:36 -0400 (Wed, 17 Oct 2018).
| Package 1514/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| TSSi 1.26.0 Julian Gehring
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: TSSi |
| Version: 1.26.0 |
| Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TSSi.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings TSSi_1.26.0.tar.gz |
| StartedAt: 2018-10-17 05:19:16 -0400 (Wed, 17 Oct 2018) |
| EndedAt: 2018-10-17 05:22:17 -0400 (Wed, 17 Oct 2018) |
| EllapsedTime: 180.9 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: TSSi.Rcheck |
| Warnings: 1 |
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### Running command:
###
### C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TSSi.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings TSSi_1.26.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/TSSi.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'TSSi/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'TSSi' version '1.26.0'
* 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 'TSSi' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TSSi-package.Rd:54: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TSSi-package.Rd:54: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TSSi-package.Rd:55: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TSSi-package.Rd:66: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssData-class.Rd:144: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssData-class.Rd:144: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssData-class.Rd:145: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssData-class.Rd:152: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssNorm-class.Rd:74: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssNorm-class.Rd:74: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssNorm-class.Rd:75: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssNorm-class.Rd:82: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssResult-class.Rd:86: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssResult-class.Rd:86: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssResult-class.Rd:87: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssResult-class.Rd:94: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/asRangedData-methods.Rd:89: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/asRangedData-methods.Rd:89: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/asRangedData-methods.Rd:90: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/asRangedData-methods.Rd:97: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/get-methods.Rd:160: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/get-methods.Rd:160: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/get-methods.Rd:161: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/get-methods.Rd:168: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/identify-methods.Rd:101: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/identify-methods.Rd:101: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/identify-methods.Rd:102: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/identify-methods.Rd:109: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/normalize-methods.Rd:112: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/normalize-methods.Rd:112: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/normalize-methods.Rd:113: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/normalize-methods.Rd:120: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/physcoCounts-data.Rd:49: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/physcoCounts-data.Rd:49: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/physcoCounts-data.Rd:50: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/physcoCounts-data.Rd:57: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/plot-methods.Rd:154: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/plot-methods.Rd:154: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/plot-methods.Rd:155: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/plot-methods.Rd:162: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/segmentize-methods.Rd:91: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/segmentize-methods.Rd:91: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/segmentize-methods.Rd:92: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/segmentize-methods.Rd:99: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/subtract-functions.Rd:50: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/subtract-functions.Rd:50: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/subtract-functions.Rd:51: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/subtract-functions.Rd:58: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
See 'C:/Users/biocbuild/bbs-3.7-bioc/meat/TSSi.Rcheck/00install.out' for details.
* checking installed package size ... OK
* 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 ... OK
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.7-bioc/R/library/TSSi/libs/i386/TSSi.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
TSSi-package 6.37 0.09 6.62
plot-methods 6.11 0.02 6.12
normalize-methods 6.11 0.00 6.11
identify-methods 5.77 0.16 5.92
** running examples for arch 'x64' ... OK
* 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: 1 WARNING, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.7-bioc/meat/TSSi.Rcheck/00check.log'
for details.
TSSi.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/TSSi_1.26.0.tar.gz && rm -rf TSSi.buildbin-libdir && mkdir TSSi.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TSSi.buildbin-libdir TSSi_1.26.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL TSSi_1.26.0.zip && rm TSSi_1.26.0.tar.gz TSSi_1.26.0.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
100 23938 100 23938 0 0 394k 0 --:--:-- --:--:-- --:--:-- 449k
install for i386
* installing *source* package 'TSSi' ...
** libs
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c assess.c -o assess.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c init.c -o init.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o TSSi.dll tmp.def assess.o init.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/TSSi.buildbin-libdir/TSSi/libs/i386
** R
** data
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'segments' in package 'TSSi'
** help
*** installing help indices
converting help for package 'TSSi'
finding HTML links ... done
TSSi-package html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TSSi-package.Rd:54: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TSSi-package.Rd:54: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TSSi-package.Rd:55: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TSSi-package.Rd:66: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
TssData-class html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssData-class.Rd:144: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssData-class.Rd:144: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssData-class.Rd:145: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssData-class.Rd:152: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
TssNorm-class html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssNorm-class.Rd:74: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssNorm-class.Rd:74: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssNorm-class.Rd:75: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssNorm-class.Rd:82: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
TssResult-class html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssResult-class.Rd:86: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssResult-class.Rd:86: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssResult-class.Rd:87: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/TssResult-class.Rd:94: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
asRangedData-methods html
finding level-2 HTML links ... done
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/asRangedData-methods.Rd:89: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/asRangedData-methods.Rd:89: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/asRangedData-methods.Rd:90: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/asRangedData-methods.Rd:97: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
get-methods html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/get-methods.Rd:160: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/get-methods.Rd:160: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/get-methods.Rd:161: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/get-methods.Rd:168: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
identify-methods html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/identify-methods.Rd:101: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/identify-methods.Rd:101: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/identify-methods.Rd:102: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/identify-methods.Rd:109: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
normalize-methods html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/normalize-methods.Rd:112: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/normalize-methods.Rd:112: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/normalize-methods.Rd:113: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/normalize-methods.Rd:120: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
physcoCounts-data html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/physcoCounts-data.Rd:49: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/physcoCounts-data.Rd:49: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/physcoCounts-data.Rd:50: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/physcoCounts-data.Rd:57: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
plot-methods html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/plot-methods.Rd:154: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/plot-methods.Rd:154: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/plot-methods.Rd:155: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/plot-methods.Rd:162: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
segmentize-methods html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/segmentize-methods.Rd:91: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/segmentize-methods.Rd:91: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/segmentize-methods.Rd:92: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/segmentize-methods.Rd:99: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
subtract-functions html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/subtract-functions.Rd:50: file link 'segmentizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/subtract-functions.Rd:50: file link 'normalizeCounts' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/subtract-functions.Rd:51: file link 'identifyStartSites' in package 'TSSi' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpkjYB0k/R.INSTALL25683bfd43d7/TSSi/man/subtract-functions.Rd:58: file link 'physcoCounts' in package 'TSSi' does not exist and so has been treated as a topic
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'TSSi' ...
** libs
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c assess.c -o assess.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c init.c -o init.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o TSSi.dll tmp.def assess.o init.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/TSSi.buildbin-libdir/TSSi/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TSSi' as TSSi_1.26.0.zip
* DONE (TSSi)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'TSSi' successfully unpacked and MD5 sums checked
In R CMD INSTALL
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TSSi.Rcheck/examples_i386/TSSi-Ex.timings
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TSSi.Rcheck/examples_x64/TSSi-Ex.timings
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