Christian Panse
| Snapshot Date: 2022-03-11 13:55:17 -0500 (Fri, 11 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/rawrr |
| git_branch: master |
| git_last_commit: 06900f2 |
| git_last_commit_date: 2022-03-11 10:24:54 -0500 (Fri, 11 Mar 2022) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-12 11:07:58 -0500 (Sat, 12 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4335 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4073 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 rawrr package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rawrr.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 1537/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| rawrr 1.3.4 (landing page) Christian Panse
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: rawrr |
| Version: 1.3.4 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:rawrr.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings rawrr_1.3.4.tar.gz |
| StartedAt: 2022-03-11 20:05:32 -0500 (Fri, 11 Mar 2022) |
| EndedAt: 2022-03-11 20:06:56 -0500 (Fri, 11 Mar 2022) |
| EllapsedTime: 84.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: rawrr.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:rawrr.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings rawrr_1.3.4.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/rawrr.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'rawrr/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'rawrr' version '1.3.4'
* package encoding: UTF-8
* 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 'rawrr' can be installed ... OK
* 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
* 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 files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
readChromatogram 5.75 1.30 13.35
readSpectrum 1.63 0.17 9.08
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'testthat.R'
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: OK
rawrr.Rcheck/00install.out
##############################################################################
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL rawrr
###
##############################################################################
##############################################################################
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'rawrr' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'rawrr'
finding HTML links ... done
auc.rawrrChromatogram html
basePeak html
buildRawrrExe html
dependentScan html
faimsVoltageOn html
installRawFileReaderDLLs html
installRawrrExe html
is.rawrrChromatogram html
is.rawrrSpectrum html
is.rawrrSpectrumSet html
makeAccessor html
massRange html
masterScan html
new_rawrrSpectrum html
plot.rawrrChromatogram html
plot.rawrrChromatogramSet html
plot.rawrrSpectrum html
print.rawrrSpectrum html
rawrrAssemblyPath html
rawrrSpectrum html
readChromatogram html
readFileHeader html
readIndex html
readSpectrum html
sampleFilePath html
scanNumber html
summary.rawrrChromatogram html
summary.rawrrSpectrum html
tic html
validate_rawrrIndex html
validate_rawrrSpectrum 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
* DONE (rawrr)
Making 'packages.html' ... done
rawrr.Rcheck/tests/testthat.Rout
R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> #R
>
> library(testthat)
>
> suppressPackageStartupMessages(library(rawrr))
>
> test_check("rawrr")
Total Ion Current: 78725448
Scan Low Mass: 350
Scan High Mass: 1800
Scan Start Time (Min): 0
Scan Number: 1
Base Peak Intensity: 5979308
Base Peak Mass: 445.1181
Scan Mode: FTMS + c NSI Full ms [350.0000-1800.0000]
======= Instrument data ===== : NULL
Multiple Injection: ii
Multi Inject Info: IT=28;28
AGC: On
Micro Scan Count: 1
Scan Segment: 1
Scan Event: 1
Master Index: 0
Charge State: 0
Monoisotopic M/Z: 0.0000
Ion Injection Time (ms): 55.000
Max. Ion Time (ms): 55.00
FT Resolution: 120000
MS2 Isolation Width: 1450.00
MS2 Isolation Offset: 0.00
AGC Target: 3000000
HCD Energy:
Analyzer Temperature: 27.06
=== Mass Calibration: NULL
Conversion Parameter B: 211820589.2896
Conversion Parameter C: -41163067.8349
Temperature Comp. (ppm): -2.35
RF Comp. (ppm): -0.09
Space Charge Comp. (ppm): -2.30
Resolution Comp. (ppm): 0.57
Number of Lock Masses: 0
Lock Mass #1 (m/z): 0.0000
Lock Mass #2 (m/z): 0.0000
Lock Mass #3 (m/z): 0.0000
LM Search Window (ppm): 0.0
LM Search Window (mmu): 0.0
Number of LM Found: 0
Last Locking (sec): 0.0
LM m/z-Correction (ppm): 0.00
=== Ion Optics Settings: NULL
S-Lens RF Level: 40.00
S-Lens Voltage (V): 21.00
Skimmer Voltage (V): 15.00
Inject Flatapole Offset (V): 5.00
Bent Flatapole DC (V): 2.00
MP2 and MP3 RF (V): 900.00
Gate Lens Voltage (V): 2.25
C-Trap RF (V): 2400.0
==== Diagnostic Data: NULL
Dynamic RT Shift (min): 0.00
Intens Comp Factor: 1.4281
Res. Dep. Intens: 0.981
CTCD NumF: 0
CTCD Comp: 1.009
CTCD ScScr: 0.844
RawOvFtT: 2378645.5
LC FWHM parameter: 15.0
Rod: 0
PS Inj. Time (ms): 0.640
AGC PS Mode: 1
AGC PS Diag: 3501800
HCD Energy eV: 0.000
AGC Fill: 0.76
Injection t0: -0.071
t0 FLP: 355.07
Access Id: 0
Analog Input 1 (V): 0.000
Analog Input 2 (V): 0.000
Total Ion Current: 78725448
Scan Low Mass: 350
Scan High Mass: 1800
Scan Start Time (Min): 0
Scan Number: 1
Base Peak Intensity: 5979308
Base Peak Mass: 445.1181
Scan Mode: FTMS + c NSI Full ms [350.0000-1800.0000]
XIC generated from sample.raw consisting of 27 data points.
Filter : ms
m/z : 445.1181
Tolerance : 10 ppm
RT : 0.001619751 - 0.7801059 s
[ FAIL 0 | WARN 4 | SKIP 0 | PASS 175 ]
[ FAIL 0 | WARN 4 | SKIP 0 | PASS 175 ]
>
> proc.time()
user system elapsed
6.51 1.20 18.68
rawrr.Rcheck/rawrr-Ex.timings
| name | user | system | elapsed | |
| basePeak | 0.01 | 0.02 | 0.50 | |
| dependentScan | 0.00 | 0.00 | 0.52 | |
| faimsVoltageOn | 0.00 | 0.01 | 0.54 | |
| installRawFileReaderDLLs | 0 | 0 | 0 | |
| is.rawrrChromatogram | 0.00 | 0.02 | 0.53 | |
| is.rawrrSpectrum | 0.00 | 0.01 | 0.55 | |
| is.rawrrSpectrumSet | 0.02 | 0.00 | 0.58 | |
| makeAccessor | 0.00 | 0.00 | 0.47 | |
| massRange | 0.02 | 0.02 | 0.58 | |
| masterScan | 0.01 | 0.00 | 0.39 | |
| plot.rawrrChromatogram | 0.00 | 0.00 | 0.64 | |
| rawrrAssemblyPath | 0 | 0 | 0 | |
| rawrrSpectrum | 0.02 | 0.00 | 0.01 | |
| readChromatogram | 5.75 | 1.30 | 13.35 | |
| readFileHeader | 0.00 | 0.00 | 0.46 | |
| readIndex | 0.01 | 0.01 | 0.63 | |
| readSpectrum | 1.63 | 0.17 | 9.08 | |
| sampleFilePath | 0 | 0 | 0 | |
| scanNumber | 0.00 | 0.02 | 0.48 | |
| summary.rawrrChromatogram | 0.00 | 0.00 | 0.61 | |
| tic | 0.00 | 0.00 | 0.47 | |
| validate_rawrrIndex | 0.00 | 0.05 | 0.64 | |