Qiang Hu
| Snapshot Date: 2019-10-20 17:01:46 -0400 (Sun, 20 Oct 2019) |
| URL: https://git.bioconductor.org/packages/RcwlPipelines |
| Branch: master |
| Last Commit: 84405e7 |
| Last Changed Date: 2019-10-11 15:09:15 -0400 (Fri, 11 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2019-10-21 12:41:57 -0400 (Mon, 21 Oct 2019).
| Package 1373/1800 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| RcwlPipelines 1.1.13 Qiang Hu
| malbec1 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | ERROR | skipped | skipped | |||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: RcwlPipelines |
| Version: 1.1.13 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL RcwlPipelines |
| StartedAt: 2019-10-20 19:34:23 -0400 (Sun, 20 Oct 2019) |
| EndedAt: 2019-10-20 19:38:36 -0400 (Sun, 20 Oct 2019) |
| EllapsedTime: 253.2 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL RcwlPipelines
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* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
* installing *source* package 'RcwlPipelines' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
c:\python27\lib\site-packages\cwltool\__init__.py:17: CWLToolDeprecationWarning:
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020.
Please upgrade your Python as the Python 2.7 version of cwltool won't be
maintained after that date.
""", category=CWLToolDeprecationWarning)
** help
*** installing help indices
converting help for package 'RcwlPipelines'
finding HTML links ... done
AnnPhaseVcf html
BaseRecal html
BedToIntervalList html
CalculateContamination html
ColSeqArtifact html
CombineVariants html
DepthOfCoverage html
FilterMutectCalls html
FilterOBias html
Funcotator html
GAlign html
GPoN html
GenomicsDB html
GetPileupSummaries html
LoFreq html
MuSE html
Mutect2 html
Mutect2PL html
PoN html
RSeQC html
RcwlPipelines html
ReadBackedPhasing html
RenameSampleInVcf html
STAR html
SamToFastq html
SomaticCallers html
SomaticSniper html
SortVcf html
VarDict html
VarScan2Somatic html
VarScan2_processSomatic html
VarScan2_somatic html
VarScan2_somaticFilter html
alignMerge html
annovar html
bam_readcount html
bcfview html
bgzip html
blastn html
bowtie2 html
bowtie2_build html
bowtie_build html
bwa html
bwaAlign html
bwaMMRecal html
bwaMRecal html
bwa_index html
cnvkit_batch html
cutadapt html
cwlTools html
fastqc html
featureCounts html
geneBody_coverage html
genePredToBed html
gtfToGenePred html
hapCall html
hisat2_align html
hisat2_build html
htseq html
jdCall html
kallisto_index html
kallisto_quant html
lancet html
makeblastdb html
manta html
mantaStrelka html
markdup html
mergeBam html
mergeBamDup html
miRDeep2 html
miRDeep2PL html
miRMapper html
multiqc html
mvOut html
neusomatic html
phaseVcf html
polysolver html
pvacseq html
read_distribution html
rnaseq_Sf html
runWDL html
salmon_index html
salmon_quant html
sam2bam html
samtools_flagstat html
samtools_index html
samtools_mpileup html
sortBam html
starFusion html
strelka html
tabix_index html
vcfCoverage html
vcfExpression html
vcf_expression_annotator html
vcf_readcount_annotator html
vep html
vt_decompose html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
*** arch - i386
c:\python27\lib\site-packages\cwltool\__init__.py:17: CWLToolDeprecationWarning:
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020.
Please upgrade your Python as the Python 2.7 version of cwltool won't be
maintained after that date.
""", category=CWLToolDeprecationWarning)
*** arch - x64
c:\python27\lib\site-packages\cwltool\__init__.py:17: CWLToolDeprecationWarning:
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020.
Please upgrade your Python as the Python 2.7 version of cwltool won't be
maintained after that date.
""", category=CWLToolDeprecationWarning)
** testing if installed package can be loaded from final location
*** arch - i386
c:\python27\lib\site-packages\cwltool\__init__.py:17: CWLToolDeprecationWarning:
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020.
Please upgrade your Python as the Python 2.7 version of cwltool won't be
maintained after that date.
""", category=CWLToolDeprecationWarning)
*** arch - x64
c:\python27\lib\site-packages\cwltool\__init__.py:17: CWLToolDeprecationWarning:
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020.
Please upgrade your Python as the Python 2.7 version of cwltool won't be
maintained after that date.
""", category=CWLToolDeprecationWarning)
** testing if installed package keeps a record of temporary installation path
* DONE (RcwlPipelines)
Making 'packages.html' ... done