[Bioc-devel] build error only occurs in window system

Dan Tenenbaum dtenenba at fredhutch.org
Thu Jul 7 21:15:15 CEST 2016

Don't bother. The issue is a long-standing one and very difficult to reproduce which is why it has not been fixed. It happens sporadically so the solution is to wait for the next day's build and it will clear itself up.


On July 7, 2016 11:05:22 AM PDT, "Ou, Jianhong" <Jianhong.Ou at umassmed.edu> wrote:
>Hi Julie,
>You could try to install windows 10 in a virtualBox for debugging.
>virtualBox: https://www.virtualbox.org/wiki/Downloads
>Windows 10:
>Yours Sincerely,
>Jianhong Ou
>TEL: 508-856-5379
>LRB 608
>Bioinformatician of Bioinformatics core at
>Department of Molecular, Cell and Cancer Biology
>UMASS Medical School
>364 Plantation Street Worcester,
>MA 01605
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>On 7/7/16 1:15 PM, "Bioc-devel on behalf of Zhu, Lihua (Julie)"
><bioc-devel-bounces at r-project.org on behalf of Julie.Zhu at umassmed.edu>
>>I recently noticed that GUIDEseq page has a error build status at
>>the error only occurs in the window server.
>>Is this something related to the window server solvable by the core
>>or should I change something to make it work? I am preparing a
>>manuscript. It would  not look good if the reviewers see a red error
>>status on the page.
>>Could you please help me? Many thanks!
>>Best regards,
>> running command 
>>e" --quiet --pdf "GUIDEseq.tex" --max-iterations=20 -I
>>"E:/biocbld/bbs-3.3-bioc/R/share/texmf/tex/latex" -I
>>"E:/biocbld/bbs-3.3-bioc/R/share/texmf/bibtex/bst"' had status 1
>>Error in find_vignette_product(name, by = "texi2pdf", engine = engine)
>>  Failed to locate the 'texi2pdf' output file (by engine
>>for vignette with name 'GUIDEseq'. The following files exist in
>>'.': 'GUIDEseq-concordance.tex', 'GUIDEseq.Rnw', 'GUIDEseq.tex',
>>'gRNA-PlusMinusPeaksMerged.bed', 'gRNA-PlusMinusPeaksMerged.xls',
>>'gRNA-peaks.xls', 'gRNAHEK293_site4_chr13.bamReadSummary.xls',
>>'mergedPeaks.bed', 'offTargetsInPeakRegions.xls'
>>Calls: <Anonymous> -> find_vignette_product
>>Execution halted
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