[Bioc-devel] Fwd: TissueEnrich problems reported in the Multiple platform build/check report for BioC 3.9

Shepherd, Lori Lor|@Shepherd @end|ng |rom Ro@we||P@rk@org
Tue Sep 17 13:49:22 CEST 2019

I am able to reproduce the ERROR.  It seems to be an issue of trying to subset.

> head(exp %>% gather(Tissue))
          Tissue             value
1 Adipose Tissue  1.63226821549951
2 Adipose Tissue                 0
3 Adipose Tissue                 0
4 Adipose Tissue 0.485426827170242
5 Adipose Tissue 0.584962500721156
6 Adipose Tissue  3.05311133645956
> head(exp %>% gather(Tissue=1:(ncol(exp)-1)))
Error: 1 components of `...` had unexpected names.

We detected these problematic arguments:
* `Tissue`

Did you misspecify an argument?
Call `rlang::last_error()` to see a backtrace


You can see if there were any recent changes to package you depend on that could have caused this.  A package you depend on may have changed their functionality.  I needed to update packages (with BiocManager::install()   update all )  in order to reproduce.


Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Ashish Jain <jain using iastate.edu>
Sent: Monday, September 16, 2019 3:08 PM
To: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: [Bioc-devel] Fwd: TissueEnrich problems reported in the Multiple platform build/check report for BioC 3.9

Hi All,

I just got the message that my package is giving an error during the build
process on Bioconductor build server. I saw the logs and found it is
failing while building the vignette. I am not sure why it's happening as I
have not updated the package since release and it was building without any
errors. Can someone look into this?

Ashish Jain

---------- Forwarded message ---------
From: <BBS-noreply using bioconductor.org>
Date: Mon, Sep 16, 2019 at 1:59 PM
Subject: TissueEnrich problems reported in the Multiple platform
build/check report for BioC 3.9
To: <jain using iastate.edu>

[This is an automatically generated email. Please don't reply.]

Hi TissueEnrich maintainer,

According to the Multiple platform build/check report for BioC 3.9,
the TissueEnrich package has the following problem(s):

  o ERROR for 'R CMD build' on malbec2. See the details here:


Please take the time to address this by committing and pushing
changes to your package at git.bioconductor.org


  * This was the status of your package at the time this email was sent to
    Given that the online report is updated daily (in normal conditions) you
    could see something different when you visit the URL(s) above,
especially if
    you do so several days after you received this email.

  * It is possible that the problems reported in this report are false
    either because another package (from CRAN or Bioconductor) breaks your
    package (if yours depends on it) or because of a Build System problem.
    If this is the case, then you can ignore this email.

  * Please check the report again 24h after you've committed your changes
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Thanks for contributing to the Bioconductor project!

Ashish Jain
Ph.D. Candidate
Bioinformatics and Computational Biology
Iowa State University
Ph +1-317-529-7973
Website: *https://ashishjain1988.github.io

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