[Bioc-devel] New submission with GitHub LFS

Carles Hernández carles.hernandez at isglobal.org
Wed Aug 16 15:52:18 CEST 2017

Dear BioC,

Some months ago I sent a package to be reviewed by Bioconductor.

One of the suggestions of the reviewer of my package "omicRexposome" was to
move the data from the package to an additional data package. Hence I
created a GitHub LFS repository to create this data package and included as
"AdditionalPackage" on the review of "omicRexposome".

The failed report indicates that:

*** moving datasets to lazyload DB
> Warning: file brge_expo.rda has magic number 'versi'
>   Use of save versions prior to 2 is deprecated
> Error in load(zfile, envir = envir) :
>   bad restore file magic number (file may be corrupted) -- no data loaded
> ERROR: lazydata failed for package BRGEdata
> * removing /private/var/folders/4v/hj3ybtnn2m1cgkmyz3dx0x8h0000gq/T/RtmpVbZjqg/Rinst182453cb39705/BRGEdata
>       -----------------------------------
> ERROR: package installation failed
I suspect that the problem is raised due to the format of the GitHub's
repository, in other words, being a LFS repository. Hence, the clone
command is not working properly, cloning an empty package:

*PackageFileSize*: -1.00 KiB <http://en.wikipedia.org/wiki/KiB> *BuildID:*:
> brgedata_20170718142047

How can I solve this situation?

Kind regards,

Carles Hernandez-Ferrer
Bioinformatic Analyst / PhD Student
Barcelona Institute for Global Health - Campus Mar
Barcelona Biomedical Research Park (PRBB) (office 183.01 A)
Doctor Aiguader, 88
08003 Barcelona, Spain
Tel. +34 93 214 73 22
carles.hernandez at isglobal.org
www.isglobal.org | www.carleshf.com

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