[Bioc-devel] Issue removing large data files from git history

Nitesh Turaga ntur@g@@b|oc @end|ng |rom gm@||@com
Fri Feb 26 21:39:47 CET 2021


This means that BFG cleaner didn't get rid of all the files. You can trace back the .pack file to a commit in your git log.

You can follow something like this post on github, https://github.com/18F/C2/issues/439 to find which file relates to the .pack file you mention.



On 2/24/21, 12:26 PM, "Bioc-devel on behalf of Murphy, Alan E" <bioc-devel-bounces using r-project.org on behalf of a.murphy using imperial.ac.uk> wrote:


    I have recently moved my data to an ExperimentHub package and thus need to clean my statistical package's git history. I followed the guides from both the Bioconductor help page and BFG cleaner pages:


    These appeared to have worked, I set the limit to 5MB and pushed the changes. Now when I run the clean-up I get the following message:

    Warning : no large blobs matching criteria found in packfiles - does the repo need to be packed?

    So it appears nothing remains over the 5MB size but when I locally run BiocCheck() the warning message persists:

    WARNING: The following files are over 5MB in size:      '.git/objects/pack/pack-bb385fcbe4bf53b933abe467a62cd836461ac322.pack'

    Does anyone have experience dealing with an issue like this? The repository is in the following location if anyone is curious:


    Kind regards,

    Alan Murphy
    Neurogenomics lab
    UK Dementia Research Institute
    Imperial College London

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