[Bioc-devel] Change in BSgenome.Hsapiens.UCSC.hg19_1.4.0.tar.gz

Janssen-10, R.R.E. R.R.E.Janssen-10 at umcutrecht.nl
Sun Jul 30 12:28:44 CEST 2017


So, are you absolutely sure nothing has changed in this package?
I can still reproduce the hash mismatch.

In GNU Guix, the SHA256 hash is computed when the tarball is downloaded by the person who adds or changes the package. So at some point, the tarball was different (at least to to package maintainer).

The MD5 hashes you provided are the *current* hashes and does not say anything about the history of these files.
What is their last modification date?


Kind regards,
Roel Janssen

From: Hervé Pagès [hpages at fredhutch.org]
Sent: Sunday, July 23, 2017 7:44 PM
To: Vincent Carey; Janssen-10, R.R.E.
Cc: bioc-devel at r-project.org
Subject: Re: [Bioc-devel] Change in BSgenome.Hsapiens.UCSC.hg19_1.4.0.tar.gz


BSgenome.Hsapiens.UCSC.hg19_1.4.0.tar.gz was added to Bioconductor
in BioC 3.0 and has not changed since then. At least not on
master.bioconductor.org. These are the MD5 hashes of the tarball
for each version of BioC on master.bioconductor.org:

ubuntu at ip-172-30-4-20:/extra/www/bioc/packages$ md5sum


On 07/23/2017 04:31 AM, Vincent Carey wrote:
> I can't reproduce this.  Did you get
> 688,190,187
> bytes in your tar.gz?  Could it be an incomplete transfer?
> On Sat, Jul 22, 2017 at 5:47 PM, Janssen-10, R.R.E. <
> R.R.E.Janssen-10 at umcutrecht.nl> wrote:
>> Hello,
>> It seems that the tarball BSgenome.Hsapiens.UCSC.hg19_1.4.0.tar.gz has
>> changed, without a change in version:
>>  From https://urldefense.proofpoint.com/v2/url?u=http-3A__www.bioconductor.org_packages_release_data_&d=DwICAg&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=sS7Y9rGFRoKmYrCl4y_IWoYFjj7HImCxWm4hYXClAZc&s=_ruyoTPdHqKb8FyuBLOAVMyZk_8tT1Wc8evh6fGTY2Y&e=
>> annotation/src/contrib/BSgenome.Hsapiens.UCSC.hg19_1.4.0.tar.gz...
>>   ...SC.hg19_1.4.0.tar.gz  656.3MiB  5.6MiB/s 01:58 [####################]
>> 100.0%
>> sha256 hash mismatch for output path `/gnu/store/
>> ml0l7hbplvnxssjcgbwzi8cnmcmnsypi-BSgenome.Hsapiens.UCSC.hg19_1.4.0.tar.gz'
>>    expected: 0479qx4bapgcp5chj10a63chk0s28x9cx1gamz3f5m3yd7jzwcf2
>>    actual:   1y0nqpk8cw5a34sd9hmin3z4v7iqm6hf6l22cl81vlbxqbjibxc8
>> What has changed here, and why hasn't the version number been updated
>> accordingly?
>> Kind regards,
>> Roel Janssen
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Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
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