Case Studies Data Missing in Rsubread
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J-E • 0
@82bf0bc5
Last seen 9 weeks ago
United States

The Rsubread/Subread Users Guide file contains Case Studies (p 56) that requires data (reads generated by the MAQC/SEQC Consortium and reference sequence of chr1 human genome) to be downloaded from this website: http://bioinf.wehi.edu.au/RNAseqCaseStudy/data.tar.gz The link is broken. Could you please update or provide an alternative source? Thanks

Rsubread • 424 views
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@gordon-smyth
Last seen 40 minutes ago
WEHI, Melbourne, Australia

Unfortunately we decommissioned the old http://bioinf.wehi.edu.au server last year after 20 years of service. Our new https://bioinf.wehi.edu.au server is more secure but has a much smaller disk footprint than the old server and the RNAseqCaseStudy was too large to be transferred. I will confer with Wei Shi and figure out what we can do.

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Wei Shi ★ 3.5k
@wei-shi-2183
Last seen 7 weeks ago
Australia/Melbourne/Olivia Newton-John …

Thank you for reporting this J-E. You can download this dataset from the following link - http://subread.sourceforge.net/data.tar.gz . The users guide will be updated shortly as well.

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Thanks, but still unable to download:

wget http://subread.sourceforge.net/data.tar.gz --2022-05-03 21:33:22-- http://subread.sourceforge.net/data.tar.gz Resolving subread.sourceforge.net (subread.sourceforge.net)... 204.68.111.100 Connecting to subread.sourceforge.net (subread.sourceforge.net)|204.68.111.100|:80... connected. HTTP request sent, awaiting response... 410 Gone 2022-05-03 21:33:23 ERROR 410: Gone.

SourceForge says: The Files on SourceForge.net Project Web sites are limited to a max size. The file requested is too large. If you are the project administrator, you should host your large files using the File Release Service, not Project Web. Contact SourceForge.net support for assistance.

Thanks

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Sorry about this. I thought it works because it has been there for a long time ... We have created a new link for download - https://latrobeuni-my.sharepoint.com/:u:/g/personal/yliao_ltu_edu_au/ESba1-VojYlMlQHVXxfc1d4BrONjXa_1qd4e1qz97tIe-w?e=nnYXyV . I have tested it and it works.

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Thanks Wei,

I now could download the data and have successfully run the Case Study example from the User Guide. ;-)

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