Is there a command that might help to transfer a BAM file to a website? Thank you
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What sort of transfer? Uploading a bam file to a tool/site (e.g. galaxy) or uploading it to a web location so it becomes available for others to download.
For the latter, you would need to be able to access the backend server (so you can upload the file via scp/sftp). You will need an account on the server in question.
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It is the latter of the two (transfer to site to download from). Would lftp work?
3 files are put in a folder named "test" (BAM ~20GB, VCF, and coverage analysis) then zipped using:
Code:tar -zcf /path/to/file.tar.gz -C /Desktop/test
Code:lftp https://something.sharefile.com/login.aspx lftp https://something.sharefile.com/login.aspx:~> user xxxxxx Password: xxxxxxx lftp https://something.sharefile.com/login.aspx:~> mirror -R /home/dnascopeV/Desktop/Test
Code:lftp https://something.sharefile.com/login.aspx:~> ls
Code:wget --http-user cmccabe --http -passwd xxxx*** https://something.sharefile.com/login.aspx -O - | tar -zxf -
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