Question: Can't Rsync bacterial genomes
gravatar for gkuffel22
20 months ago by
United States
gkuffel22170 wrote:

Hi everyone,

I have a local instance of Galaxy. I am trying to grab some of the reference genomes as they appear on the public instance. I have successfully downloaded Rat and PhiX using the Rsync command. Could someone tell me why I cannot grab other bacterial genomes like Staph aureus. I used the command below:

rsync -avzP rsync://

I get the following error:

receiving incremental file list rsync: link_stat "/63" (in indexes) failed: No such file or directory (2)

sent 4 bytes received 6 bytes 1.05 bytes/sec total size is 0 speedup is 0.00 rsync error: some files/attrs were not transferred (see previous errors) (code 23) at main.c(1505) [receiver=3.0.6]

galaxy rsync genomes • 441 views
ADD COMMENTlink modified 20 months ago by Jennifer Hillman Jackson25k • written 20 months ago by gkuffel22170
gravatar for Jennifer Hillman Jackson
20 months ago by
United States
Jennifer Hillman Jackson25k wrote:


Most of the bacterial genomes are nested within a directory named "microbes". Use this path instead:

rsync -avzP rsync:// .

I updated the Galaxy hub to include this clarification in the help. The page should update shortly with the new information:

Good question, thanks for posting!

Jen, Galaxy team

ADD COMMENTlink written 20 months ago by Jennifer Hillman Jackson25k
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